Actinosynnema_NPDC023815 - 47 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NPDC023815.ctg-0001 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	deazapurine	11,826	38,501	High	huimycin	other:other
Region 1.2	azole-containing-RiPP	67,373	96,841
Region 1.3	oligosaccharide	108,392	152,049
Region 1.4	terpene-precursor	197,161	218,201
Region 1.5	terpene,NRP-metallophore,NRPS	229,442	298,588	High	azetidomonamide A/azetidomonamide B	NRPS:Type I
Region 1.6	indole	572,023	593,117
Region 1.7	T1PKS	1,304,897	1,350,275	Low	calicheamicin	PKS

NPDC023815.ctg-0002 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	T1PKS	6,659	50,030
Region 2.2	NRPS,arylpolyene	75,108	184,458	High	coprisamide C/coprisamide D	NRPS:Type I
Region 2.3	NRPS,HR-T2PKS	202,607	269,586	Low	colibrimycin	NRPS:Type I+other:other
Region 2.4	RiPP-like	284,800	296,698
Region 2.5	opine-like-metallophore	411,124	433,242	Low	bacillopaline	other:other
Region 2.6	NRPS	465,661	513,319
Region 2.7	NRP-metallophore,NRPS,RRE-containing,T1PKS,azole-containing-RiPP	530,377	656,673	High	mirubactin	NRPS:Type I
Region 2.8	terpene	731,011	752,150

NPDC023815.ctg-0003 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	terpene	52,126	74,333	High	geosmin	terpene:Sesquiterpene
Region 3.2	lanthipeptide-class-iii	445,161	467,707	Medium	Ery-9/Ery-6/Ery-8/Ery-7/Ery-5/Ery-4/Ery-3	ribosomal:RiPP:Lanthipeptide
Region 3.3	terpene-precursor	540,283	561,350	Low	isorenieratene	terpene

NPDC023815.ctg-0004 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 4.1	azole-containing-RiPP,lanthipeptide-class-iii	317,690	352,912

NPDC023815.ctg-0005 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 5.1	melanin	197,137	207,565
Region 5.2	oligosaccharide,PKS-like,T1PKS	243,825	303,684
Region 5.3	T1PKS	304,805	372,410	Low	camporidine A/camporidine B	other:other+PKS
Region 5.4	NRPS,NRPS-like,T1PKS,hglE-KS,T3PKS	395,044	563,162	Low	scopranone A/scopranone B/scopranone C	PKS

NPDC023815.ctg-0006 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 6.1	redox-cofactor	166,976	189,012	Low	lankacidin C	NRPS:Type I+PKS

NPDC023815.ctg-0008 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 8.1	terpene	1	12,297
Region 8.2	NI-siderophore	107,189	140,452	Low	speibonoxamine/desoxy-desferrioxamine D1/desferrioxamine D1/desferrioxamine B/didesoxy-desferrioxamine D1/desoxy-desferrioxamine B/didesoxy-desferrioxamine B	other:other
Region 8.3	lanthipeptide-class-ii	196,556	219,396

NPDC023815.ctg-0010 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 10.1	NRPS,T1PKS	1	202,083	Low	tripartilactam/niizalactam C	PKS
Region 10.2	RiPP-like	204,612	216,453
Region 10.3	indole	216,767	238,424	Low	borregomycin A/borregomycin B/borregomycin C/borregomycin D	other:other

NPDC023815.ctg-0012 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 12.1	lassopeptide	194,913	217,473

NPDC023815.ctg-0014 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 14.1	T1PKS,terpene	37,843	91,735

NPDC023815.ctg-0015 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 15.1	NRPS	1	25,624	Low	azicemicin B	PKS

NPDC023815.ctg-0016 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 16.1	T1PKS	89,079	136,554

NPDC023815.ctg-0017 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 17.1	RRE-containing	1	13,924
Region 17.2	RRE-containing	41,879	64,935

NPDC023815.ctg-0018 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 18.1	T1PKS	31,341	103,038	Medium	Neoabyssomicin B/Abyssomicin 2/Abyssomicin 4	PKS

NPDC023815.ctg-0021 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 21.1	T2PKS	18,689	91,171	High	saccharothrixin D/saccharothrixin E/saccharothrixin F/saccharothrixin G/saccharothrixin H/saccharothrixin I/saccharothrixin J/saccharothrixin K/saccharothrixin L/saccharothrixin M	PKS

NPDC023815.ctg-0022 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 22.1	T1PKS	1	41,629	Low	scopranone A/scopranone B/scopranone C	PKS
Region 22.2	NAPAA	45,014	78,805	High	ε-Poly-L-lysine	NRPS:Type I

NPDC023815.ctg-0023 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 23.1	lanthipeptide-class-i,NRPS,T1PKS	32,828	96,365	Low	combamide	NRPS:Type I+PKS

NPDC023815.ctg-0025 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 25.1	terpene-precursor	1	12,568

NPDC023815.ctg-0026 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 26.1	phosphonate	62,572	84,882

NPDC023815.ctg-0033 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 33.1	T1PKS,NRPS,PKS-like	1	51,108

NPDC023815.ctg-0036 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 36.1	RiPP-like	5,602	16,399

NPDC023815.ctg-0037 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 37.1	T1PKS,NRPS	12,293	52,431

NPDC023815.ctg-0050 (Genus species)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 50.1	NRPS	1	6,021

No secondary metabolite regions were found in these records:: NPDC023815.ctg-0007 (Genus species); NPDC023815.ctg-0009 (Genus species); NPDC023815.ctg-0011 (Genus species); NPDC023815.ctg-0013 (Genus species); NPDC023815.ctg-0019 (Genus species); NPDC023815.ctg-0020 (Genus species); NPDC023815.ctg-0024 (Genus species); NPDC023815.ctg-0027 (Genus species); NPDC023815.ctg-0028 (Genus species); NPDC023815.ctg-0029 (Genus species); NPDC023815.ctg-0030 (Genus species); NPDC023815.ctg-0031 (Genus species); NPDC023815.ctg-0032 (Genus species); NPDC023815.ctg-0034 (Genus species); NPDC023815.ctg-0035 (Genus species); NPDC023815.ctg-0038 (Genus species); NPDC023815.ctg-0039 (Genus species); NPDC023815.ctg-0040 (Genus species); NPDC023815.ctg-0041 (Genus species); NPDC023815.ctg-0042 (Genus species); NPDC023815.ctg-0043 (Genus species); NPDC023815.ctg-0044 (Genus species); NPDC023815.ctg-0045 (Genus species); NPDC023815.ctg-0046 (Genus species); NPDC023815.ctg-0047 (Genus species); NPDC023815.ctg-0048 (Genus species); NPDC023815.ctg-0049 (Genus species); NPDC023815.ctg-0051 (Genus species); NPDC023815.ctg-0052 (Genus species); NPDC023815.ctg-0053 (Genus species); NPDC023815.ctg-0054 (Genus species); NPDC023815.ctg-0055 (Genus species); NPDC023815.ctg-0056 (Genus species); NPDC023815.ctg-0057 (Genus species); NPDC023815.ctg-0058 (Genus species); NPDC023815.ctg-0059 (Genus species); NPDC023815.ctg-0060 (Genus species); NPDC023815.ctg-0061 (Genus species); NPDC023815.ctg-0062 (Genus species); NPDC023815.ctg-0063 (Genus species); NPDC023815.ctg-0064 (Genus species); NPDC023815.ctg-0065 (Genus species); NPDC023815.ctg-0066 (Genus species); NPDC023815.ctg-0067 (Genus species); NPDC023815.ctg-0068 (Genus species); NPDC023815.ctg-0069 (Genus species); NPDC023815.ctg-0070 (Genus species); NPDC023815.ctg-0071 (Genus species); NPDC023815.ctg-0072 (Genus species); NPDC023815.ctg-0073 (Genus species); NPDC023815.ctg-0074 (Genus species); NPDC023815.ctg-0075 (Genus species); NPDC023815.ctg-0076 (Genus species); NPDC023815.ctg-0077 (Genus species); NPDC023815.ctg-0078 (Genus species); NPDC023815.ctg-0079 (Genus species); NPDC023815.ctg-0080 (Genus species); NPDC023815.ctg-0081 (Genus species); NPDC023815.ctg-0082 (Genus species); NPDC023815.ctg-0083 (Genus species); NPDC023815.ctg-0084 (Genus species); NPDC023815.ctg-0085 (Genus species); NPDC023815.ctg-0086 (Genus species); NPDC023815.ctg-0087 (Genus species); NPDC023815.ctg-0088 (Genus species); NPDC023815.ctg-0089 (Genus species); NPDC023815.ctg-0090 (Genus species); NPDC023815.ctg-0091 (Genus species); NPDC023815.ctg-0092 (Genus species); NPDC023815.ctg-0093 (Genus species); NPDC023815.ctg-0094 (Genus species)

Compact view

NPDC023815.ctg-0001 - Region 1 - deazapurine

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Location: 11,826 - 38,501 nt. (total: 26,676 nt) Show pHMM detection rules used

deazapurine: (GTP_cyclohydroI and PTPS and QueE and QueC and not (dpdA1 or bTGT))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase oxygenase

JLDCGCHE_00037: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_00038: NADH:flavin oxidoreductase/NADH oxidase

smcogs: SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

Transferases: glycosyltransferase methyltransferase

JLDCGCHE_00025: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

JLDCGCHE_00035: methyltransferase

smcogs: SMCOG1089: methyltransferase

Lyases: dehydratase

JLDCGCHE_00029: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

JLDCGCHE_00030: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase

JLDCGCHE_00020: cobalamin synthesis protein/P47K family protein

smcogs: SMCOG1178: cobalamin synthesis protein/P47K family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002354.4	0.76	other (other)	huimycin	Kutzneria albida DSM 43870
BGC0001937.4	0.57	other (other)	tubercidin	Streptomyces tubercidicus
BGC0001808.5	0.55	other (other)	toyocamycin	Streptomyces diastatochromogenes
BGC0000881.3	0.55	other (other)	toyocamycin	Streptomyces ahygroscopicus subsp. wuzhouensis
BGC0001217.5	0.54	other (other)	PreQ0 Base	Streptomyces qinglanensis
BGC0000802.5	0.52	saccharide	succinoglycan	Sinorhizobium meliloti
BGC0000786.3	0.45	saccharide	O-antigen	Edwardsiella ictaluri 93-146
BGC0000898.5	0.45	saccharide	desosamine, pikromycin, neomethymycin, narbomycin	Streptomyces venezuelae
BGC0000777.3	0.45	saccharide	lipopolysaccharide	Escherichia coli
BGC0000813.3	0.45	other (other)	K-252a	Nonomuraea longicatena

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002354.4	0.76	other (other)	huimycin	Kutzneria albida DSM 43870
BGC0001937.4	0.57	other (other)	tubercidin	Streptomyces tubercidicus
BGC0001808.5	0.55	other (other)	toyocamycin	Streptomyces diastatochromogenes
BGC0000881.3	0.55	other (other)	toyocamycin	Streptomyces ahygroscopicus subsp. wuzhouensis
BGC0001217.5	0.54	other (other)	PreQ0 Base	Streptomyces qinglanensis
BGC0000802.5	0.52	saccharide	succinoglycan	Sinorhizobium meliloti
BGC0000786.3	0.45	saccharide	O-antigen	Edwardsiella ictaluri 93-146
BGC0000898.5	0.45	saccharide	desosamine, pikromycin, neomethymycin, narbomycin	Streptomyces venezuelae
BGC0000777.3	0.45	saccharide	lipopolysaccharide	Escherichia coli
BGC0000813.3	0.45	other (other)	K-252a	Nonomuraea longicatena

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.91 out of 19.26

Confidence: medium

Additional weak hits (10):

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.99 out of 36.53

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.99 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.64 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.84 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.53 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.67 out of 28.19

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.86 out of 19.52

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.19 out of 35.63

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 28.19

Confidence: weak

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NPDC023815.ctg-0001 - Region 2 - azole-containing-RiPP

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Location: 67,373 - 96,841 nt. (total: 29,469 nt) Show pHMM detection rules used

azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000606.5	0.56	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001174.4	0.47	ribosomal	corynazolicin	Corynebacterium urealyticum DSM 7111
BGC0001146.5	0.47	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001640.3	0.46	ribosomal	kocurin	Kocuria rosea
BGC0000569.5	0.46	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0001145.5	0.45	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0000605.5	0.45	ribosomal	GE37468	Streptomyces sp. ATCC 55365
BGC0002013.4	0.44	ribosomal	curacozole	Streptomyces curacoi
BGC0000603.5	0.44	ribosomal	cyclothiazomycin	Streptomyces hygroscopicus
BGC0000613.5	0.43	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000606.5	0.56	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001174.4	0.47	ribosomal	corynazolicin	Corynebacterium urealyticum DSM 7111
BGC0001146.5	0.47	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001640.3	0.46	ribosomal	kocurin	Kocuria rosea
BGC0000569.5	0.46	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0001145.5	0.45	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0000605.5	0.45	ribosomal	GE37468	Streptomyces sp. ATCC 55365
BGC0002013.4	0.44	ribosomal	curacozole	Streptomyces curacoi
BGC0000603.5	0.44	ribosomal	cyclothiazomycin	Streptomyces hygroscopicus
BGC0000613.5	0.43	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.46 out of 20.47

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.42 out of 23.79

Confidence: medium

Additional weak hits (7):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.74 out of 26.33

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.94 out of 19.52

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.78 out of 29.25

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.45 out of 30.25

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.43 out of 29.65

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.81 out of 29.25

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

RREFinder

TFBS Finder

Azole RiPPs

RRE predictions

: RRE type: Thiopeptide_F_RRE; Location: 0 - 84; Score: 40.2

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

Core peptide predictions

No core peptides found.

NPDC023815.ctg-0001 - Region 3 - oligosaccharide

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Location: 108,392 - 152,049 nt. (total: 43,658 nt) Show pHMM detection rules used

oligosaccharide: (repeatable(3, [DUF1205, Glyco_transf_28, Glycos_transf_1, Glycos_transf_2, MGT]) and minscore(MGT, 150))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

JLDCGCHE_00129: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: glycosyltransferase methyltransferase

JLDCGCHE_00117: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

JLDCGCHE_00124: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

JLDCGCHE_00135: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

JLDCGCHE_00136: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

JLDCGCHE_00137: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Translocases: transport

JLDCGCHE_00133: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000277.5	0.50	PKS	urdamycin	Streptomyces fradiae
BGC0001525.3	0.46	other (other)	bartoloside B, bartoloside C, bartoloside D	Synechocystis salina LEGE 06155
BGC0002573.2	0.45	other (other)	phosphoramidon	Streptomyces mozunensis
BGC0001526.4	0.45	other (other)	bartoloside E, bartoloside F, bartoloside G, bartoloside H, bartoloside I, bartoloside J, bartoloside K	Synechocystis salina LEGE 06099
BGC0001475.4	0.43	terpene	aspterric acid	Aspergillus terreus NIH2624
BGC0001521.3	0.42	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000637.3	0.41	terpene	carotenoid	Corynebacterium glutamicum
BGC0002298.2	0.41	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001289.5	0.41	ribosomal	penisin	Paenibacillus ehimensis
BGC0001233.5	0.40	NRPS	feglymycin	Streptomyces sp. DSM 11171

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000277.5	0.50	PKS	urdamycin	Streptomyces fradiae
BGC0001525.3	0.46	other (other)	bartoloside B, bartoloside C, bartoloside D	Synechocystis salina LEGE 06155
BGC0002573.2	0.45	other (other)	phosphoramidon	Streptomyces mozunensis
BGC0001526.4	0.45	other (other)	bartoloside E, bartoloside F, bartoloside G, bartoloside H, bartoloside I, bartoloside J, bartoloside K	Synechocystis salina LEGE 06099
BGC0001475.4	0.43	terpene	aspterric acid	Aspergillus terreus NIH2624
BGC0001521.3	0.42	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000637.3	0.41	terpene	carotenoid	Corynebacterium glutamicum
BGC0002298.2	0.41	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001289.5	0.41	ribosomal	penisin	Paenibacillus ehimensis
BGC0001233.5	0.40	NRPS	feglymycin	Streptomyces sp. DSM 11171

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.39 out of 19.26

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.93 out of 23.05

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 24.01 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 24.01 out of 30.11

Confidence: medium

Additional weak hits (8):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.99 out of 36.54

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.01 out of 27.04

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.33 out of 29.38

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.26 out of 26.85

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.96 out of 30.25

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.87 out of 29.65

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
CelR	Cellobiose uptake repressor

NPDC023815.ctg-0001 - Region 4 - terpene-precursor

Download region GenBank file

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Location: 197,161 - 218,201 nt. (total: 21,041 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

JLDCGCHE_00190: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

JLDCGCHE_00199: 3-hydroxyisobutyrate dehydrogenase

smcogs: SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

JLDCGCHE_00205: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Ligases: synthetase

JLDCGCHE_00196: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002610.3	0.50	terpene	stellatic acid	Aspergillus stellatus
BGC0002162.3	0.50	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0000657.5	0.46	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0001528.4	0.43	terpene	betaestacin I, betaestacin II	Phoma betae
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000189.4	0.40	PKS	3-(2'-hydroxy-3'-oxo-4'-methylpentyl)-indole, 3-(2'-hydroxy-3'-oxo-4'-methylhexyl)-indole, 3-(2'-acetoxy-3'-oxo-4'-methylpentyl)-indole, 3-(2'-acetoxy-3'-oxo-4'-methylhexyl)-indole	Xenorhabdus bovienii SS-2004
BGC0000666.5	0.39	terpene	xiamycin A	Streptomyces sp. SCSIO 02999
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000664.5	0.38	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002610.3	0.50	terpene	stellatic acid	Aspergillus stellatus
BGC0002162.3	0.50	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0000657.5	0.46	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0001528.4	0.43	terpene	betaestacin I, betaestacin II	Phoma betae
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000189.4	0.40	PKS	3-(2'-hydroxy-3'-oxo-4'-methylpentyl)-indole, 3-(2'-hydroxy-3'-oxo-4'-methylhexyl)-indole, 3-(2'-acetoxy-3'-oxo-4'-methylpentyl)-indole, 3-(2'-acetoxy-3'-oxo-4'-methylhexyl)-indole	Xenorhabdus bovienii SS-2004
BGC0000666.5	0.39	terpene	xiamycin A	Streptomyces sp. SCSIO 02999
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000664.5	0.38	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

JLDCGCHE_00196: PT_FPPS_like

Domain 1 (60 - 344): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (7):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 19.21 out of 36.54

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.35 out of 21.55

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.04 out of 30.11

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.78 out of 25.88

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.48 out of 27.78

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.24 out of 27.04

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.28 out of 29.25

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description

NPDC023815.ctg-0001 - Region 5 - NRP-metallophore,NRPS,terpene

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Location: 229,442 - 298,588 nt. (total: 69,147 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)
NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

JLDCGCHE_00224: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

JLDCGCHE_00233: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

JLDCGCHE_00247: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

JLDCGCHE_00252: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_00256: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_00257: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acyltransferase methyltransferase

JLDCGCHE_00216: acyltransferase

smcogs: SMCOG1141: acyltransferase

JLDCGCHE_00225: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: hydrolase protease

JLDCGCHE_00220: metallo-beta-lactamase family protein

smcogs: SMCOG1170: metallo-beta-lactamase family protein

JLDCGCHE_00244: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

JLDCGCHE_00272: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: hydratase lyase

JLDCGCHE_00230: Nitrilase/cyanide hydratase and apolipoprotein

smcogs: SMCOG1294: Nitrilase/cyanide hydratase and apolipoprotein

JLDCGCHE_00273: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase synthase

JLDCGCHE_00254: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

JLDCGCHE_00258: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_00260: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.84	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001873.3	0.78	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0001833.4	0.74	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.73	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.73	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.71	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.71	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.73	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001873.3	0.71	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.69	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.69	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.69	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.68	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0001758.4	0.67	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
tetraterpene	C40 carotenoid		C40	unknown	unknown

Genes with terpene domains:

JLDCGCHE_00226: Lycopene_cycl

Domain 1 (4 - 95): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

JLDCGCHE_00227: Lycopene_cycl

Domain 1 (5 - 93): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

Transcription Factor Binding Sites

Binding sites found:

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.69 out of 21.55

Confidence: strong

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.19 out of 20.47

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.44 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.13 out of 36.53

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.00 out of 20.47

Confidence: medium

Additional weak hits (22):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.32 out of 26.33

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.71 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.33 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.80 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.02 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.51 out of 27.78

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.09 out of 30.22

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.29 out of 30.22

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.23 out of 20.97

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.74 out of 30.22

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.65 out of 31.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.44 out of 30.22

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.23 out of 20.97

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.17 out of 27.04

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.73 out of 33.14

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.22 out of 36.53

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.89 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.04 out of 28.14

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.41 out of 25.75

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.49 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.26 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.49 out of 28.19

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

Terpene

TFBS Finder

Predicted core structure(s)

For candidate cluster 5, location 229441 - 298588:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Ser - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 239561 - 298588:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Ser - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_00260: Ser - X

Search NORINE for peptide: strict or relaxed

AMP-binding (440..840): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWHFSLVDK
Nearest Stachelhaus code(s):: Ser DVWHFSLVDK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1470..1870): X

nrpys: Aze

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: pro (Pro)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DMQLVSQQVK
Nearest Stachelhaus code(s):: Aze DMQLVSQQVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

Glossary

No acronyms to display

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
ArcA	Repressor of carbon oxidation
DmdR1	Iron(II)-dependent repressor
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0001 - Region 6 - indole

Download region GenBank file

Download region SVG

Location: 572,023 - 593,117 nt. (total: 21,095 nt) Show pHMM detection rules used

indole: (indsynth or dmat or indole_PTase)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_00522: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_00523: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

JLDCGCHE_00529: 3-hydroxybutyryl-CoA dehydrogenase

smcogs: SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

Hydrolases: hydrolase

JLDCGCHE_00528: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Translocases: permease

JLDCGCHE_00526: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001294.5	0.54	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0001197.5	0.46	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001483.4	0.45	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0002128.3	0.42	other (other)	5-dimethylallylindole-3-acetonitrile	Streptomyces coelicolor A3(2)
BGC0001924.3	0.42	terpene	ascofuranone	Acremonium egyptiacum
BGC0002643.2	0.42	other (other)	aetokthonotoxin	Aetokthonos hydrillicola Thurmond2011
BGC0000667.3	0.42	terpene	PR-toxin	Penicillium roqueforti FM164
BGC0002404.2	0.41	other (other)	falcarindiol	Solanum lycopersicum
BGC0000706.3	0.40	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0001267.3	0.38	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001294.5	0.54	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0001197.5	0.46	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001483.4	0.45	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0002128.3	0.42	other (other)	5-dimethylallylindole-3-acetonitrile	Streptomyces coelicolor A3(2)
BGC0001924.3	0.42	terpene	ascofuranone	Acremonium egyptiacum
BGC0002643.2	0.42	other (other)	aetokthonotoxin	Aetokthonos hydrillicola Thurmond2011
BGC0000667.3	0.42	terpene	PR-toxin	Penicillium roqueforti FM164
BGC0002404.2	0.41	other (other)	falcarindiol	Solanum lycopersicum
BGC0000706.3	0.40	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0001267.3	0.38	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.37 out of 20.47

Confidence: strong

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.36 out of 19.26

Confidence: medium

Additional weak hits (4):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.08 out of 32.74

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.55 out of 32.93

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.30 out of 28.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.74 out of 28.19

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0001 - Region 7 - T1PKS

Download region GenBank file

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Location: 1,304,897 - 1,350,275 nt. (total: 45,379 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Select a gene to view the details available for it

Gene overview

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TFBS Finder

Pfam domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

JLDCGCHE_01196: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

Transferases: aminotransferase methyltransferase sulfhydrylase

JLDCGCHE_01174: O-succinylhomoserine sulfhydrylase

smcogs: SMCOG1168: O-succinylhomoserine sulfhydrylase

JLDCGCHE_01175: methyltransferase

smcogs: SMCOG1089: methyltransferase

JLDCGCHE_01176: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

JLDCGCHE_01180: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

Ligases: synthase

JLDCGCHE_01190: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000056.3	0.70	PKS	esperamicin	Actinomadura verrucosospora
BGC0001284.4	0.57	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002191.2	0.56	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001273.3	0.56	PKS	asperlactone	Aspergillus ochraceus
BGC0002192.3	0.55	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.55	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001254.3	0.55	PKS	ACT-Toxin II	Alternaria alternata
BGC0001160.5	0.55	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000844.5	0.49	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002387.2	0.48	PKS	yangpumicin A	Micromonospora yangpuensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000056.3	0.70	PKS	esperamicin	Actinomadura verrucosospora
BGC0001284.4	0.57	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002191.2	0.56	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001273.3	0.56	PKS	asperlactone	Aspergillus ochraceus
BGC0002192.3	0.55	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.55	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001254.3	0.55	PKS	ACT-Toxin II	Alternaria alternata
BGC0001160.5	0.55	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000844.5	0.49	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002387.2	0.48	PKS	yangpumicin A	Micromonospora yangpuensis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

Additional weak hits (6):

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.12 out of 39.62

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.46 out of 39.62

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.17 out of 26.85

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.68 out of 28.14

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 12.89 out of 18.57

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.32 out of 26.33

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

TFBS Finder

NRPS/PKS substrate predictions

JLDCGCHE_01190: mal

PKS_AT (591..835): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 62.5%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 92.2
Methoxymalonyl-CoA: 55.1
Methylmalonyl-CoA: 49.3
inactive: 41.5
Isobutyryl-CoA: 32.9
Propionyl-CoA: 28.1
Ethylmalonyl-CoA: 19.2
fatty_acid: 18.6
CHC-CoA: 13.9
Acetyl-CoA: 13.6
Benzoyl-CoA: 9.5
trans-1,2-CPDA: 6.7
3-Methylbutyryl-CoA: 6.5
2-Methylbutyryl-CoA: 4.5

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator

NPDC023815.ctg-0002 - Region 1 - T1PKS

Download region GenBank file

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Location: 6,659 - 50,030 nt. (total: 43,372 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_01234: aldehyde oxidase and xanthine dehydrogenase

smcogs: SMCOG1293: aldehyde oxidase and xanthine dehydrogenase

JLDCGCHE_01248: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

JLDCGCHE_01253: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_01255: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Hydrolases: glucosidase hydrolase

JLDCGCHE_01240: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

JLDCGCHE_01259: Alpha-glucosidase

smcogs: SMCOG1257: Alpha-glucosidase

Ligases: synthase

JLDCGCHE_01242: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.64	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.64	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.64	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.64	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002154.2	0.60	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002191.2	0.60	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001257.3	0.60	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001258.3	0.60	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0000037.4	0.59	PKS	cichorine	Aspergillus nidulans FGSC A4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.64	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.64	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.64	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.64	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002154.2	0.60	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002191.2	0.60	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001257.3	0.60	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001258.3	0.60	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0000037.4	0.59	PKS	cichorine	Aspergillus nidulans FGSC A4

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.31 out of 18.46

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.73 out of 18.46

Confidence: medium

Additional weak hits (8):

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.49 out of 30.97

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.91 out of 20.01

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.08 out of 29.38

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.24 out of 30.22

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.78 out of 20.97

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.23 out of 30.98

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 6658 - 50030:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_01242: mmal

PKS_AT (528..816): mmal

ATSignature: Malonyl-CoA, Methylmalonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; Methylmalonyl-CoA: 75.0%; Propionyl-CoA: 62.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 148.1
Methoxymalonyl-CoA: 124.0
Malonyl-CoA: 121.2
Ethylmalonyl-CoA: 102.1
Propionyl-CoA: 91.8
Isobutyryl-CoA: 73.5
2-Methylbutyryl-CoA: 73.0
Acetyl-CoA: 69.9
trans-1,2-CPDA: 59.9
Benzoyl-CoA: 49.9
3-Methylbutyryl-CoA: 35.5
CHC-CoA: 34.4
fatty_acid: 31.5
inactive: 30.1

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
RpoN	Regulator of nitrogen assimilation and virulence

NPDC023815.ctg-0002 - Region 2 - NRPS,arylpolyene

Download region GenBank file

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Location: 75,108 - 184,458 nt. (total: 109,351 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
arylpolyene: (APE_KS1 or APE_KS2)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

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TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_01316: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: aminotransferase

JLDCGCHE_01288: aminotransferase

smcogs: SMCOG1019: aminotransferase

JLDCGCHE_01289: aminotransferase

smcogs: SMCOG1019: aminotransferase

Hydrolases: deaminase dehalogenase hydrolase

JLDCGCHE_01295: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

JLDCGCHE_01308: ornithine cyclodeaminase

smcogs: SMCOG1158: ornithine cyclodeaminase

JLDCGCHE_01324: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

Ligases: ligase synthase

JLDCGCHE_01293: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_01294: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_01309: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

JLDCGCHE_01313: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_01314: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_01320: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_01321: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

JLDCGCHE_01322: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.85	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.84	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.83	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.81	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.81	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002135.2	0.80	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.78	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001261.3	0.78	NRPS	AM-toxin	Alternaria alternata
BGC0001758.4	0.78	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001166.5	0.72	NRPS	HC-toxin	Alternaria jesenskae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.75	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.74	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0002286.3	0.74	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.74	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.73	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001261.3	0.73	NRPS	AM-toxin	Alternaria alternata
BGC0001758.4	0.73	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.62 out of 19.52

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.89 out of 23.79

Confidence: medium

Additional weak hits (33):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.09 out of 26.85

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.27 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.92 out of 21.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.40 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.63 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.65 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.91 out of 27.78

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.51 out of 31.73

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.91 out of 31.73

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.97 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.12 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.08 out of 29.38

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.85 out of 18.57

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.54 out of 30.25

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.65 out of 20.97

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 18.83 out of 27.55

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.74 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.91 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.62 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.47 out of 26.06

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.75 out of 26.85

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.23 out of 31.73

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 20.07 out of 22.40

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.58 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.26 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.47 out of 28.19

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.10 out of 32.93

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.45 out of 20.01

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.51 out of 26.06

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.13 out of 39.62

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.79 out of 30.98

Confidence: weak

Module view

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Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 75107 - 184458:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Ser - D-Leu - Leu) + (D-Tyr - X) + (D-Ala - D-Ser) + (D-Leu - Val - X - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 75107 - 178663:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Ser - D-Leu - Leu) + (D-Tyr - X) + (D-Ala - D-Ser) + (D-Leu - Val - X - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 143348 - 184458:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-Ala - D-Ser) + (D-Leu - Val - X - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_01293: Ser - Leu - Leu

Search NORINE for peptide: strict or relaxed

AMP-binding (13..425): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWSVAMVHK
Nearest Stachelhaus code(s):: Ser DVWSVAMVHK (88% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1077..1474): Leu

nrpys: Leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: leu (Leu)

Stachelhaus prediction details:

Stachelhaus sequence:: DAVLFGLVVK
Nearest Stachelhaus code(s):: Leu DALLFGAVVK (68% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (2594..2985): Leu

nrpys: Leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DGWIAGAVAK
Nearest Stachelhaus code(s):: Leu DAWILGAVAK (50% 8Å match)
Stachelhaus code match:: 80% (moderate)

JLDCGCHE_01294: Tyr - X

Search NORINE for peptide: strict or relaxed

AMP-binding (506..905): Tyr

nrpys: Tyr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Polar aromatic ring (Tyr, bOH-Tyr)
Single AA prediction:: tyr (Tyr)

Stachelhaus prediction details:

Stachelhaus sequence:: DAATVAAVCK
Nearest Stachelhaus code(s):: Tyr DAATVAAVCK (79% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2025..2431): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLAVMGAVDK
Nearest Stachelhaus code(s):: ohEnd DLSVMGAVDK (94% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_01313: Ala - Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (454..849): Ala

nrpys: Ala

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: ala (Ala)

Stachelhaus prediction details:

Stachelhaus sequence:: DVFSVAIVYK
Nearest Stachelhaus code(s):: Ala DVFSVAIVYK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1965..2371): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWHISLVDK
Nearest Stachelhaus code(s):: Ser DVWHISLVDK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

JLDCGCHE_01314: Leu - Val - X - X

Search NORINE for peptide: strict or relaxed

AMP-binding (462..865): Leu

nrpys: Leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DALLVGAVAK
Nearest Stachelhaus code(s):: Leu DALLVGAVAK (85% 8Å match); 3OH-Leu DALLVGAVAK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1973..2370): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: DAYWWGGTFK
Nearest Stachelhaus code(s):: Val DAYWWGGTFK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (3026..3428): X

nrpys: Dpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DIWEMTADDK
Nearest Stachelhaus code(s):: Dpr DIWEMTADDK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (4084..4483): X

nrpys: bMe-Asp

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: asp,asn (Asp, Asn)
Single AA prediction:: asn (Asn)

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKLGMVNK
Nearest Stachelhaus code(s):: bMe-Asp DLTKLGMVNK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
IolR	Regulator of the inositol catabolism

NPDC023815.ctg-0002 - Region 3 - HR-T2PKS,NRPS

Download region GenBank file

Download region SVG

Location: 202,607 - 269,586 nt. (total: 66,980 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
HR-T2PKS: (hr-t2pks-ksa and (t2fas or APE_KS2 or ketoacyl-synt))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

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SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_01369: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

JLDCGCHE_01389: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_01391: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_01392: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: acyltransferase halogenase

JLDCGCHE_01370: flavin-dependent trp 6 7 halogenase

halogenases: flavin-dependent trp 6 7 halogenase
MITE: MITE0000130Halogenation (identity: 68.80%)
smcogs: SMCOG1119: halogenase

JLDCGCHE_01371: polyketide synthase associated protein papA3

smcogs: SMCOG1209: polyketide synthase associated protein papA3

Lyases: lyase

JLDCGCHE_01377: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

JLDCGCHE_01378: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: synthase

JLDCGCHE_01376: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

JLDCGCHE_01383: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_01386: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transport

JLDCGCHE_01381: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.53	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.52	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0002075.3	0.42	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0002547.2	0.39	PKS	youssoufene A1, youssoufene B1, youssoufene B2, youssoufene B3, youssoufene B4	Streptomyces youssoufiensis
BGC0001132.4	0.38	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.37	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0000131.5	0.37	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0001128.4	0.37	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000866.5	0.37	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0001825.4	0.36	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.73	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.69	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.69	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.68	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.67	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.11 out of 23.79

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.18 out of 20.47

Confidence: medium

Additional weak hits (19):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.97 out of 30.22

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.40 out of 26.33

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.74 out of 30.22

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.63 out of 36.54

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.68 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.31 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.10 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.92 out of 28.14

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.27 out of 31.73

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.33 out of 21.55

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.30 out of 21.84

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.89 out of 35.63

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.67 out of 28.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.39 out of 33.14

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.92 out of 32.93

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.60 out of 26.85

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 5, location 202606 - 269586:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-X - Trp - Asn)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 6, location 202606 - 253994:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-X - Trp - Asn)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 225543 - 269586:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-X - Trp - Asn)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_01371: X - Trp - Asn

Search NORINE for peptide: strict or relaxed

AMP-binding (470..867): X

nrpys: Dpr, Dab

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DIWEFMADDK
Nearest Stachelhaus code(s):: Dpr DIWELTADDK (79% 8Å match); Dab DIWELTADDK (68% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (1957..2333): Trp

nrpys: Trp

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAWAVAGLAK
Nearest Stachelhaus code(s):: Trp DAWAFAGVAK (56% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (2989..3357): Asn

nrpys: Asn

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: asp,asn (Asp, Asn)
Single AA prediction:: asn (Asn)

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKMGEVAK
Nearest Stachelhaus code(s):: Asn DLTKMGEVGK (53% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0002 - Region 4 - RiPP-like

Download region GenBank file

Download region SVG

Location: 284,800 - 296,698 nt. (total: 11,899 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_01420: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: glycosyltransferase

JLDCGCHE_01422: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002573.2	0.45	other (other)	phosphoramidon	Streptomyces mozunensis
BGC0001485.4	0.44	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0001157.6	0.42	ribosomal	bottromycin A2	Streptomyces scabiei 87.22
BGC0000468.5	0.42	ribosomal	bottromycin A2	Streptomyces bottropensis DSM40262
BGC0000470.6	0.42	ribosomal	bottromycin D	Streptomyces sp. WMMB272
BGC0000667.3	0.42	terpene	PR-toxin	Penicillium roqueforti FM164
BGC0000469.6	0.40	ribosomal	bottromycin A2	Streptomyces sp. BC16019
BGC0001753.3	0.37	ribosomal	radamycin, globimycin	Streptomyces globisporus subsp. globisporus
BGC0000598.5	0.35	ribosomal	polytheonamide A, polytheonamide B	Candidatus Entotheonella factor
BGC0000872.5	0.32	other (other)	A-90289 A, A-90289 B	Streptomyces sp. SANK 60405

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002573.2	0.45	other (other)	phosphoramidon	Streptomyces mozunensis
BGC0001485.4	0.44	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0001157.6	0.42	ribosomal	bottromycin A2	Streptomyces scabiei 87.22
BGC0000468.5	0.42	ribosomal	bottromycin A2	Streptomyces bottropensis DSM40262
BGC0000470.6	0.42	ribosomal	bottromycin D	Streptomyces sp. WMMB272
BGC0000667.3	0.42	terpene	PR-toxin	Penicillium roqueforti FM164
BGC0000469.6	0.40	ribosomal	bottromycin A2	Streptomyces sp. BC16019
BGC0001753.3	0.37	ribosomal	radamycin, globimycin	Streptomyces globisporus subsp. globisporus
BGC0000598.5	0.35	ribosomal	polytheonamide A, polytheonamide B	Candidatus Entotheonella factor
BGC0000872.5	0.32	other (other)	A-90289 A, A-90289 B	Streptomyces sp. SANK 60405

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (5):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.32 out of 29.38

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.20 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.39 out of 27.78

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.73 out of 28.19

Confidence: weak

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

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TFBS Finder

TFBS definitions

Regulator	Description

NPDC023815.ctg-0002 - Region 5 - opine-like-metallophore

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Location: 411,124 - 433,242 nt. (total: 22,119 nt) Show pHMM detection rules used

opine-like-metallophore: (CntL and CntM)

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Gene/CDS overview

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002490.2	0.56	other (other)	yersinopine	Yersinia pestis CO92
BGC0002488.3	0.53	other (other)	bacillopaline	Paenibacillus mucilaginosus KNP414
BGC0002489.2	0.53	other (other)	pseudopaline	Pseudomonas aeruginosa PAO1
BGC0002487.3	0.51	other (other)	staphylopine	Staphylococcus aureus subsp. aureus Mu50
BGC0000584.5	0.46	ribosomal	colicin V	Escherichia coli
BGC0002531.3	0.45	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0002150.2	0.43	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0000551.5	0.41	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000947.5	0.41	other (other)	vibrioferrin	Vibrio alginolyticus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002490.2	0.56	other (other)	yersinopine	Yersinia pestis CO92
BGC0002488.3	0.53	other (other)	bacillopaline	Paenibacillus mucilaginosus KNP414
BGC0002489.2	0.53	other (other)	pseudopaline	Pseudomonas aeruginosa PAO1
BGC0002487.3	0.51	other (other)	staphylopine	Staphylococcus aureus subsp. aureus Mu50
BGC0000584.5	0.46	ribosomal	colicin V	Escherichia coli
BGC0002531.3	0.45	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0002150.2	0.43	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0000551.5	0.41	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000947.5	0.41	other (other)	vibrioferrin	Vibrio alginolyticus

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.46 out of 20.47

Confidence: strong

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.52 out of 19.26

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.80 out of 20.47

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 18.25 out of 18.46

Confidence: strong

Additional weak hits (9):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.59 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.47 out of 30.25

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.56 out of 30.22

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.87 out of 30.25

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.93 out of 33.14

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.27 out of 32.93

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.01 out of 26.06

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.76 out of 35.63

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CelR	Cellobiose uptake repressor
RpoN	Regulator of nitrogen assimilation and virulence
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0002 - Region 6 - NRPS

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Location: 465,661 - 513,319 nt. (total: 47,659 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

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resistance

TTA codons

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Gene overview

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NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_01600: aldehyde oxidase and xanthine dehydrogenase

smcogs: SMCOG1293: aldehyde oxidase and xanthine dehydrogenase

Hydrolases: hydrolase

JLDCGCHE_01589: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

JLDCGCHE_01598: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Ligases: ligase

JLDCGCHE_01588: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.72	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0001135.5	0.68	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002164.2	0.67	NRPS	peramine	Epichloe festucae
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.66	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.66	NRPS	AbT1	Aureobasidium pullulans

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.72	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0001135.5	0.68	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002164.2	0.67	NRPS	peramine	Epichloe festucae
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.66	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.66	NRPS	AbT1	Aureobasidium pullulans

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.37 out of 20.47

Confidence: strong

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.33 out of 26.85

Confidence: medium

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.15 out of 29.72

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.53 out of 23.79

Confidence: medium

Additional weak hits (27):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.12 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.61 out of 29.65

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.74 out of 25.31

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.23 out of 26.85

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 18.77 out of 33.73

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.91 out of 29.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.09 out of 29.38

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.27 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.27 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.34 out of 26.06

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.75 out of 30.22

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.87 out of 30.22

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.92 out of 27.18

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.61 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.69 out of 29.65

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.75 out of 32.93

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.49 out of 29.65

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.39 out of 20.01

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.58 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.48 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.10 out of 29.65

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 10, location 465660 - 513319:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Leu - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_01588: Leu - X

Search NORINE for peptide: strict or relaxed

AMP-binding (12..377): Leu

nrpys: Leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DALLVGAVVK
Nearest Stachelhaus code(s):: Leu DALLVGAVVK (74% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1999..2367): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: DVFSIAMVHK
Nearest Stachelhaus code(s):: Ser DVWSIAMVHK (79% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
IolR	Regulator of the inositol catabolism
NtrC	Nitrogen regulatory protein C
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0002 - Region 7 - NRP-metallophore,NRPS,RRE-containing,T1PKS,azole-containing-RiPP

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Location: 530,377 - 656,673 nt. (total: 126,297 nt) Show pHMM detection rules used

NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
RRE-containing: minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE])
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

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TFBS Finder

Azole RiPPs

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_01620: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_01633: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_01635: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_01658: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_01661: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_01663: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

JLDCGCHE_01664: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: aminotransferase sulfhydrylase

JLDCGCHE_01690: aminotransferase

smcogs: SMCOG1019: aminotransferase

JLDCGCHE_01691: O-succinylhomoserine sulfhydrylase

smcogs: SMCOG1168: O-succinylhomoserine sulfhydrylase

Hydrolases: deacetylase hydrolase protease

JLDCGCHE_01621: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

JLDCGCHE_01638: isochorismatase

smcogs: SMCOG1027: isochorismatase

JLDCGCHE_01679: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

JLDCGCHE_01687: polysaccharide deacetylase

smcogs: SMCOG1235: polysaccharide deacetylase

Lyases: dehydratase

JLDCGCHE_01669: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

Isomerases: isomerase racemase

JLDCGCHE_01636: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

JLDCGCHE_01683: mandelate racemase/muconate lactonizing enzyme

smcogs: SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Ligases: ligase synthase

JLDCGCHE_01637: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_01645: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_01672: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_01673: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_01674: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002084.4	1.23	ribosomal	biarylitide YYH	Planomonospora sp. ID82291
BGC0002099.3	1.23	ribosomal	biarylitide YFH	Planomonospora sp. ID107089
BGC0001201.3	0.97	terpene	eremophilene	Sorangium cellulosum So ce56
BGC0001146.5	0.87	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0000392.5	0.86	NRPS	mirubactin	Actinosynnema mirum DSM 43827
BGC0001986.3	0.85	other (other)	purincyclamide	Streptomyces chrestomyceticus
BGC0000844.5	0.83	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0000902.4	0.79	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0002347.3	0.78	other (other)	cyanogramide, cyanogramide B, cyanogramide C, cyanogramide D	Actinoalloteichus caeruleus WH1-2216-6
BGC0000866.5	0.77	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000392.5	0.74	NRPS	mirubactin	Actinosynnema mirum DSM 43827
BGC0000343.5	0.68	NRPS	enterobactin	Pseudomonas sp. J465
BGC0000357.5	0.68	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001825.4	0.67	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002474.2	0.65	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4	0.64	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001240.4	0.64	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001132.4	0.64	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.06 out of 23.79

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.06 out of 26.85

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.54 out of 36.53

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 26.88 out of 32.38

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.35 out of 23.79

Confidence: medium

Additional weak hits (39):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.73 out of 28.14

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 22.07 out of 30.97

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.83 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.63 out of 27.78

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.45 out of 29.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.42 out of 30.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.88 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.17 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.47 out of 20.97

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.92 out of 30.97

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.13 out of 30.97

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.66 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.99 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.26 out of 27.78

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.13 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.95 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.50 out of 21.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.12 out of 29.65

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.68 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.87 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.13 out of 28.14

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 24.27 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.40 out of 36.53

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.20 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.71 out of 28.14

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.93 out of 32.74

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.95 out of 27.55

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.32 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.03 out of 32.74

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.55 out of 24.78

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.87 out of 28.19

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.18 out of 23.43

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.59 out of 29.65

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.42 out of 26.12

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.48 out of 28.19

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 21.54 out of 32.38

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 25.37 out of 32.93

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.07 out of 35.63

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

RREFinder

TFBS Finder

Azole RiPPs

Predicted core structure(s)

For candidate cluster 11, location 530376 - 656673:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-Arg - D-Arg) + (mal - pk - ccmal) + (Me-redmal - ccmal) + (ccmal - ccmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 12, location 530376 - 590104:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-Arg - D-Arg)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 14, location 581198 - 656673:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - pk - ccmal) + (Me-redmal - ccmal) + (ccmal - ccmal)
Non-colinear ordering:: JLDCGCHE_01672 + JLDCGCHE_01673 + JLDCGCHE_01674

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_01637: diOH-Bz

Search NORINE for peptide: strict or relaxed

AMP-binding (34..442): diOH-Bz

nrpys: diOH-Bz

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: dhb (diOH-Bz)

Stachelhaus prediction details:

Stachelhaus sequence:: PLPGLGVVCK
Nearest Stachelhaus code(s):: diOH-Bz PMPGLGVVCK (97% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_01645: Arg - Arg

Search NORINE for peptide: strict or relaxed

AMP-binding (482..874): Arg

nrpys: Arg

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DSDDVGMVDK
Nearest Stachelhaus code(s):: Arg DSDDVGAVDK (85% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (1964..2358): Arg

nrpys: Arg

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVWNVGAINK
Nearest Stachelhaus code(s):: Fo-OH-Orn DVWNVGAVNK (94% 8Å match); Arg DVENVGAINK (50% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_01672: mal - pk - mal

PKS_AT (444..731): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 187.0
inactive: 79.8
Methoxymalonyl-CoA: 71.9
Methylmalonyl-CoA: 66.8
Isobutyryl-CoA: 46.6
Propionyl-CoA: 35.3
Ethylmalonyl-CoA: 27.1
Benzoyl-CoA: 24.3
Acetyl-CoA: 23.1
2-Methylbutyryl-CoA: 15.3
CHC-CoA: 14.4
trans-1,2-CPDA: 14.1
3-Methylbutyryl-CoA: 10.3
fatty_acid: 3.3

PKS_AT (1421..1713): pk

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Ethylmalonyl-CoA: 91.7%; Methoxymalonyl-CoA: 91.7%

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 218.0
Methylmalonyl-CoA: 207.1
2-Methylbutyryl-CoA: 162.3
Methoxymalonyl-CoA: 161.0
Propionyl-CoA: 127.7
trans-1,2-CPDA: 121.5
Malonyl-CoA: 107.7
CHC-CoA: 107.3
Isobutyryl-CoA: 77.1
Benzoyl-CoA: 61.4
Acetyl-CoA: 58.5
fatty_acid: 50.7
3-Methylbutyryl-CoA: 32.6
inactive: 30.3

PKS_AT (4036..4302): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 66.7%; Methylmalonyl-CoA: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 185.4
Methoxymalonyl-CoA: 79.0
inactive: 77.7
Methylmalonyl-CoA: 68.0
Propionyl-CoA: 38.2
Isobutyryl-CoA: 36.9
Ethylmalonyl-CoA: 31.6
Benzoyl-CoA: 24.8
Acetyl-CoA: 22.9
CHC-CoA: 19.0
fatty_acid: 16.7
2-Methylbutyryl-CoA: 11.5
3-Methylbutyryl-CoA: 10.2
trans-1,2-CPDA: 9.8

JLDCGCHE_01673: mmal - mal

PKS_AT (534..797): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%; Methoxymalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 202.9
Ethylmalonyl-CoA: 198.5
Methoxymalonyl-CoA: 165.6
2-Methylbutyryl-CoA: 139.2
CHC-CoA: 121.2
trans-1,2-CPDA: 119.5
Propionyl-CoA: 107.5
Malonyl-CoA: 105.7
Benzoyl-CoA: 80.6
Isobutyryl-CoA: 77.7
Acetyl-CoA: 49.7
3-Methylbutyryl-CoA: 33.9
inactive: 26.6
fatty_acid: 23.2

PKS_AT (2423..2680): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 178.3
inactive: 76.0
Methoxymalonyl-CoA: 63.5
Methylmalonyl-CoA: 59.2
Propionyl-CoA: 33.2
Ethylmalonyl-CoA: 31.3
Benzoyl-CoA: 18.0
Isobutyryl-CoA: 17.9
2-Methylbutyryl-CoA: 16.2
CHC-CoA: 12.5
fatty_acid: 11.4
Acetyl-CoA: 11.1
trans-1,2-CPDA: 8.1
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_01674: mal - mal

PKS_AT (544..797): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 184.2
inactive: 75.4
Methoxymalonyl-CoA: 74.9
Methylmalonyl-CoA: 70.9
Propionyl-CoA: 42.1
Ethylmalonyl-CoA: 37.6
Isobutyryl-CoA: 33.0
2-Methylbutyryl-CoA: 21.5
fatty_acid: 20.5
Benzoyl-CoA: 18.3
Acetyl-CoA: 15.4
CHC-CoA: 14.5
trans-1,2-CPDA: 11.1
3-Methylbutyryl-CoA: 2.0

PKS_AT (2008..2269): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 171.1
inactive: 75.8
Methylmalonyl-CoA: 75.8
Methoxymalonyl-CoA: 73.6
Propionyl-CoA: 57.7
Ethylmalonyl-CoA: 49.6
Isobutyryl-CoA: 44.1
CHC-CoA: 39.7
Acetyl-CoA: 33.6
2-Methylbutyryl-CoA: 31.6
Benzoyl-CoA: 30.9
trans-1,2-CPDA: 26.1
fatty_acid: 19.7
3-Methylbutyryl-CoA: 5.1

Link to PARAS substrate predictor

RRE predictions

: RRE type: Thiopeptide_F_RRE; Location: 0 - 80; Score: 85.8; RRE type: Heterocycloanthracin_C_RRE; Location: 4 - 91; Score: 42.6
: RRE type: Thiopeptide_F_RRE; Location: 0 - 80; Score: 85.8; RRE type: Heterocycloanthracin_C_RRE; Location: 4 - 91; Score: 42.6

TFBS definitions

Regulator	Description
CelR	Cellobiose uptake repressor
CsoR	Copper-responsive repressor
DmdR1	Iron(II)-dependent repressor
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism

Core peptide predictions

No core peptides found.

NPDC023815.ctg-0002 - Region 8 - terpene

Download region GenBank file

Download region SVG

Location: 731,011 - 752,150 nt. (total: 21,140 nt) Show pHMM detection rules used

Region on contig edge.

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Pfam domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_01771: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: carboxylase

JLDCGCHE_01766: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Lyases: cyclase

JLDCGCHE_01767: Terpene synthase/cyclase metal-binding domain protein

smcogs: SMCOG1052: Terpene synthase/cyclase metal-binding domain protein

Ligases: ligase

JLDCGCHE_01773: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.77	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002135.2	0.56	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.56	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002286.3	0.55	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.55	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.55	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.55	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002075.3	0.55	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.55	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.77	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002135.2	0.56	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.56	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002286.3	0.55	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.55	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.55	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.55	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002075.3	0.55	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.55	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

No product predictions

Genes with terpene domains:

JLDCGCHE_01767: T1TS

Domain 1 (27 - 347): Type 1 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (5):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.68 out of 26.85

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.83 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.58 out of 30.25

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.16 out of 28.14

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.81 out of 18.57

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

No acronyms to display

TFBS definitions

Regulator	Description

NPDC023815.ctg-0003 - Region 1 - terpene

Download region GenBank file

Download region SVG

Location: 52,126 - 74,333 nt. (total: 22,208 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Lyases: cyclase

JLDCGCHE_01839: Terpene synthase/cyclase metal-binding domain protein

smcogs: SMCOG1052: Terpene synthase/cyclase metal-binding domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.81	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0000528.5	0.41	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000496.5	0.41	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002531.3	0.41	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0002073.3	0.40	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002447.3	0.39	ribosomal	cerecyclin	Bacillus cereus
BGC0002682.2	0.38	other (other)	aerobactin	Vibrio mimicus
BGC0000503.5	0.38	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0002316.2	0.37	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0000546.3	0.37	ribosomal	SAL-2242	Streptomyces albidoflavus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.81	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0000528.5	0.41	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000496.5	0.41	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002531.3	0.41	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0002073.3	0.40	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002447.3	0.39	ribosomal	cerecyclin	Bacillus cereus
BGC0002682.2	0.38	other (other)	aerobactin	Vibrio mimicus
BGC0000503.5	0.38	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0002316.2	0.37	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0000546.3	0.37	ribosomal	SAL-2242	Streptomyces albidoflavus

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene		germacradienol	C15	C1-C10	OH
sesquiterpene		geosmin	C12	C1-C10	OH

Genes with terpene domains:

JLDCGCHE_01839: T1TS + T1TS

Domain 1 (1 - 328): Type 1 terpene synthase

Subtype: Geosmin synthase, N terminal domain

Reactions:: FPP → germacradienol

Domain 2 (329 - 696): Type 1 terpene synthase

Subtype: Geosmin synthase, C terminal domain

Reactions:: germacradienol → geosmin

Transcription Factor Binding Sites

Binding sites found:

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 32.79 out of 36.53

Confidence: strong

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (9):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.32 out of 26.33

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.76 out of 26.06

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.91 out of 26.85

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 18.42 out of 29.25

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.17 out of 32.74

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.73 out of 30.22

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.13 out of 26.33

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.90 out of 24.78

Confidence: weak

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate

TFBS definitions

Regulator	Description
DmdR1	Iron(II)-dependent repressor
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0003 - Region 2 - lanthipeptide-class-iii

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Location: 445,161 - 467,707 nt. (total: 22,547 nt) Show pHMM detection rules used

lanthipeptide-class-iii: (micKC and not PKS_KS)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

JLDCGCHE_02224: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acylase

JLDCGCHE_02237: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Ligases: synthase

JLDCGCHE_02234: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_02236: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000551.5	0.64	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000513.3	0.63	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000496.5	0.62	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000519.4	0.60	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.60	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0001164.3	0.58	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.57	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000518.3	0.52	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002700.2	0.52	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002698.2	0.51	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000551.5	0.64	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000513.3	0.63	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000496.5	0.62	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000519.4	0.60	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.60	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0001164.3	0.58	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.57	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000518.3	0.52	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002700.2	0.52	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002698.2	0.51	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for JLDCGCHE_02231

JLDCGCHE_02230

Leader:

MDFILDLQDMDTPEAQSNAM

Core:

ASGGSSGGGGSTTASNASLLLACSHSTVSLILC

Core with dehydrations:

ADhaGGDhaDhaGGGGDhaDhbDhbADhaNADhaLLLACysDhaHDhaDhbVDhaLILCys

antiSMASH-DB 4.0 matches for JLDCGCHE_02230

84.8%

NZ_JAAMPJ010000008.1:

Lanthipeptides: G7043_RS27905_lanthipeptide

1

ASGGSSGGGGSTTASNASLLLACSHSTVSLILC

33

ASGG GGGGSTTASNASLLL CSHSTVSL+ C

1

ASGGGGGGGGSTTASNASLLLPCSHSTVSLLAC

33

81.8%

NZ_FNET01000005.1and 1 other:

NZ_JAJCXE010000046.1 Lanthipeptides: L6E10_RS30695_lanthipeptide

Lanthipeptides: BLR21_RS13720_lanthipeptide

1

ASGGSSGGGGSTTASNASLLLACSHSTVSLILC

33

ASG GGGGSTTASNASLLL CSHSTVSL+ C

1

ASGHGGGGGGSTTASNASLLLPCSHSTVSLLAC

33

66.7%

NZ_BMRG01000002.1:

Lanthipeptides: IEZ00_RS05680_lanthipeptide

9

GGSTTASNASLLLACSHSTVSLILC

33

GGSTTASNASLLL CSHSTVSL++C

9

GGSTTASNASLLLPCSHSTVSLLIC

33

with 62 more sequence matches

Only the first 10 are displayed here.

60.6%

NZ_BBOJ01000004.1and 10 others:

NZ_BMNC01000020.1 Lanthipeptides: IEY88_RS39185_lanthipeptideNZ_BNAR01000026.1 Lanthipeptides: IE307_RS43650_lanthipeptideNZ_CP099738.1 Lanthipeptides: ND450_RS23215_lanthipeptideNZ_FNCC01000020.1 Lanthipeptides: BLT23_RS35745_lanthipeptideNZ_FNIX01000011.1 Lanthipeptides: BLQ91_RS25790_lanthipeptideNZ_FOFR01000004.1 Lanthipeptides: BMW88_RS12345_lanthipeptideNZ_FOFV01000016.1 Lanthipeptides: BMY74_RS32885_lanthipeptideNZ_FWYC01000011.1 Lanthipeptides: B9C42_RS41415_lanthipeptideNZ_JAPJDL010000024.1 Lanthipeptides: ORI60_RS35805_lanthipeptideNZ_QQAU01000015.1 Lanthipeptides: DFR72_RS35920_lanthipeptide

Lanthipeptides: AOM45_RS50700_lanthipeptide

11

STTASNASLLLACSHSTVSLILC

33

STTASNASLLL CSHSTVSL+ C

10

STTASNASLLLPCSHSTVSLLAC

32

58.8%

NZ_JAJHUO010000006.1:

Lanthipeptides: LNK82_RS10890_lanthipeptide

12

TTASNASLLLACSHSTVSLILC

33

TTASNASLLL CSHSTVSL+LC

13

TTASNASLLLPCSHSTVSLVLC

34

57.6%

NC_019673.1:

Lanthipeptides: BN6_RS44805_lanthipeptide

9

GGSTTASNASLLLACSHSTVSLILC

33

GGSTTAS+ SLLL CSHS+ SL+LC

7

GGSTTASSVSLLLPCSHSSASLLLC

31

57.6%

NZ_CP016793.1and 4 others:

NZ_CP034550.1 Lanthipeptides: EKG83_RS07645_lanthipeptideNZ_QFWW01000007.1 Lanthipeptides: DI276_RS13535_lanthipeptideNZ_QGHB01000016.1 Lanthipeptides: C8D88_RS40205_lanthipeptideNZ_QLTT01000007.1 Lanthipeptides: C8D87_RS29500_lanthipeptide

Lanthipeptides: BBK82_RS02805_lanthipeptide

12

TTASNASLLLACSHSTVSLILC

33

TTASNASLLL CSHSTVSL+ C

11

TTASNASLLLPCSHSTVSLLAC

32

55.9%

NZ_LWLC01000002.1:

Lanthipeptides: A6A25_RS42770_lanthipeptide

14

ASNASLLLACSHSTVSLILC

33

ASNASLLL CSHSTVSLILC

15

ASNASLLLPCSHSTVSLILC

34

54.5%

NZ_JACHJN010000006.1:

Lanthipeptides: FHS29_RS22065_lanthipeptide

12

TTASNASLLLACSHSTVSLILC

33

TTASN SLLL CSHST SL+LC

11

TTASNVSLLLPCSHSTASLVLC

32

54.5%

NZ_PVTF01000018.1:

Lanthipeptides: CLV43_RS41575_lanthipeptide

11

STTASNASLLLACSHSTVSLILC

33

STTAS+ASLLL CSHS+ SL+LC

9

STTASSASLLLPCSHSSASLVLC

31

51.5%

NC_021252.1and 9 others:

NZ_CP008953.1 Lanthipeptides: AJAP_RS43890_lanthipeptideNZ_CP024972.1 Lanthipeptides: CVV72_RS27155_lanthipeptideNZ_CP092497.1 Lanthipeptides: MJQ72_RS39855_lanthipeptideNZ_CP102415.1 Lanthipeptides: NQK81_RS21060_lanthipeptideNZ_CP120210.1 Lanthipeptides: P3102_RS01815_lanthipeptideNZ_JPLW01000001.1 Lanthipeptides: ED92_RS42365_lanthipeptideNZ_LIWC01000002.1 Lanthipeptides: AMK34_RS42700_lanthipeptideNZ_LQMT02000022.1 Lanthipeptides: AVR91_RS42870_lanthipeptideNZ_LT629789.1 Lanthipeptides: BLU53_RS44680_lanthipeptide

Lanthipeptides: AORI_RS83200_lanthipeptide

4

GSSGGGGSTTASNASLLLACSHSTVSLILC

33

GS GG ASN SLL +C++STVSL+ C

1

GSHGG-----ASNLSLLASCANSTVSLLTC

25

51.5%

NZ_CP095376.1:

Lanthipeptides: MUY14_RS34840_lanthipeptide

7

GGGGSTTASNASLLLACSHSTVSLILC

33

G GG T SN SLL AC+HST+SL+ C

1

GHGGGT--SNLSLLAACAHSTLSLLTC

25

48.6%

NZ_JANYMP010000002.1:

Lanthipeptides: NZH93_RS06250_lanthipeptide

13

TASNASLLLACSHSTVSLILC

33

TAS+ASLLL CSHS+ SLILC

15

TASSASLLLPCSHSSASLILC

35

MIBiG 4.0 matches for JLDCGCHE_02230

21.2%

BGC0000553.3 (SSGG_RS09925):

Lanthipeptide: SRO15-2212

20

LLACSHSTVSLILC

33

LL C +S++S++LC

7

LLVCEYSSLSVVLC

20

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.85 out of 30.12

Confidence: medium

Additional weak hits (10):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.95 out of 20.97

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.85 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.50 out of 31.73

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.32 out of 30.98

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.04 out of 27.18

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.69 out of 29.65

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.21 out of 29.25

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.68 out of 26.85

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.33 out of 26.85

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.47 out of 28.19

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Lanthipeptides

TFBS Finder

Core peptide predictions

JLDCGCHE_02230 - Class III

Cleavage pHMM score: 15.60

RODEO score: 0

Monoisotopic mass: 2749.4 Da

Molecular weight: 2751.0 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2769.0 Da N = 1; 2787.0 Da N = 2; 2805.1 Da N = 3; 2823.1 Da N = 4; 2841.1 Da N = 5; 2859.1 Da N = 6; 2877.1 Da N = 7; 2895.2 Da N = 8; 2913.2 Da N = 9; 2931.2 Da N = 10

TFBS definitions

Regulator	Description
OsdR	Development and stress management regulator

NPDC023815.ctg-0003 - Region 3 - terpene-precursor

Download region GenBank file

Download region SVG

Location: 540,283 - 561,350 nt. (total: 21,068 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_02325: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Ligases: synthetase

JLDCGCHE_02326: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001456.3	0.44	terpene	isorenieratene	Streptomyces argillaceus
BGC0000664.5	0.43	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.41	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.41	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000649.3	0.39	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000648.3	0.39	terpene	carotenoid	Myxococcus xanthus
BGC0000677.5	0.39	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0000646.5	0.35	terpene	β-carotein	uncultured bacterium

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001456.3	0.44	terpene	isorenieratene	Streptomyces argillaceus
BGC0000664.5	0.43	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.41	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.41	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000649.3	0.39	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000648.3	0.39	terpene	carotenoid	Myxococcus xanthus
BGC0000677.5	0.39	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0000646.5	0.35	terpene	β-carotein	uncultured bacterium

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

JLDCGCHE_02326: PT_FPPS_like

Domain 1 (46 - 333): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 24.72 out of 24.78

Confidence: strong

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.68 out of 19.52

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 25.69 out of 29.65

Confidence: medium

Additional weak hits (4):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.33 out of 21.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.75 out of 29.65

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.96 out of 25.88

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.90 out of 29.65

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
LexA variant 1	Repressor of DNA damage response
LexA variant 2	Repressor of DNA damage response

NPDC023815.ctg-0004 - Region 1 - azole-containing-RiPP,lanthipeptide-class-iii

Download region GenBank file

Download region SVG

Location: 317,690 - 352,912 nt. (total: 35,223 nt) Show pHMM detection rules used

azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)
lanthipeptide-class-iii: (micKC and not PKS_KS)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Azole RiPPs

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: acyltransferase

JLDCGCHE_02809: acyltransferase

smcogs: SMCOG1141: acyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000513.3	0.35	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000496.5	0.35	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000551.5	0.35	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.34	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0001226.4	0.34	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000501.3	0.34	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000518.3	0.33	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000563.4	0.33	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0002111.3	0.33	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000553.3	0.33	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000513.3	0.51	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.50	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000496.5	0.50	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000519.4	0.50	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0001226.4	0.50	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000501.3	0.50	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000563.4	0.49	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000518.3	0.49	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002111.3	0.49	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000553.3	0.48	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.75 out of 23.05

Confidence: medium

Additional weak hits (8):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.28 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.18 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.16 out of 27.78

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.89 out of 36.54

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.13 out of 30.25

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.16 out of 30.98

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.03 out of 29.65

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.92 out of 27.18

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Lanthipeptides

TFBS Finder

Azole RiPPs

Core peptide predictions

No core peptides found.

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

Core peptide predictions

No core peptides found.

NPDC023815.ctg-0005 - Region 1 - melanin

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Location: 197,137 - 207,565 nt. (total: 10,429 nt) Show pHMM detection rules used

melanin: melC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

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other genes

resistance

TTA codons

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Select a gene to view the details available for it

Gene overview

Tailoring

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Pfam domains

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Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Lyases: cyclase

JLDCGCHE_03291: diguanylate cyclase

smcogs: SMCOG1025: diguanylate cyclase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000910.3	0.59	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000911.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000912.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.53	other (other)	melanin	Streptomyces avermitilis
BGC0000908.3	0.52	other (other)	melanin	Streptomyces avermitilis
BGC0002150.2	0.43	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0000513.3	0.42	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.42	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0001555.4	0.41	ribosomal	colicin V	Escherichia coli chi7122

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000910.3	0.59	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000911.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000912.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.53	other (other)	melanin	Streptomyces avermitilis
BGC0000908.3	0.52	other (other)	melanin	Streptomyces avermitilis
BGC0002150.2	0.43	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0000513.3	0.42	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.42	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0001555.4	0.41	ribosomal	colicin V	Escherichia coli chi7122

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (1):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.18 out of 25.88

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description

NPDC023815.ctg-0005 - Region 2 - PKS-like,T1PKS,oligosaccharide

Download region GenBank file

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Location: 243,825 - 303,684 nt. (total: 59,860 nt) Show pHMM detection rules used

oligosaccharide: (repeatable(3, [DUF1205, Glyco_transf_28, Glycos_transf_1, Glycos_transf_2, MGT]) and minscore(MGT, 150))
PKS-like: (t2pks2 or ksIII)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

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Gene overview

Tailoring

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NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

JLDCGCHE_03332: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

JLDCGCHE_03344: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_03345: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: glycosyltransferase

JLDCGCHE_03335: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

JLDCGCHE_03343: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Hydrolases: deacetylase hydrolase

JLDCGCHE_03328: acetylornithine deacetylase

smcogs: SMCOG1247: acetylornithine deacetylase

JLDCGCHE_03337: amidohydrolase

smcogs: SMCOG1244: amidohydrolase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002631.2	0.61	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000844.5	0.50	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002127.3	0.49	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0002434.2	0.48	NRPS, PKS	clifednamide D, clifednamide E, clifednamide F, clifednamide G, clifednamide H, clifednamide I, clifednamide J	Kitasatospora sp.
BGC0001224.5	0.47	other (other)	reductasporine	uncultured bacterium
BGC0000277.5	0.46	PKS	urdamycin	Streptomyces fradiae
BGC0002573.2	0.44	other (other)	phosphoramidon	Streptomyces mozunensis
BGC0001556.5	0.44	NRPS, PKS	combamide	Streptomyces sp.
BGC0000068.5	0.43	PKS	geldanamycin	Streptomyces hygroscopicus
BGC0001553.5	0.43	NRPS, PKS	clifednamide A	Streptomyces sp. JV178

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000041.3	0.52	PKS	oronofacic acid	Pseudomonas syringae
BGC0002434.2	0.51	NRPS, PKS	clifednamide D, clifednamide E, clifednamide F, clifednamide G, clifednamide H, clifednamide I, clifednamide J	Kitasatospora sp.
BGC0000068.5	0.49	PKS	geldanamycin	Streptomyces hygroscopicus
BGC0001553.5	0.48	NRPS, PKS	clifednamide A	Streptomyces sp. JV178
BGC0000996.5	0.48	NRPS, PKS	frontalamide B, frontalamide A	Streptomyces sp. SPB78
BGC0001556.5	0.48	NRPS, PKS	combamide	Streptomyces sp.
BGC0001504.4	0.48	PKS	amycomicin	Amycolatopsis sp. AA4
BGC0000844.5	0.48	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002127.3	0.47	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.24 out of 19.26

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 26.03 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.66 out of 30.11

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.42 out of 20.47

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 18.51 out of 25.31

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 18.51 out of 25.31

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 25.27 out of 29.65

Confidence: medium

Additional weak hits (26):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.55 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.27 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.64 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.66 out of 27.78

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.74 out of 29.72

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.44 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.42 out of 29.38

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.90 out of 30.22

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.65 out of 27.04

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.45 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.09 out of 26.06

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.95 out of 30.98

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.02 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.92 out of 28.14

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.27 out of 26.85

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.58 out of 29.65

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.68 out of 29.25

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.52 out of 26.85

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.62 out of 25.75

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.43 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.96 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.27 out of 29.65

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.59 out of 26.85

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.51 out of 28.19

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 243824 - 303684:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-redmal - pk - ccmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 244300 - 303684:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-redmal - pk - ccmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_03345: mmal - pk - mal

PKS_AT (543..832): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Malonyl-CoA: 87.5%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 202.5
Ethylmalonyl-CoA: 194.0
Methoxymalonyl-CoA: 170.0
2-Methylbutyryl-CoA: 151.6
Propionyl-CoA: 115.1
trans-1,2-CPDA: 113.7
CHC-CoA: 113.2
Malonyl-CoA: 109.6
Isobutyryl-CoA: 93.2
Benzoyl-CoA: 63.7
Acetyl-CoA: 55.2
3-Methylbutyryl-CoA: 52.5
fatty_acid: 40.0
inactive: 35.8

PKS_AT (2438..2717): pk

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Malonyl-CoA: 87.5%; Ethylmalonyl-CoA: 87.5%

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 208.5
Methylmalonyl-CoA: 196.1
Methoxymalonyl-CoA: 159.3
2-Methylbutyryl-CoA: 136.3
Propionyl-CoA: 109.8
Malonyl-CoA: 109.0
trans-1,2-CPDA: 103.8
CHC-CoA: 94.8
Benzoyl-CoA: 70.5
Isobutyryl-CoA: 66.5
Acetyl-CoA: 43.7
inactive: 39.7
3-Methylbutyryl-CoA: 22.6
fatty_acid: 21.9

PKS_AT (4345..4604): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 83.3%; Propionyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 207.1
inactive: 102.6
Methoxymalonyl-CoA: 86.7
Methylmalonyl-CoA: 78.0
Ethylmalonyl-CoA: 49.7
Isobutyryl-CoA: 41.3
Propionyl-CoA: 36.2
Benzoyl-CoA: 35.6
Acetyl-CoA: 30.5
trans-1,2-CPDA: 25.4
2-Methylbutyryl-CoA: 18.0
CHC-CoA: 15.8
fatty_acid: 14.9
3-Methylbutyryl-CoA: 10.8

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
CatR	H2O2-responsive repressor
CelR	Cellobiose uptake repressor
LexA variant 1	Repressor of DNA damage response
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0005 - Region 3 - T1PKS

Download region GenBank file

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Location: 304,805 - 372,410 nt. (total: 67,606 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

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TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

JLDCGCHE_03373: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

JLDCGCHE_03375: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_03377: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

JLDCGCHE_03379: 3-hydroxyisobutyrate dehydrogenase

smcogs: SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

Transferases: acylase aminotransferase transferase

JLDCGCHE_03367: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

JLDCGCHE_03369: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

JLDCGCHE_03372: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Ligases: synthase

JLDCGCHE_03365: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03366: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Translocases: permease

JLDCGCHE_03350: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0000041.3	0.65	PKS	oronofacic acid	Pseudomonas syringae
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.62	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.62	PKS	FR901512	fungal sp. No.14919

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0000041.3	0.65	PKS	oronofacic acid	Pseudomonas syringae
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.62	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.62	PKS	FR901512	fungal sp. No.14919

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.42 out of 20.47

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.57 out of 26.85

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.19 out of 23.79

Confidence: medium

Additional weak hits (15):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.75 out of 30.22

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.07 out of 30.25

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.11 out of 25.75

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.41 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.39 out of 27.78

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.37 out of 26.12

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 14.95 out of 20.97

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.22 out of 21.55

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 17.16 out of 22.40

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.36 out of 26.06

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.22 out of 26.06

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.42 out of 35.63

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.23 out of 35.63

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.89 out of 30.11

Confidence: weak

Module view

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Detailed Pfam domain annotation

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Detailed TIGRFAM domain annotation

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Detailed domain annotation

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NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 5, location 304804 - 372410:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - ccmal - ccmal) + (ccmal - ccmal) + (ccmal)
Non-colinear ordering:: JLDCGCHE_03367 + JLDCGCHE_03366 + JLDCGCHE_03365

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_03365: mal

PKS_AT (548..829): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 222.7
inactive: 106.2
Methoxymalonyl-CoA: 65.6
Methylmalonyl-CoA: 49.9
Isobutyryl-CoA: 27.5
Propionyl-CoA: 27.2
Acetyl-CoA: 14.2
Ethylmalonyl-CoA: 13.7
CHC-CoA: 11.5
Benzoyl-CoA: 9.1
2-Methylbutyryl-CoA: 6.5
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_03366: mal - mal

PKS_AT (548..810): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 66.7%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 203.5
inactive: 87.9
Methoxymalonyl-CoA: 78.6
Methylmalonyl-CoA: 68.6
Propionyl-CoA: 44.5
Isobutyryl-CoA: 41.6
Ethylmalonyl-CoA: 34.7
Acetyl-CoA: 31.2
Benzoyl-CoA: 26.5
2-Methylbutyryl-CoA: 22.2
CHC-CoA: 18.0
fatty_acid: 15.1
trans-1,2-CPDA: 13.5
3-Methylbutyryl-CoA: 0.0

PKS_AT (2080..2354): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Propionyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 196.5
inactive: 90.3
Methoxymalonyl-CoA: 71.9
Methylmalonyl-CoA: 65.8
Propionyl-CoA: 36.3
Isobutyryl-CoA: 30.7
Benzoyl-CoA: 28.4
Ethylmalonyl-CoA: 27.7
Acetyl-CoA: 20.6
2-Methylbutyryl-CoA: 16.9
CHC-CoA: 15.7
fatty_acid: 14.6
trans-1,2-CPDA: 11.7
3-Methylbutyryl-CoA: -0.8

JLDCGCHE_03367: mal - mal - mal

PKS_AT (534..795): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 75.0%; Propionyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 211.8
inactive: 95.1
Methoxymalonyl-CoA: 71.6
Methylmalonyl-CoA: 62.9
Isobutyryl-CoA: 34.9
Ethylmalonyl-CoA: 33.4
Propionyl-CoA: 28.6
Acetyl-CoA: 22.8
Benzoyl-CoA: 21.5
fatty_acid: 15.0
trans-1,2-CPDA: 12.6
CHC-CoA: 12.6
2-Methylbutyryl-CoA: 11.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (1472..1742): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 75.0%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 194.2
inactive: 109.1
Methoxymalonyl-CoA: 63.0
Methylmalonyl-CoA: 53.7
Isobutyryl-CoA: 40.9
Propionyl-CoA: 34.7
Ethylmalonyl-CoA: 23.4
2-Methylbutyryl-CoA: 17.9
Acetyl-CoA: 15.7
Benzoyl-CoA: 13.8
fatty_acid: 12.0
3-Methylbutyryl-CoA: 11.1
trans-1,2-CPDA: 5.7
CHC-CoA: 2.6

PKS_AT (3081..3375): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 202.7
inactive: 109.8
Methylmalonyl-CoA: 59.8
Methoxymalonyl-CoA: 58.6
Propionyl-CoA: 39.3
2-Methylbutyryl-CoA: 33.0
Isobutyryl-CoA: 30.0
Ethylmalonyl-CoA: 21.7
Benzoyl-CoA: 21.2
fatty_acid: 15.4
Acetyl-CoA: 14.0
CHC-CoA: 12.2
trans-1,2-CPDA: 11.1
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0005 - Region 4 - NRPS,NRPS-like,T1PKS,T3PKS,hglE-KS

Download region GenBank file

Download region SVG

Location: 395,044 - 563,162 nt. (total: 168,119 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
hglE-KS: (hglE or hglD)
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

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Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_03400: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_03405: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

JLDCGCHE_03407: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

JLDCGCHE_03420: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

JLDCGCHE_03426: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_03450: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_03451: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_03452: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_03453: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_03457: 3-hydroxybutyryl-CoA dehydrogenase

smcogs: SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

JLDCGCHE_03461: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

JLDCGCHE_03475: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_03476: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

JLDCGCHE_03486: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

JLDCGCHE_03494: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

JLDCGCHE_03501: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_03502: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: acylase acyltransferase aminotransferase glycosyltransferase halogenase transferase

JLDCGCHE_03399: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

JLDCGCHE_03418: polyketide synthase associated protein papA3

smcogs: SMCOG1209: polyketide synthase associated protein papA3

JLDCGCHE_03419: halogenase

smcogs: SMCOG1119: halogenase

JLDCGCHE_03430: polyketide synthase associated protein papA3

smcogs: SMCOG1209: polyketide synthase associated protein papA3

JLDCGCHE_03460: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

JLDCGCHE_03472: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

JLDCGCHE_03487: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Hydrolases: esterase hydrolase

JLDCGCHE_03425: thioesterase

smcogs: SMCOG1004: thioesterase

JLDCGCHE_03489: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: lyase

JLDCGCHE_03433: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase synthase

JLDCGCHE_03422: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_03427: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_03432: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

JLDCGCHE_03435: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_03437: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_03438: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_03454: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

JLDCGCHE_03456: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03458: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

JLDCGCHE_03473: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03474: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03491: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03492: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_03499: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001275.3	1.67	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	1.56	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001273.3	1.42	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	1.41	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001164.3	1.40	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	1.39	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001132.4	1.39	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002171.2	1.37	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger ATCC 1015
BGC0002275.2	1.37	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger CBS 101883
BGC0002286.3	1.34	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002286.3	0.76	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.76	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001273.3	0.76	PKS	asperlactone	Aspergillus ochraceus
BGC0001128.4	0.76	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001275.3	0.76	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.76	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002135.2	0.75	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001135.5	0.74	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.74 out of 20.47

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 20.58 out of 23.05

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.31 out of 23.79

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.90 out of 20.47

Confidence: medium

Additional weak hits (36):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.91 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.82 out of 21.55

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 20.79 out of 30.97

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.98 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.17 out of 29.38

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.20 out of 20.97

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.07 out of 36.54

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.56 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.20 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.83 out of 21.55

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.12 out of 27.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.84 out of 27.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.66 out of 29.65

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.03 out of 25.88

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.76 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.36 out of 28.19

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.60 out of 23.43

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.44 out of 29.65

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.22 out of 26.12

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.50 out of 30.98

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.66 out of 24.78

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.60 out of 30.11

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.41 out of 30.11

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.07 out of 21.84

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.89 out of 27.78

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.16 out of 29.51

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.69 out of 35.63

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.95 out of 30.98

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.41 out of 26.85

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.36 out of 18.57

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 6, location 395043 - 505284:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (mal - ccmal) + (pk) + (X) + (X) + (Ser) + (Val) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 395043 - 459230:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X) + (X) + (Ser) + (Val) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 8, location 424344 - 466204:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X) + (X) + (Ser) + (Val)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 9, location 428344 - 470084:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Val) + (Ser) + (X) + (X) + (pk)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 10, location 449005 - 505284:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (mal - ccmal) + (pk)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 11, location 489835 - 563162:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal) + (mal)
Non-colinear ordering:: JLDCGCHE_03491 + JLDCGCHE_03490 + JLDCGCHE_03473

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 12, location 489835 - 541438:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal) + (mal)
Non-colinear ordering:: JLDCGCHE_03491 + JLDCGCHE_03490 + JLDCGCHE_03473

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 13, location 520041 - 563162:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal)
Non-colinear ordering:: JLDCGCHE_03491 + JLDCGCHE_03490

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 14, location 536511 - 563162:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal)
Non-colinear ordering:: JLDCGCHE_03491 + JLDCGCHE_03490

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_03418: X

AMP-binding (1088..1473): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVLFTGLVVK
Nearest Stachelhaus code(s):: Ala DVFFVGLVAK (50% 8Å match)
Stachelhaus code match:: 70% (weak)

JLDCGCHE_03422: X

AMP-binding (24..422): X

nrpys: Piz

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVQFNAHMVK
Nearest Stachelhaus code(s):: Piz DVQFNAHMVK (88% 8Å match)
Stachelhaus code match:: 100% (strong)

JLDCGCHE_03427: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (7..382): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: DALWVGGTFK
Nearest Stachelhaus code(s):: Val DALWLGGTFK (88% 8Å match); bOH-Val DALWLGGTFK (82% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_03430: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (1016..1387): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWHFSLVDK
Nearest Stachelhaus code(s):: Ser DVWHFSLVDK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

JLDCGCHE_03435: X

AMP-binding (24..420): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DDLQTSTIDK
Nearest Stachelhaus code(s):: Ala DILQISLIYK (47% 8Å match)
Stachelhaus code match:: 60% (weak)

JLDCGCHE_03438: X

AMP-binding (7..401): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DTENVGAMVK
Nearest Stachelhaus code(s):: bLys DTEDVGTMVK (82% 8Å match)
Stachelhaus code match:: 80% (moderate)

JLDCGCHE_03454: pk

PKS_AT (567..862): pk

ATSignature: Ethylmalonyl-CoA

Top 3 matches:: Ethylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Methylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 197.5
Ethylmalonyl-CoA: 191.6
Methoxymalonyl-CoA: 163.2
2-Methylbutyryl-CoA: 150.3
trans-1,2-CPDA: 122.6
CHC-CoA: 122.0
Propionyl-CoA: 110.1
Malonyl-CoA: 99.0
Isobutyryl-CoA: 94.3
Benzoyl-CoA: 50.5
Acetyl-CoA: 48.1
3-Methylbutyryl-CoA: 39.8
fatty_acid: 39.1
inactive: 28.1

JLDCGCHE_03456: mal - mal

PKS_AT (508..790): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 83.3%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 216.8
inactive: 119.9
Methoxymalonyl-CoA: 72.7
Methylmalonyl-CoA: 58.2
Propionyl-CoA: 51.3
Isobutyryl-CoA: 27.5
2-Methylbutyryl-CoA: 23.3
Acetyl-CoA: 22.7
Ethylmalonyl-CoA: 19.2
Benzoyl-CoA: 15.1
CHC-CoA: 12.5
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (1459..1744): mal

ATSignature: Malonyl-CoA, inactive

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 91.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 208.1
inactive: 108.5
Methoxymalonyl-CoA: 65.2
Methylmalonyl-CoA: 53.3
Propionyl-CoA: 33.5
Isobutyryl-CoA: 22.9
Acetyl-CoA: 17.8
Ethylmalonyl-CoA: 16.1
Benzoyl-CoA: 15.6
2-Methylbutyryl-CoA: 12.0
CHC-CoA: 9.1
trans-1,2-CPDA: 3.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_03473: mal

PKS_AT (560..850): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 70.8%; 2-Rhyd-Malonyl-CoA: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 93.9
Methoxymalonyl-CoA: 31.9
Methylmalonyl-CoA: 27.3
inactive: 23.2
Ethylmalonyl-CoA: 22.0
Propionyl-CoA: 14.6
Isobutyryl-CoA: 13.6
CHC-CoA: 9.4
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

JLDCGCHE_03474: mxmal

PKS_AT (784..1079): mxmal

ATSignature: (unknown)

No matches above 50%

minowa: Methoxymalonyl-CoA

Prediction, score:

Methoxymalonyl-CoA: 29.1
Methylmalonyl-CoA: 27.5
Ethylmalonyl-CoA: 24.7
Propionyl-CoA: 20.8
Malonyl-CoA: 15.7
Isobutyryl-CoA: 14.6
2-Methylbutyryl-CoA: 13.1
trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_03491: mal

PKS_AT (617..834): mal

ATSignature: (unknown)

No matches above 50%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 13.5
trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Methylmalonyl-CoA: 0.0
Methoxymalonyl-CoA: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

JLDCGCHE_03492: mal

PKS_AT (1158..1449): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 62.5%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 78.5
Methoxymalonyl-CoA: 37.5
Methylmalonyl-CoA: 37.1
inactive: 35.4
Propionyl-CoA: 18.5
Isobutyryl-CoA: 17.0
Ethylmalonyl-CoA: 13.1
Benzoyl-CoA: 8.7
2-Methylbutyryl-CoA: 2.1
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
AfsR	Pleiotropic regulatory for antibiotic production
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0006 - Region 1 - redox-cofactor

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Location: 166,976 - 189,012 nt. (total: 22,037 nt) Show pHMM detection rules used

redox-cofactor: (cds(PF04055 and (TIGR04085 or SPASM)) and (TIGR02111 or TIGR03966) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]))

Legend:

core biosynthetic genes

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Pfam domains

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

JLDCGCHE_03688: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acetyltransferase

JLDCGCHE_03671: acetyl-CoA acetyltransferase

smcogs: SMCOG1124: acetyl-CoA acetyltransferase

Ligases: synthase

JLDCGCHE_03670: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002318.2	0.50	ribosomal	canucin A, canucin B	Streptomyces canus
BGC0000866.5	0.42	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0000867.3	0.41	other (other)	polyhydroxyalkanoic acids	Ectothiorhodospira shaposhnikovii
BGC0001483.4	0.40	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0002316.2	0.40	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0002213.3	0.40	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5
BGC0000591.5	0.39	ribosomal	marinostatin	Alteromonas sp. B-10-31
BGC0001587.5	0.38	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000528.5	0.37	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000883.5	0.36	other (other)	arginomycin	Streptomyces arginensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002318.2	0.50	ribosomal	canucin A, canucin B	Streptomyces canus
BGC0000866.5	0.42	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0000867.3	0.41	other (other)	polyhydroxyalkanoic acids	Ectothiorhodospira shaposhnikovii
BGC0001483.4	0.40	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0002316.2	0.40	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0002213.3	0.40	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5
BGC0000591.5	0.39	ribosomal	marinostatin	Alteromonas sp. B-10-31
BGC0001587.5	0.38	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000528.5	0.37	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000883.5	0.36	other (other)	arginomycin	Streptomyces arginensis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (2):

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 22.24 out of 32.93

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.45 out of 33.14

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

RREFinder

TFBS Finder

RRE predictions

: RRE type: PqqD_RRE; Location: 3 - 86; Score: 74.3

TFBS definitions

Regulator	Description

NPDC023815.ctg-0008 - Region 1 - terpene

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Location: 1 - 12,297 nt. (total: 12,297 nt) Show pHMM detection rules used

Region on contig edge.

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

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resistance

TTA codons

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Terpene

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: aminotransferase

JLDCGCHE_04392: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000584.5	0.40	ribosomal	colicin V	Escherichia coli
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000616.4	0.39	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0002716.2	0.37	NRPS	gamexpeptide A, gamexpeptide B, gamexpeptide E, luminmide B, luminmide D, luminmide E, luminmide F, luminmide G	Photorhabdus laumondii subsp. laumondii
BGC0000572.5	0.36	ribosomal	capistruin	Burkholderia thailandensis E444
BGC0001210.5	0.36	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001229.4	0.36	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0002442.3	0.34	ribosomal	toyoncin	Bacillus toyonensis
BGC0000552.3	0.33	ribosomal	SmbA, SmbB	Streptococcus mutans
BGC0002382.3	0.32	ribosomal	grimoviridin	Grimontia marina

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000584.5	0.40	ribosomal	colicin V	Escherichia coli
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000616.4	0.39	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0002716.2	0.37	NRPS	gamexpeptide A, gamexpeptide B, gamexpeptide E, luminmide B, luminmide D, luminmide E, luminmide F, luminmide G	Photorhabdus laumondii subsp. laumondii
BGC0000572.5	0.36	ribosomal	capistruin	Burkholderia thailandensis E444
BGC0001210.5	0.36	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001229.4	0.36	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0002442.3	0.34	ribosomal	toyoncin	Bacillus toyonensis
BGC0000552.3	0.33	ribosomal	SmbA, SmbB	Streptococcus mutans
BGC0002382.3	0.32	ribosomal	grimoviridin	Grimontia marina

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
tetraterpene	C40 carotenoid		C40	unknown	unknown

Genes with terpene domains:

JLDCGCHE_04387: Lycopene_cycl

Domain 1 (2 - 337): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

Additional weak hits (4):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.45 out of 30.25

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.84 out of 32.93

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.87 out of 36.53

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.05 out of 26.06

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

No acronyms to display

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NPDC023815.ctg-0008 - Region 2 - NI-siderophore

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Location: 107,189 - 140,452 nt. (total: 33,264 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

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Gene/CDS overview

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Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

JLDCGCHE_04500: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

Transferases: methyltransferase phosphotransferase

JLDCGCHE_04488: Glucose-specific phosphotransferase enzyme IIA

smcogs: SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

JLDCGCHE_04502: methyltransferase

smcogs: SMCOG1089: methyltransferase

Lyases: decarboxylase

JLDCGCHE_04497: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002692.2	0.68	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001572.3	0.67	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.62	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.60	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5	0.59	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000940.5	0.59	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0002305.2	0.59	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0002683.2	0.55	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0000244.4	0.54	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0001531.5	0.54	other (other)	bisucaberin B	Tenacibaculum mesophilum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002692.2	0.68	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001572.3	0.67	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.62	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.60	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5	0.59	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000940.5	0.59	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0002305.2	0.59	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0002683.2	0.55	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0000244.4	0.54	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0001531.5	0.54	other (other)	bisucaberin B	Tenacibaculum mesophilum

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 23.47 out of 27.04

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.71 out of 36.53

Confidence: medium

Additional weak hits (5):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.90 out of 30.22

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 24.27 out of 36.53

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.56 out of 29.38

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.03 out of 29.65

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
DasR	N-acetylglucosamine dependent repressor
DmdR1	Iron(II)-dependent repressor

NPDC023815.ctg-0008 - Region 3 - lanthipeptide-class-ii

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Location: 196,556 - 219,396 nt. (total: 22,841 nt) Show pHMM detection rules used

lanthipeptide-class-ii: cds(LANC_like and DUF4135)

Legend:

core biosynthetic genes

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Gene overview

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TFBS Finder

Pfam domains

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Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

JLDCGCHE_04568: NADH:flavin oxidoreductase/NADH oxidase

smcogs: SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

JLDCGCHE_04582: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

JLDCGCHE_04583: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

Hydrolases: glucosidase

JLDCGCHE_04570: Alpha-glucosidase

smcogs: SMCOG1257: Alpha-glucosidase

Lyases: cyclase

JLDCGCHE_04576: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Translocases: transporter

JLDCGCHE_04573: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002285.2	0.61	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002703.2	0.49	ribosomal	archalan α	Halorussus salinus
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0002704.2	0.47	ribosomal	archalan β	Halorussus salinus
BGC0001210.5	0.45	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000500.5	0.45	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0000527.5	0.44	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001364.3	0.43	ribosomal	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001407.5	0.43	ribosomal	bicereucin	Bacillus cereus SJ1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002285.2	0.61	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002703.2	0.49	ribosomal	archalan α	Halorussus salinus
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0002704.2	0.47	ribosomal	archalan β	Halorussus salinus
BGC0001210.5	0.45	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000500.5	0.45	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0000527.5	0.44	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001364.3	0.43	ribosomal	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001407.5	0.43	ribosomal	bicereucin	Bacillus cereus SJ1

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for JLDCGCHE_04576

allorf_205656_205769

Leader:

MVGRNRTTGG

Core:

TRRTARELANECKRAQAERNSCPIVAT

Core with dehydrations:

DhbRRDhbARELANECysKRAQAERNDhaCysPIVADhb

antiSMASH-DB 4.0 matches for allorf_205656_205769

25.9%

NZ_CP034669.1:

Lanthipeptides: EJ065_RS32040_lanthipeptide

14

RAQAERNSCPIVAT

27

+A + RNSC V T

2

QAVSHRNSCGYVCT

15

18.0%

NZ_CP028130.1:

Lanthipeptides: allorf_3103331_3103519_lanthipeptide

4

TARELANECKRAQAERNSCPIVA

26

TAR N + + R CPI A

21

TARHRENHGESIEQRRERCPISA

43

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26

Confidence: medium

Additional weak hits (7):

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 20.59 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.15 out of 27.78

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.07 out of 33.73

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.47 out of 26.85

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.57 out of 31.73

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.24 out of 27.55

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.31 out of 24.78

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Lanthipeptides

TFBS Finder

Core peptide predictions

allorf_205656_205769 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 2971.6 Da

Molecular weight: 2973.3 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2991.4 Da N = 1; 3009.4 Da N = 2

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NPDC023815.ctg-0010 - Region 1 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 202,083 nt. (total: 202,083 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase reductase

JLDCGCHE_04985: alkyl hydroperoxide reductase/ Thiol specific

smcogs: SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

JLDCGCHE_04987: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_04996: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

JLDCGCHE_05000: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

JLDCGCHE_05008: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: acylase glycosyltransferase

JLDCGCHE_05004: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

JLDCGCHE_05005: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

JLDCGCHE_05007: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

JLDCGCHE_05012: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

JLDCGCHE_05021: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Hydrolases: esterase glucosidase hydrolase

JLDCGCHE_04995: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

JLDCGCHE_05018: thioesterase

smcogs: SMCOG1004: thioesterase

JLDCGCHE_05019: thioesterase

smcogs: SMCOG1004: thioesterase

JLDCGCHE_05024: Alpha-glucosidase

smcogs: SMCOG1257: Alpha-glucosidase

Lyases: decarboxylase dehydratase hydratase

JLDCGCHE_04990: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

JLDCGCHE_04994: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

JLDCGCHE_04997: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase

JLDCGCHE_04986: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_04989: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_04991: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_05001: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

JLDCGCHE_05002: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_05003: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_05006: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_05009: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_05010: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_05011: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Translocases: transporter

JLDCGCHE_05027: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.73	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.73	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.72	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001758.4	0.62	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002286.3	0.61	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.61	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.61	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.61	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.61	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.77	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.76	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.76	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.76	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0000041.3	0.66	PKS	oronofacic acid	Pseudomonas syringae
BGC0001758.4	0.65	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002192.3	0.64	PKS	FR901512	fungal sp. No.14919
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.90 out of 23.79

Confidence: medium

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.16 out of 26.33

Confidence: medium

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 22.05 out of 22.40

Confidence: strong

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.61 out of 27.04

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.11 out of 26.85

Confidence: medium

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 16.35 out of 18.57

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 19.52 out of 19.52

Confidence: strong

Additional weak hits (23):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.62 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.75 out of 26.06

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.62 out of 30.98

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.19 out of 24.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.30 out of 32.93

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.36 out of 20.01

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.48 out of 25.31

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.14 out of 30.22

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.33 out of 30.97

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.06 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.75 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.46 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.16 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.98 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.58 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.24 out of 26.06

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.20 out of 26.85

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.30 out of 30.25

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.03 out of 33.14

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.07 out of 35.63

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 202083:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - ohmal - ccmal) + (ohmal - ohmal - ohmal) + (Me-ccmal - ohmal - Me-ccmal - ohmal) + (Me-ccmal - Me-ohmal - Me-redmal) + (ohmal - Me-ohmal) + (ohmal - ohmal - ohmal) + (Me-ccmal - ohmal - Me-ccmal) + (ohmal - Me-ccmal - ohmal - redmal - Me-ohmal) + (ccmal - Me-ccmal - ccmal) + (Me-ohmal - Me-ohmal - ohmal) + (ohmal) + (Cys) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 0 - 35246:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X) + (Cys) + (ohmal) + (Me-ohmal - Me-ohmal - ohmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 4666 - 202083:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - ohmal - ccmal) + (ohmal - ohmal - ohmal) + (Me-ccmal - ohmal - Me-ccmal - ohmal) + (Me-ccmal - Me-ohmal - Me-redmal) + (ohmal - Me-ohmal) + (ohmal - ohmal - ohmal) + (Me-ccmal - ohmal - Me-ccmal) + (ohmal - Me-ccmal - ohmal - redmal - Me-ohmal) + (ccmal - Me-ccmal - ccmal) + (Me-ohmal - Me-ohmal - ohmal) + (ohmal) + (Cys) + (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_04986: X

AMP-binding (34..404): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: GILSIGVVIK
Nearest Stachelhaus code(s):: Hpg DALSIGAVIK (32% 8Å match)
Stachelhaus code match:: 70% (weak)

JLDCGCHE_04989: X

AMP-binding (19..408): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DPRFFALLAK
Nearest Stachelhaus code(s):: Asp DPRHLALLAK (65% 8Å match)
Stachelhaus code match:: 80% (moderate)

JLDCGCHE_04991: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (535..936): Cys

nrpys: Cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLYNMSLIWK
Nearest Stachelhaus code(s):: Cys DLYNMSLIWK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

JLDCGCHE_05001: mal

PKS_AT (556..838): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; 2-Methylbutyryl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 180.9
Methoxymalonyl-CoA: 81.2
Methylmalonyl-CoA: 75.5
inactive: 66.2
Isobutyryl-CoA: 52.5
Ethylmalonyl-CoA: 44.7
Propionyl-CoA: 39.7
fatty_acid: 29.9
Benzoyl-CoA: 25.3
2-Methylbutyryl-CoA: 22.2
CHC-CoA: 17.9
Acetyl-CoA: 17.8
trans-1,2-CPDA: 14.4
3-Methylbutyryl-CoA: -0.5

JLDCGCHE_05002: mmal - mmal - mal

PKS_AT (564..852): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 210.2
Ethylmalonyl-CoA: 201.0
Methoxymalonyl-CoA: 171.3
2-Methylbutyryl-CoA: 141.0
Propionyl-CoA: 120.3
trans-1,2-CPDA: 114.1
CHC-CoA: 105.7
Malonyl-CoA: 103.3
Isobutyryl-CoA: 80.4
Benzoyl-CoA: 76.5
Acetyl-CoA: 55.4
fatty_acid: 45.3
3-Methylbutyryl-CoA: 43.4
inactive: 42.0

PKS_AT (2083..2373): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 211.4
Ethylmalonyl-CoA: 202.2
Methoxymalonyl-CoA: 169.1
2-Methylbutyryl-CoA: 137.2
trans-1,2-CPDA: 115.0
Propionyl-CoA: 106.6
CHC-CoA: 105.4
Isobutyryl-CoA: 100.2
Malonyl-CoA: 95.9
Benzoyl-CoA: 78.9
Acetyl-CoA: 51.0
3-Methylbutyryl-CoA: 48.6
fatty_acid: 41.8
inactive: 33.7

PKS_AT (3596..3894): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 214.3
inactive: 104.8
Methoxymalonyl-CoA: 66.9
Methylmalonyl-CoA: 61.7
Propionyl-CoA: 38.3
Ethylmalonyl-CoA: 31.0
Isobutyryl-CoA: 24.0
2-Methylbutyryl-CoA: 20.7
Benzoyl-CoA: 15.0
Acetyl-CoA: 14.7
CHC-CoA: 12.6
trans-1,2-CPDA: 2.3
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_05003: mal - mmal - mal

PKS_AT (560..822): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 189.6
inactive: 79.7
Methoxymalonyl-CoA: 73.4
Methylmalonyl-CoA: 70.1
Ethylmalonyl-CoA: 45.0
Isobutyryl-CoA: 44.6
Propionyl-CoA: 44.0
fatty_acid: 30.1
Acetyl-CoA: 29.1
CHC-CoA: 26.5
trans-1,2-CPDA: 23.0
2-Methylbutyryl-CoA: 19.8
Benzoyl-CoA: 19.3
3-Methylbutyryl-CoA: 5.6

PKS_AT (2245..2534): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 217.6
Ethylmalonyl-CoA: 209.1
Methoxymalonyl-CoA: 173.3
2-Methylbutyryl-CoA: 143.3
trans-1,2-CPDA: 120.0
Propionyl-CoA: 112.1
Malonyl-CoA: 105.7
CHC-CoA: 103.7
Isobutyryl-CoA: 92.6
Benzoyl-CoA: 79.2
Acetyl-CoA: 57.1
3-Methylbutyryl-CoA: 47.6
fatty_acid: 39.6
inactive: 34.4

PKS_AT (3907..4197): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; inactive: 70.8%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 173.9
Methoxymalonyl-CoA: 74.8
inactive: 67.4
Methylmalonyl-CoA: 61.6
Isobutyryl-CoA: 42.1
Propionyl-CoA: 36.4
Ethylmalonyl-CoA: 32.8
Acetyl-CoA: 29.8
Benzoyl-CoA: 27.9
2-Methylbutyryl-CoA: 19.8
fatty_acid: 15.0
3-Methylbutyryl-CoA: 6.2
CHC-CoA: 5.8
trans-1,2-CPDA: 5.2

JLDCGCHE_05004: mal - mmal - mal - mal - mmal

PKS_AT (553..815): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 66.7%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.3
inactive: 77.5
Methoxymalonyl-CoA: 75.3
Methylmalonyl-CoA: 74.7
Ethylmalonyl-CoA: 49.7
Propionyl-CoA: 46.4
Isobutyryl-CoA: 43.4
Acetyl-CoA: 25.0
trans-1,2-CPDA: 23.7
CHC-CoA: 22.5
2-Methylbutyryl-CoA: 21.7
fatty_acid: 20.5
Benzoyl-CoA: 20.1
3-Methylbutyryl-CoA: 0.0

PKS_AT (2004..2293): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 214.8
Ethylmalonyl-CoA: 207.8
Methoxymalonyl-CoA: 168.1
2-Methylbutyryl-CoA: 136.0
trans-1,2-CPDA: 113.2
Propionyl-CoA: 107.9
Malonyl-CoA: 102.9
CHC-CoA: 100.2
Isobutyryl-CoA: 94.0
Benzoyl-CoA: 76.3
Acetyl-CoA: 57.9
3-Methylbutyryl-CoA: 49.1
inactive: 38.5
fatty_acid: 37.0

PKS_AT (3690..3952): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 193.6
inactive: 85.5
Methoxymalonyl-CoA: 77.9
Methylmalonyl-CoA: 77.1
Propionyl-CoA: 48.6
Ethylmalonyl-CoA: 48.4
Isobutyryl-CoA: 43.2
CHC-CoA: 32.8
trans-1,2-CPDA: 24.1
fatty_acid: 23.7
Acetyl-CoA: 21.2
2-Methylbutyryl-CoA: 20.1
Benzoyl-CoA: 19.8
3-Methylbutyryl-CoA: 2.9

PKS_AT (5137..5435): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 83.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.3
inactive: 99.6
Methoxymalonyl-CoA: 51.3
Methylmalonyl-CoA: 45.1
Propionyl-CoA: 27.3
Isobutyryl-CoA: 24.9
Acetyl-CoA: 19.4
2-Methylbutyryl-CoA: 17.0
Benzoyl-CoA: 15.6
fatty_acid: 13.3
3-Methylbutyryl-CoA: 12.5
Ethylmalonyl-CoA: 5.2
CHC-CoA: 1.7
trans-1,2-CPDA: 0.0

PKS_AT (7194..7483): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 209.5
Ethylmalonyl-CoA: 200.8
Methoxymalonyl-CoA: 168.4
2-Methylbutyryl-CoA: 143.0
Propionyl-CoA: 115.0
trans-1,2-CPDA: 108.0
CHC-CoA: 104.6
Malonyl-CoA: 102.6
Isobutyryl-CoA: 82.7
Benzoyl-CoA: 74.6
Acetyl-CoA: 55.1
3-Methylbutyryl-CoA: 47.4
fatty_acid: 41.6
inactive: 36.8

JLDCGCHE_05005: mmal - mal - mmal

PKS_AT (562..851): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 213.8
Ethylmalonyl-CoA: 204.1
Methoxymalonyl-CoA: 167.1
2-Methylbutyryl-CoA: 133.3
CHC-CoA: 115.8
Propionyl-CoA: 110.3
trans-1,2-CPDA: 106.1
Malonyl-CoA: 100.6
Isobutyryl-CoA: 99.9
Benzoyl-CoA: 81.0
Acetyl-CoA: 61.3
3-Methylbutyryl-CoA: 53.3
fatty_acid: 38.6
inactive: 34.8

PKS_AT (2219..2512): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 213.2
inactive: 109.4
Methoxymalonyl-CoA: 82.0
Methylmalonyl-CoA: 65.1
Isobutyryl-CoA: 48.4
Propionyl-CoA: 39.3
Benzoyl-CoA: 30.1
Ethylmalonyl-CoA: 28.6
fatty_acid: 24.6
Acetyl-CoA: 21.9
2-Methylbutyryl-CoA: 21.7
CHC-CoA: 13.2
trans-1,2-CPDA: 7.7
3-Methylbutyryl-CoA: 0.0

PKS_AT (3628..3914): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 212.9
Ethylmalonyl-CoA: 205.2
Methoxymalonyl-CoA: 170.7
2-Methylbutyryl-CoA: 144.1
trans-1,2-CPDA: 113.3
CHC-CoA: 112.3
Malonyl-CoA: 111.9
Propionyl-CoA: 107.6
Isobutyryl-CoA: 88.2
Benzoyl-CoA: 85.2
Acetyl-CoA: 55.6
inactive: 43.8
3-Methylbutyryl-CoA: 42.9
fatty_acid: 37.3

JLDCGCHE_05006: mal - mal - mal

PKS_AT (553..815): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 194.2
inactive: 84.6
Methoxymalonyl-CoA: 78.9
Methylmalonyl-CoA: 78.7
Ethylmalonyl-CoA: 52.1
Propionyl-CoA: 46.3
Isobutyryl-CoA: 42.6
CHC-CoA: 33.6
Acetyl-CoA: 28.1
trans-1,2-CPDA: 24.5
Benzoyl-CoA: 23.9
fatty_acid: 23.1
2-Methylbutyryl-CoA: 19.5
3-Methylbutyryl-CoA: 6.0

PKS_AT (2023..2302): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 192.9
inactive: 79.4
Methoxymalonyl-CoA: 72.4
Methylmalonyl-CoA: 66.3
Propionyl-CoA: 39.2
Isobutyryl-CoA: 35.8
Ethylmalonyl-CoA: 30.1
fatty_acid: 24.6
CHC-CoA: 23.6
Acetyl-CoA: 18.8
Benzoyl-CoA: 15.9
trans-1,2-CPDA: 15.1
2-Methylbutyryl-CoA: 13.8
3-Methylbutyryl-CoA: 0.0

PKS_AT (3449..3732): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.5
inactive: 78.3
Methoxymalonyl-CoA: 64.8
Methylmalonyl-CoA: 56.6
Propionyl-CoA: 32.5
Isobutyryl-CoA: 25.7
Ethylmalonyl-CoA: 23.2
fatty_acid: 20.3
CHC-CoA: 20.3
Benzoyl-CoA: 16.5
Acetyl-CoA: 13.5
trans-1,2-CPDA: 12.9
2-Methylbutyryl-CoA: 10.7
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_05007: mal - mmal

PKS_AT (555..817): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.7
Methoxymalonyl-CoA: 80.6
Methylmalonyl-CoA: 79.1
inactive: 72.9
Ethylmalonyl-CoA: 58.7
Propionyl-CoA: 44.2
Isobutyryl-CoA: 43.5
CHC-CoA: 32.0
trans-1,2-CPDA: 31.8
fatty_acid: 28.4
Acetyl-CoA: 27.9
2-Methylbutyryl-CoA: 25.7
Benzoyl-CoA: 22.1
3-Methylbutyryl-CoA: 9.0

PKS_AT (1955..2230): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 210.9
Ethylmalonyl-CoA: 198.3
Methoxymalonyl-CoA: 166.7
2-Methylbutyryl-CoA: 136.9
trans-1,2-CPDA: 110.2
Propionyl-CoA: 109.0
CHC-CoA: 107.5
Malonyl-CoA: 102.5
Isobutyryl-CoA: 87.4
Benzoyl-CoA: 87.1
Acetyl-CoA: 61.1
inactive: 42.1
fatty_acid: 40.7
3-Methylbutyryl-CoA: 39.3

JLDCGCHE_05008: mmal - mmal - mmal

PKS_AT (559..848): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 210.9
Ethylmalonyl-CoA: 198.0
Methoxymalonyl-CoA: 167.4
2-Methylbutyryl-CoA: 138.5
CHC-CoA: 112.5
Propionyl-CoA: 112.0
trans-1,2-CPDA: 101.3
Malonyl-CoA: 96.6
Isobutyryl-CoA: 88.3
Benzoyl-CoA: 78.7
Acetyl-CoA: 60.5
3-Methylbutyryl-CoA: 56.4
fatty_acid: 38.9
inactive: 31.9

PKS_AT (2211..2500): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 214.5
Ethylmalonyl-CoA: 205.4
Methoxymalonyl-CoA: 167.4
2-Methylbutyryl-CoA: 132.8
Propionyl-CoA: 110.0
CHC-CoA: 108.8
trans-1,2-CPDA: 104.8
Malonyl-CoA: 99.6
Isobutyryl-CoA: 91.8
Benzoyl-CoA: 80.8
Acetyl-CoA: 63.5
3-Methylbutyryl-CoA: 57.8
fatty_acid: 40.6
inactive: 30.4

PKS_AT (3730..4019): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 216.7
Ethylmalonyl-CoA: 207.8
Methoxymalonyl-CoA: 169.6
2-Methylbutyryl-CoA: 140.7
trans-1,2-CPDA: 111.6
Propionyl-CoA: 107.9
CHC-CoA: 106.2
Malonyl-CoA: 101.7
Isobutyryl-CoA: 98.0
Benzoyl-CoA: 77.5
Acetyl-CoA: 61.6
3-Methylbutyryl-CoA: 48.7
fatty_acid: 39.0
inactive: 38.1

JLDCGCHE_05009: mmal - mal - mmal - mal

PKS_AT (583..878): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 219.4
Ethylmalonyl-CoA: 208.7
Methoxymalonyl-CoA: 177.2
2-Methylbutyryl-CoA: 146.5
Malonyl-CoA: 117.0
trans-1,2-CPDA: 115.4
Propionyl-CoA: 112.3
CHC-CoA: 98.6
Isobutyryl-CoA: 78.6
Benzoyl-CoA: 67.8
3-Methylbutyryl-CoA: 54.0
inactive: 46.2
Acetyl-CoA: 42.2
fatty_acid: 37.0

PKS_AT (2250..2512): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.0
Methoxymalonyl-CoA: 80.0
Methylmalonyl-CoA: 77.7
inactive: 75.5
Ethylmalonyl-CoA: 49.2
Propionyl-CoA: 44.6
Isobutyryl-CoA: 44.0
CHC-CoA: 28.9
trans-1,2-CPDA: 25.8
Acetyl-CoA: 25.5
fatty_acid: 25.3
2-Methylbutyryl-CoA: 22.7
Benzoyl-CoA: 18.1
3-Methylbutyryl-CoA: 4.6

PKS_AT (3629..3913): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 208.7
Ethylmalonyl-CoA: 197.2
Methoxymalonyl-CoA: 168.9
2-Methylbutyryl-CoA: 143.4
trans-1,2-CPDA: 110.4
Malonyl-CoA: 107.3
CHC-CoA: 106.4
Propionyl-CoA: 102.7
Benzoyl-CoA: 87.8
Isobutyryl-CoA: 86.1
Acetyl-CoA: 53.0
3-Methylbutyryl-CoA: 40.8
fatty_acid: 36.9
inactive: 36.7

PKS_AT (5258..5524): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 200.5
inactive: 84.5
Methoxymalonyl-CoA: 77.7
Methylmalonyl-CoA: 75.5
Ethylmalonyl-CoA: 44.6
Propionyl-CoA: 43.8
Isobutyryl-CoA: 40.3
CHC-CoA: 25.7
Acetyl-CoA: 24.6
trans-1,2-CPDA: 23.2
fatty_acid: 21.9
Benzoyl-CoA: 20.7
2-Methylbutyryl-CoA: 19.5
3-Methylbutyryl-CoA: 1.7

JLDCGCHE_05010: mal - mal - mal

PKS_AT (553..817): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 193.6
inactive: 80.5
Methoxymalonyl-CoA: 77.5
Methylmalonyl-CoA: 71.9
Ethylmalonyl-CoA: 53.1
Propionyl-CoA: 44.0
Isobutyryl-CoA: 42.3
Acetyl-CoA: 27.6
fatty_acid: 27.2
Benzoyl-CoA: 24.5
2-Methylbutyryl-CoA: 23.5
trans-1,2-CPDA: 20.8
CHC-CoA: 19.2
3-Methylbutyryl-CoA: 3.6

PKS_AT (1987..2249): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 196.8
inactive: 79.6
Methylmalonyl-CoA: 78.2
Methoxymalonyl-CoA: 78.1
Ethylmalonyl-CoA: 51.3
Propionyl-CoA: 48.0
Isobutyryl-CoA: 41.6
CHC-CoA: 29.8
trans-1,2-CPDA: 28.3
fatty_acid: 25.3
Acetyl-CoA: 24.8
Benzoyl-CoA: 23.3
2-Methylbutyryl-CoA: 20.6
3-Methylbutyryl-CoA: 6.1

PKS_AT (3441..3733): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 87.5%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 180.5
inactive: 103.8
Methoxymalonyl-CoA: 45.1
Methylmalonyl-CoA: 36.2
Propionyl-CoA: 19.7
fatty_acid: 16.5
Acetyl-CoA: 14.2
Isobutyryl-CoA: 11.5
Ethylmalonyl-CoA: 9.9
Benzoyl-CoA: 8.3
trans-1,2-CPDA: 4.4
2-Methylbutyryl-CoA: 4.4
3-Methylbutyryl-CoA: 0.0
CHC-CoA: -2.6

JLDCGCHE_05011: mmal - mal - mal

PKS_AT (528..816): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 207.4
Ethylmalonyl-CoA: 200.7
Methoxymalonyl-CoA: 165.1
2-Methylbutyryl-CoA: 119.5
CHC-CoA: 109.8
trans-1,2-CPDA: 106.5
Propionyl-CoA: 101.7
Malonyl-CoA: 96.5
Isobutyryl-CoA: 91.9
Benzoyl-CoA: 77.8
Acetyl-CoA: 64.5
3-Methylbutyryl-CoA: 48.0
fatty_acid: 37.5
inactive: 31.7

PKS_AT (1491..1755): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 194.2
inactive: 85.8
Methoxymalonyl-CoA: 75.9
Methylmalonyl-CoA: 75.0
Ethylmalonyl-CoA: 48.1
Propionyl-CoA: 45.3
Isobutyryl-CoA: 43.8
CHC-CoA: 26.6
Acetyl-CoA: 22.6
trans-1,2-CPDA: 22.1
fatty_acid: 22.0
2-Methylbutyryl-CoA: 21.4
Benzoyl-CoA: 21.0
3-Methylbutyryl-CoA: 3.1

PKS_AT (2913..3208): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 193.4
inactive: 84.8
Methoxymalonyl-CoA: 60.0
Methylmalonyl-CoA: 48.3
Propionyl-CoA: 33.2
Acetyl-CoA: 18.9
fatty_acid: 16.3
Ethylmalonyl-CoA: 16.3
Benzoyl-CoA: 15.3
CHC-CoA: 14.6
Isobutyryl-CoA: 11.2
trans-1,2-CPDA: 10.6
2-Methylbutyryl-CoA: 10.6
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
DasR	N-acetylglucosamine dependent repressor
HypR	L-hydroxyproline utilization repressor
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism
ToxT	Regulator of MSHA biosynthesis

NPDC023815.ctg-0010 - Region 2 - RiPP-like

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Location: 204,612 - 216,453 nt. (total: 11,842 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: aminotransferase

JLDCGCHE_05037: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Ligases: synthase

JLDCGCHE_05032: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000919.5	0.44	other (other)	phaseolotoxin	Pseudomonas syringae
BGC0001485.4	0.41	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0000468.5	0.41	ribosomal	bottromycin A2	Streptomyces bottropensis DSM40262
BGC0001157.6	0.41	ribosomal	bottromycin A2	Streptomyces scabiei 87.22
BGC0000470.6	0.41	ribosomal	bottromycin D	Streptomyces sp. WMMB272
BGC0000469.6	0.39	ribosomal	bottromycin A2	Streptomyces sp. BC16019
BGC0000707.5	0.39	saccharide	kasugamycin	Streptomyces kasugaensis
BGC0001510.5	0.34	other (other)	anisomycin	Streptomyces hygrospinosus
BGC0000598.5	0.33	ribosomal	polytheonamide A, polytheonamide B	Candidatus Entotheonella factor
BGC0001753.3	0.32	ribosomal	radamycin, globimycin	Streptomyces globisporus subsp. globisporus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000919.5	0.44	other (other)	phaseolotoxin	Pseudomonas syringae
BGC0001485.4	0.41	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0000468.5	0.41	ribosomal	bottromycin A2	Streptomyces bottropensis DSM40262
BGC0001157.6	0.41	ribosomal	bottromycin A2	Streptomyces scabiei 87.22
BGC0000470.6	0.41	ribosomal	bottromycin D	Streptomyces sp. WMMB272
BGC0000469.6	0.39	ribosomal	bottromycin A2	Streptomyces sp. BC16019
BGC0000707.5	0.39	saccharide	kasugamycin	Streptomyces kasugaensis
BGC0001510.5	0.34	other (other)	anisomycin	Streptomyces hygrospinosus
BGC0000598.5	0.33	ribosomal	polytheonamide A, polytheonamide B	Candidatus Entotheonella factor
BGC0001753.3	0.32	ribosomal	radamycin, globimycin	Streptomyces globisporus subsp. globisporus

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (1):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.78 out of 20.97

Confidence: weak

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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TFBS Finder

TFBS definitions

Regulator	Description

NPDC023815.ctg-0010 - Region 3 - indole

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Download region SVG

Location: 216,767 - 238,424 nt. (total: 21,658 nt) Show pHMM detection rules used

Region on contig edge.

indole: (indsynth or dmat or indole_PTase)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: Oxidation oxygenase

JLDCGCHE_05050: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_05051: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_05052: Oxidation

MITE: MITE0000068Oxidation (identity: 60.70%)

JLDCGCHE_05054: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: glycosyltransferase

JLDCGCHE_05055: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

Hydrolases: deacetylase

JLDCGCHE_05047: acetylornithine deacetylase

smcogs: SMCOG1247: acetylornithine deacetylase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001224.5	0.56	other (other)	reductasporine	uncultured bacterium
BGC0002631.2	0.54	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000817.4	0.53	other (other)	methylarcyriarubin	uncultured bacterium
BGC0001336.5	0.50	other (other)	erdasporine A, erdasporine B, erdasporine C	uncultured bacterium
BGC0001223.5	0.49	other (other)	hydroxysporine	uncultured bacterium
BGC0000829.5	0.48	other (other)	violacein	Chromobacterium violaceum
BGC0000830.5	0.45	other (aminocoumarin)	violacein	uncultured bacterium
BGC0000844.5	0.45	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0000831.3	0.45	other (other)	violacein	Duganella sp. B2
BGC0000821.5	0.43	other (other)	rebeccamycin	Lechevalieria aerocolonigenes

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001224.5	0.56	other (other)	reductasporine	uncultured bacterium
BGC0002631.2	0.54	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000817.4	0.53	other (other)	methylarcyriarubin	uncultured bacterium
BGC0001336.5	0.50	other (other)	erdasporine A, erdasporine B, erdasporine C	uncultured bacterium
BGC0001223.5	0.49	other (other)	hydroxysporine	uncultured bacterium
BGC0000829.5	0.48	other (other)	violacein	Chromobacterium violaceum
BGC0000830.5	0.45	other (aminocoumarin)	violacein	uncultured bacterium
BGC0000844.5	0.45	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0000831.3	0.45	other (other)	violacein	Duganella sp. B2
BGC0000821.5	0.43	other (other)	rebeccamycin	Lechevalieria aerocolonigenes

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (8):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.15 out of 30.22

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.22 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.94 out of 27.78

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.62 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.25 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.29 out of 20.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.09 out of 27.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.58 out of 29.65

Confidence: weak

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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TFBS Finder

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0012 - Region 1 - lassopeptide

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Location: 194,913 - 217,473 nt. (total: 22,561 nt) Show pHMM detection rules used

lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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KnownClusterBlast

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Lasso peptides

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

JLDCGCHE_05472: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Isomerases: mutase

JLDCGCHE_05476: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000948.5	0.46	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0001539.4	0.44	ribosomal	cattlecin	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001548.4	0.44	ribosomal	citrulassin A	Streptomyces albulus
BGC0001506.5	0.43	ribosomal	anantin B1, anantin B2	Streptomyces sp. NRRL S-146
BGC0002053.3	0.43	ribosomal	ulleungdin	Streptomyces sp.
BGC0002074.2	0.41	ribosomal	huascopeptin	Streptomyces huasconensis
BGC0001307.3	0.41	ribosomal	chaxapeptin	Streptomyces leeuwenhoekii
BGC0001552.3	0.41	ribosomal	citrulassin F	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001507.3	0.41	ribosomal	anantin C	Streptomyces olindensis
BGC0001550.3	0.41	ribosomal	citrulassin D	Streptomyces katrae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000948.5	0.46	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0001539.4	0.44	ribosomal	cattlecin	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001548.4	0.44	ribosomal	citrulassin A	Streptomyces albulus
BGC0001506.5	0.43	ribosomal	anantin B1, anantin B2	Streptomyces sp. NRRL S-146
BGC0002053.3	0.43	ribosomal	ulleungdin	Streptomyces sp.
BGC0002074.2	0.41	ribosomal	huascopeptin	Streptomyces huasconensis
BGC0001307.3	0.41	ribosomal	chaxapeptin	Streptomyces leeuwenhoekii
BGC0001552.3	0.41	ribosomal	citrulassin F	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001507.3	0.41	ribosomal	anantin C	Streptomyces olindensis
BGC0001550.3	0.41	ribosomal	citrulassin D	Streptomyces katrae

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lasso peptide predictions

Lassopeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.39 out of 19.26

Confidence: strong

Additional weak hits (8):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.35 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.05 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.35 out of 32.74

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.04 out of 18.57

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.89 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.41 out of 28.19

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.74 out of 23.43

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

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Lasso peptides

TFBS Finder

Core peptide predictions

No core peptides found.

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0014 - Region 1 - T1PKS,terpene

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Location: 37,843 - 91,735 nt. (total: 53,893 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase electron transfer oxidoreductase oxygenase

JLDCGCHE_05725: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_05731: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

JLDCGCHE_05734: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_05739: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_05741: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

JLDCGCHE_05756: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

JLDCGCHE_05765: flavodoxin

smcogs: SMCOG1134: flavodoxin

Transferases: transferase

JLDCGCHE_05743: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Lyases: dehydratase

JLDCGCHE_05742: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthetase

JLDCGCHE_05723: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_05757: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Translocases: permease

JLDCGCHE_05764: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.53	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.51	terpene	isorenieratene	Streptomyces argillaceus
BGC0000649.3	0.48	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001227.3	0.46	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000633.3	0.46	terpene	carotenoid	Streptomyces avermitilis
BGC0000648.3	0.36	terpene	carotenoid	Myxococcus xanthus
BGC0000646.5	0.34	terpene	β-carotein	uncultured bacterium
BGC0000677.5	0.34	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000645.3	0.32	terpene	carotenoid	Halobacillus halophilus DSM 2266
BGC0000640.3	0.32	terpene	carotenoid	Enterobacteriaceae bacterium DC404

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.61	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.60	terpene	isorenieratene	Streptomyces argillaceus
BGC0000649.3	0.59	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002164.2	0.58	NRPS	peramine	Epichloe festucae
BGC0001227.3	0.57	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000633.3	0.57	terpene	carotenoid	Streptomyces avermitilis
BGC0001276.3	0.56	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002174.2	0.56	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0001250.4	0.56	NRPS	epichloenin A	Epichloe festucae
BGC0001249.5	0.56	NRPS	dimethylcoprogen	Alternaria alternata

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene	C30 carotenoid	diapophytoene	C30	acyclic	none
triterpene		squalene	C30	acyclic	none
triterpene		PSPP	C30	acyclic	PP
tetraterpene	C40 carotenoid	phytoene	C40	acyclic	none
triterpene		hydroxysqualene	C30	acyclic	OH

Genes with terpene domains:

JLDCGCHE_05757: PT_FPPS_like

Domain 1 (49 - 367): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

JLDCGCHE_05758: PT_phytoene_like

Domain 1 (17 - 307): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → diapophytoene; FPP → squalene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.74 out of 20.47

Confidence: medium

Additional weak hits (19):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.31 out of 25.88

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.25 out of 23.43

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.86 out of 30.22

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.19 out of 30.22

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.06 out of 29.25

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.84 out of 26.85

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.71 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.25 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.24 out of 29.25

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.41 out of 32.74

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.40 out of 18.57

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.80 out of 19.26

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 18.37 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.80 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.07 out of 30.25

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.44 out of 29.65

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.04 out of 29.25

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

Terpene

TFBS Finder

NRPS/PKS substrate predictions

JLDCGCHE_05723: X

AMP-binding (20..418): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: GLMYVGGVSK
Nearest Stachelhaus code(s):: Hch DLMNVGGVFK (44% 8Å match)
Stachelhaus code match:: 70% (weak)

JLDCGCHE_05739: mal

PKS_AT (616..848): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 58.3%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 68.3
Methoxymalonyl-CoA: 52.8
Methylmalonyl-CoA: 45.9
Propionyl-CoA: 35.6
fatty_acid: 31.1
Ethylmalonyl-CoA: 29.2
inactive: 22.3
2-Methylbutyryl-CoA: 22.0
trans-1,2-CPDA: 16.6
Isobutyryl-CoA: 13.5
CHC-CoA: 8.7
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0015 - Region 1 - NRPS

Download region GenBank file

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Location: 1 - 25,624 nt. (total: 25,624 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

JLDCGCHE_05848: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_05849: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

JLDCGCHE_05856: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_05857: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_05861: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

Transferases: PPTase

JLDCGCHE_05858: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

Lyases: decarboxylase

JLDCGCHE_05854: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase

JLDCGCHE_05846: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_05853: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_05860: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001250.4	0.69	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.69	NRPS	epichloenin A	Epichloe festucae
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.65	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.64	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002075.3	0.64	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001135.5	0.64	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001250.4	0.69	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.69	NRPS	epichloenin A	Epichloe festucae
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.65	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.64	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002075.3	0.64	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001135.5	0.64	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.60 out of 19.26

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 20.58 out of 23.05

Confidence: strong

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26

Confidence: medium

Additional weak hits (7):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.27 out of 25.75

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.34 out of 20.97

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.11 out of 20.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.11 out of 27.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.78 out of 29.65

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.66 out of 26.06

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.17 out of 26.12

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 25624:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_05846: X

AMP-binding (464..855): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVQYCSLAVK
Nearest Stachelhaus code(s):: Pro DVQYCAMVVK (85% 8Å match)
Stachelhaus code match:: 70% (weak)

JLDCGCHE_05853: X

AMP-binding (11..410): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DYYATTMRAK
Nearest Stachelhaus code(s):: Asp DYYPTTMRAK (82% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_05860: Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (8..395): Ala

nrpys: Ala

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: ala (Ala)

Stachelhaus prediction details:

Stachelhaus sequence:: DVFCLAFITK
Nearest Stachelhaus code(s):: Ala DCFFFALITK (65% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein

NPDC023815.ctg-0016 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 89,079 - 136,554 nt. (total: 47,476 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

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transport-related genes

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other genes

resistance

TTA codons

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Gene details

Select a gene to view the details available for it

Gene overview

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MIBiG comparison

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TFBS Finder

NRPS/PKS modules

Pfam domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: acylase

JLDCGCHE_06008: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: esterase hydrolase

JLDCGCHE_05998: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

JLDCGCHE_06010: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: synthase

JLDCGCHE_06009: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002191.2	0.72	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001244.3	0.67	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001273.3	0.66	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.66	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000037.4	0.63	PKS	cichorine	Aspergillus nidulans FGSC A4
BGC0002154.2	0.63	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001258.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0000107.3	0.63	PKS	naphthopyrone	Aspergillus nidulans FGSC A4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002191.2	0.72	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001244.3	0.67	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001273.3	0.66	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.66	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000037.4	0.63	PKS	cichorine	Aspergillus nidulans FGSC A4
BGC0002154.2	0.63	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001258.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0000107.3	0.63	PKS	naphthopyrone	Aspergillus nidulans FGSC A4

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.90 out of 26.85

Confidence: medium

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.22 out of 18.46

Confidence: strong

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.28 out of 20.01

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.97 out of 23.79

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.39 out of 29.72

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.07 out of 20.47

Confidence: medium

Additional weak hits (14):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.43 out of 20.97

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.47 out of 24.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.79 out of 24.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.60 out of 21.84

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.30 out of 21.84

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.23 out of 26.85

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.74 out of 29.72

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.99 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.50 out of 29.65

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.67 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.99 out of 29.65

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 89078 - 136554:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-pk)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_06008: mal

PKS_AT (7..297): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 59.2
Methylmalonyl-CoA: 38.8
Methoxymalonyl-CoA: 36.7
trans-1,2-CPDA: 23.9
Ethylmalonyl-CoA: 21.0
Propionyl-CoA: 20.0
CHC-CoA: 19.5
2-Methylbutyryl-CoA: 15.4
fatty_acid: 13.8
Benzoyl-CoA: 12.7
Isobutyryl-CoA: 8.8
inactive: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_06009: pk

PKS_AT (538..835): pk

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 79.2%; Methylmalonyl-CoA: 66.7%; CE-Malonyl-CoA: 62.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 105.9
Malonyl-CoA: 100.0
Methoxymalonyl-CoA: 96.0
Ethylmalonyl-CoA: 66.9
Propionyl-CoA: 53.1
Isobutyryl-CoA: 51.0
2-Methylbutyryl-CoA: 46.1
trans-1,2-CPDA: 42.8
Benzoyl-CoA: 35.3
Acetyl-CoA: 33.5
CHC-CoA: 27.5
fatty_acid: 24.3
inactive: 24.1
3-Methylbutyryl-CoA: 23.3

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
ArgR	Regulator of arginine biosynthesis genes
IolR	Regulator of the inositol catabolism
NtrC	Nitrogen regulatory protein C
RpoN	Regulator of nitrogen assimilation and virulence
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0017 - Region 1 - RRE-containing

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Location: 1 - 13,924 nt. (total: 13,924 nt) Show pHMM detection rules used

Region on contig edge.

RRE-containing: minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE])

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002317.2	0.45	ribosomal	herbicolin O, mcceh252, pantocin A	Pantoea agglomerans
BGC0000585.5	0.40	ribosomal	microcin C7	Escherichia coli
BGC0001294.5	0.39	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0001513.3	0.27	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000925.5	0.26	other (other)	quinolobactin	Pseudomonas fluorescens
BGC0001647.3	0.26	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0000821.5	0.25	other (other)	rebeccamycin	Lechevalieria aerocolonigenes
BGC0002443.3	0.25	PKS	mycemycin C, mycemycin A, mycemycin B	Streptomyces olivaceus
BGC0000877.5	0.24	other (other)	polyoxin A, polyoxin H	Streptomyces cacaoi subsp. asoensis
BGC0001366.5	0.24	PKS	BE-24566B, zunyimycin A	Streptomyces sp. FJS31-2

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002317.2	0.45	ribosomal	herbicolin O, mcceh252, pantocin A	Pantoea agglomerans
BGC0000585.5	0.40	ribosomal	microcin C7	Escherichia coli
BGC0001294.5	0.39	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0001513.3	0.27	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000925.5	0.26	other (other)	quinolobactin	Pseudomonas fluorescens
BGC0001647.3	0.26	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0000821.5	0.25	other (other)	rebeccamycin	Lechevalieria aerocolonigenes
BGC0002443.3	0.25	PKS	mycemycin C, mycemycin A, mycemycin B	Streptomyces olivaceus
BGC0000877.5	0.24	other (other)	polyoxin A, polyoxin H	Streptomyces cacaoi subsp. asoensis
BGC0001366.5	0.24	PKS	BE-24566B, zunyimycin A	Streptomyces sp. FJS31-2

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.79 out of 29.72

Confidence: medium

Additional weak hits (5):

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 22.36 out of 32.93

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.34 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.13 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.96 out of 29.65

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.52 out of 23.43

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

RREFinder

TFBS Finder

RRE predictions

: RRE type: Pantocin_Microcin_RRE; Location: 0 - 89; Score: 64.3

TFBS definitions

Regulator	Description
NtrC	Nitrogen regulatory protein C

NPDC023815.ctg-0017 - Region 2 - RRE-containing

Download region GenBank file

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Location: 41,879 - 64,935 nt. (total: 23,057 nt) Show pHMM detection rules used

RRE-containing: minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE])

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Lyases: dehydratase

JLDCGCHE_06072: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000542.3	0.39	ribosomal	paenicidin B	Paenibacillus terrae
BGC0000541.5	0.39	ribosomal	paenicidin A	Paenibacillus polymyxa
BGC0001727.3	0.35	ribosomal	paenilan	Paenibacillus polymyxa E681
BGC0002120.3	0.34	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000350.5	0.25	NRPS	ET-743	uncultured organism
BGC0000698.5	0.24	saccharide	hygromycin A	Streptomyces hygroscopicus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000542.3	0.39	ribosomal	paenicidin B	Paenibacillus terrae
BGC0000541.5	0.39	ribosomal	paenicidin A	Paenibacillus polymyxa
BGC0001727.3	0.35	ribosomal	paenilan	Paenibacillus polymyxa E681
BGC0002120.3	0.34	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000350.5	0.25	NRPS	ET-743	uncultured organism
BGC0000698.5	0.24	saccharide	hygromycin A	Streptomyces hygroscopicus

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (2):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.26 out of 18.57

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.14 out of 30.22

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

RREFinder

TFBS Finder

RRE predictions

: RRE type: Lanthipeptide_LanB_RRE; Location: 161 - 243; Score: 49.8

TFBS definitions

Regulator	Description

NPDC023815.ctg-0018 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 31,341 - 103,038 nt. (total: 71,698 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_06202: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06204: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_06212: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

JLDCGCHE_06217: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

JLDCGCHE_06225: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

JLDCGCHE_06228: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acylase

JLDCGCHE_06208: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: phosphatase

JLDCGCHE_06215: FkbH like protein

smcogs: SMCOG1256: FkbH like protein

Lyases: cyclase

JLDCGCHE_06211: Diels-Alderase cyclase

extras: DA_cyclase: Diels-Alderase cyclase

Ligases: synthase

JLDCGCHE_06205: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

JLDCGCHE_06210: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001273.3	0.64	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001284.4	0.63	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.62	PKS	FR901512	fungal sp. No.14919
BGC0001254.3	0.62	PKS	ACT-Toxin II	Alternaria alternata

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001273.3	0.64	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001284.4	0.63	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.62	PKS	FR901512	fungal sp. No.14919
BGC0001254.3	0.62	PKS	ACT-Toxin II	Alternaria alternata

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 29.02 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.56 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.76 out of 30.11

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 17.88 out of 23.79

Confidence: medium

Additional weak hits (15):

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.33 out of 30.97

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.81 out of 29.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.04 out of 26.06

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.20 out of 21.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.93 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.11 out of 27.78

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.75 out of 27.55

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.36 out of 21.84

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.84 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.03 out of 28.19

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.87 out of 24.78

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.22 out of 30.98

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 18.83 out of 27.04

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 16.96 out of 22.40

Confidence: weak

Module view

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Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 31340 - 103038:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - ccmal - ccmal - ccmal) + (mal)
Non-colinear ordering:: JLDCGCHE_06208 + JLDCGCHE_06210

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_06208: mal - mal - mal - mal

PKS_AT (526..809): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 214.7
inactive: 124.6
Methoxymalonyl-CoA: 79.0
Methylmalonyl-CoA: 65.0
Propionyl-CoA: 34.5
Isobutyryl-CoA: 28.5
Ethylmalonyl-CoA: 22.7
Acetyl-CoA: 21.7
Benzoyl-CoA: 19.2
CHC-CoA: 13.1
fatty_acid: 10.2
2-Methylbutyryl-CoA: 9.9
trans-1,2-CPDA: 6.4
3-Methylbutyryl-CoA: 0.0

PKS_AT (1490..1764): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 75.0%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 185.5
inactive: 89.9
Methoxymalonyl-CoA: 69.6
Methylmalonyl-CoA: 62.1
Propionyl-CoA: 34.8
Isobutyryl-CoA: 24.5
Acetyl-CoA: 22.1
fatty_acid: 14.1
Ethylmalonyl-CoA: 13.7
Benzoyl-CoA: 12.7
CHC-CoA: 10.6
trans-1,2-CPDA: 6.8
2-Methylbutyryl-CoA: 2.3
3-Methylbutyryl-CoA: 0.0

PKS_AT (3116..3394): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 203.6
inactive: 110.4
Methoxymalonyl-CoA: 54.9
Methylmalonyl-CoA: 54.5
Propionyl-CoA: 33.4
Acetyl-CoA: 22.2
Isobutyryl-CoA: 21.7
CHC-CoA: 20.1
Ethylmalonyl-CoA: 15.1
Benzoyl-CoA: 12.5
fatty_acid: 8.6
2-Methylbutyryl-CoA: 7.6
trans-1,2-CPDA: 6.5
3-Methylbutyryl-CoA: 0.0

PKS_AT (4748..5015): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 79.2%; Isobutyryl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 184.0
inactive: 87.5
Methoxymalonyl-CoA: 67.0
Methylmalonyl-CoA: 59.8
Propionyl-CoA: 44.9
Isobutyryl-CoA: 43.6
Ethylmalonyl-CoA: 35.0
Acetyl-CoA: 24.0
Benzoyl-CoA: 18.6
CHC-CoA: 15.9
2-Methylbutyryl-CoA: 15.8
trans-1,2-CPDA: 15.3
fatty_acid: 14.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_06210: mal

PKS_AT (555..851): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 213.5
inactive: 101.1
Methoxymalonyl-CoA: 63.3
Methylmalonyl-CoA: 52.3
Isobutyryl-CoA: 33.7
Propionyl-CoA: 29.3
fatty_acid: 16.0
3-Methylbutyryl-CoA: 14.9
Benzoyl-CoA: 14.7
2-Methylbutyryl-CoA: 14.2
Ethylmalonyl-CoA: 14.1
Acetyl-CoA: 12.8
CHC-CoA: 7.3
trans-1,2-CPDA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CelR	Cellobiose uptake repressor
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0021 - Region 1 - T2PKS

Download region GenBank file

Download region SVG

Location: 18,689 - 91,171 nt. (total: 72,483 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase electron transfer oxidase oxidoreductase oxygenase

JLDCGCHE_06496: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_06497: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06498: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_06505: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_06509: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

JLDCGCHE_06512: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_06514: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_06519: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_06522: flavodoxin

smcogs: SMCOG1134: flavodoxin

JLDCGCHE_06524: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

JLDCGCHE_06527: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

JLDCGCHE_06528: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06529: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06538: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

JLDCGCHE_06541: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

JLDCGCHE_06542: dehydrogenase

smcogs: SMCOG1072: dehydrogenase

Transferases: aminotransferase methyltransferase transferase

JLDCGCHE_06500: methyltransferase

smcogs: SMCOG1089: methyltransferase

JLDCGCHE_06511: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

JLDCGCHE_06534: methyltransferase

smcogs: SMCOG1248: methyltransferase

JLDCGCHE_06543: aminotransferase

smcogs: SMCOG1019: aminotransferase

Hydrolases: hydrolase

JLDCGCHE_06547: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Lyases: cyclase

JLDCGCHE_06513: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

JLDCGCHE_06518: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

Ligases: synthase

JLDCGCHE_06516: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

JLDCGCHE_06517: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002672.2	0.80	PKS	saccharothrixin D, saccharothrixin E, saccharothrixin F, saccharothrixin G, saccharothrixin H, saccharothrixin I, saccharothrixin J, saccharothrixin K, saccharothrixin L, saccharothrixin M	Saccharothrix sp.
BGC0001723.5	0.77	PKS	oviedomycin	Streptomyces antibioticus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002477.3	0.67	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0002047.2	0.66	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0002000.4	0.64	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0000236.5	0.60	PKS	kinamycin	Streptomyces murayamaensis
BGC0001895.4	0.60	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0002504.2	0.60	PKS	nocardiopsistin A, nocardiopsistin B, nocardiopsistin C	Nocardiopsis sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002672.2	0.80	PKS	saccharothrixin D, saccharothrixin E, saccharothrixin F, saccharothrixin G, saccharothrixin H, saccharothrixin I, saccharothrixin J, saccharothrixin K, saccharothrixin L, saccharothrixin M	Saccharothrix sp.
BGC0001723.5	0.77	PKS	oviedomycin	Streptomyces antibioticus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002477.3	0.67	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0002047.2	0.66	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0002000.4	0.64	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0000236.5	0.60	PKS	kinamycin	Streptomyces murayamaensis
BGC0001895.4	0.60	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0002504.2	0.60	PKS	nocardiopsistin A, nocardiopsistin B, nocardiopsistin C	Nocardiopsis sp.

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.62 out of 19.52

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.18 out of 20.47

Confidence: medium

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 27.37 out of 30.98

Confidence: medium

Additional weak hits (16):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.39 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.82 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.42 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.46 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.50 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.97 out of 26.06

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.07 out of 33.73

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.47 out of 26.06

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.74 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.67 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.01 out of 28.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.34 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.29 out of 28.19

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.45 out of 30.98

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.34 out of 28.19

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 19.65 out of 22.40

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 18688 to 91171
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:: 8|9 (Score: 691.4; E-value: 7.5e-211)
Product class(es):: angucycline
Product molecular weight(s):: acetyl-CoA_8: 388 Da
acetyl-CoA_9: 430 Da

JLDCGCHE_06496: KR (Score: 142.4; E-value: 4.7e-44)
JLDCGCHE_06498: KR (Score: 39.3; E-value: 1.3e-12)
JLDCGCHE_06505: KR (Score: 129.8; E-value: 3.3e-40)
JLDCGCHE_06512: OXY (Score: 528.0; E-value: 5.5e-161)
JLDCGCHE_06513: CYC C7-C12 (Score: 486.1; E-value: 7.9e-149)
JLDCGCHE_06514: KR C9 (Score: 476.7; E-value: 3.9e-146)
JLDCGCHE_06515: ACP (Score: 134.2; E-value: 2.7e-42)
JLDCGCHE_06516: CLF 8|9 (Score: 691.4; E-value: 7.5e-211)
JLDCGCHE_06517: KS (Score: 786.5; E-value: 1.2e-239)
JLDCGCHE_06518: CYC C4-C17/C2-C19 (Score: 192.0; E-value: 2.3e-59)
JLDCGCHE_06519: OXY (Score: 597.5; E-value: 4.4e-182)
JLDCGCHE_06527: KR (Score: 85.3; E-value: 1.2e-26)
JLDCGCHE_06534: MET (Score: 29.5; E-value: 9e-10)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
NuR	Nickel-responsive regulator
VqsM	Regulator of quorum-sensing signalling systems

NPDC023815.ctg-0022 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 41,629 nt. (total: 41,629 nt) Show pHMM detection rules used

Region on contig edge.

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

JLDCGCHE_06578: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

JLDCGCHE_06582: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

JLDCGCHE_06583: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

JLDCGCHE_06584: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06585: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: acylase

JLDCGCHE_06581: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Ligases: synthase

JLDCGCHE_06579: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_06580: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.76	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000041.3	0.68	PKS	oronofacic acid	Pseudomonas syringae
BGC0001273.3	0.67	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.67	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002154.2	0.64	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0000107.3	0.64	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002191.2	0.64	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.76	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000041.3	0.68	PKS	oronofacic acid	Pseudomonas syringae
BGC0001273.3	0.67	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.67	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002154.2	0.64	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0000107.3	0.64	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002191.2	0.64	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (2):

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.72 out of 24.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 41629:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - ccmal) + (mal) + (Me-mal)
Non-colinear ordering:: JLDCGCHE_06579 + JLDCGCHE_06580 + JLDCGCHE_06581

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_06579: mal - mal

PKS_AT (505..781): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 180.8
inactive: 88.2
Methoxymalonyl-CoA: 55.9
Methylmalonyl-CoA: 47.9
Propionyl-CoA: 27.1
Acetyl-CoA: 21.2
Benzoyl-CoA: 19.5
Isobutyryl-CoA: 15.6
CHC-CoA: 13.4
Ethylmalonyl-CoA: 11.6
2-Methylbutyryl-CoA: 3.1
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (1533..1805): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 79.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 163.8
inactive: 85.1
Methoxymalonyl-CoA: 58.1
Methylmalonyl-CoA: 48.7
Propionyl-CoA: 27.4
Acetyl-CoA: 16.3
Isobutyryl-CoA: 14.7
Ethylmalonyl-CoA: 13.1
fatty_acid: 12.0
Benzoyl-CoA: 9.6
2-Methylbutyryl-CoA: 6.3
trans-1,2-CPDA: 4.9
CHC-CoA: 3.7
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_06580: mal

PKS_AT (546..822): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 70.8%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 180.5
inactive: 78.6
Methoxymalonyl-CoA: 64.4
Methylmalonyl-CoA: 52.0
Isobutyryl-CoA: 30.0
Benzoyl-CoA: 25.2
Propionyl-CoA: 22.8
Ethylmalonyl-CoA: 22.6
Acetyl-CoA: 20.4
2-Methylbutyryl-CoA: 17.1
CHC-CoA: 12.6
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_06581: mmal

PKS_AT (580..875): mmal

ATSignature: Ethylmalonyl-CoA, Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Ethylmalonyl-CoA: 83.3%; Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 173.9
Ethylmalonyl-CoA: 157.8
Methoxymalonyl-CoA: 144.3
2-Methylbutyryl-CoA: 107.5
Propionyl-CoA: 94.9
trans-1,2-CPDA: 93.1
CHC-CoA: 86.7
Isobutyryl-CoA: 83.0
Malonyl-CoA: 67.2
Benzoyl-CoA: 44.8
fatty_acid: 39.7
3-Methylbutyryl-CoA: 36.4
Acetyl-CoA: 30.8
inactive: 17.6

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description

NPDC023815.ctg-0022 - Region 2 - NAPAA

Download region GenBank file

Download region SVG

Location: 45,014 - 78,805 nt. (total: 33,792 nt) Show pHMM detection rules used

NAPAA: (AMP-binding and TIGR02353)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

JLDCGCHE_06607: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

JLDCGCHE_06610: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

JLDCGCHE_06619: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06625: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

JLDCGCHE_06628: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

Transferases: kinase

JLDCGCHE_06623: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Ligases: ligase

JLDCGCHE_06616: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Translocases: transporter

JLDCGCHE_06603: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.60	NRPS	enniatin	Fusarium equiseti
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.60	NRPS	enniatin	Fusarium equiseti
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

Additional weak hits (7):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.10 out of 25.88

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.36 out of 20.97

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.01 out of 31.73

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.27 out of 35.63

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.61 out of 27.04

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 45013 - 78805:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_06616: X

AMP-binding (35..405): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAESIGTVVK
Nearest Stachelhaus code(s):: Lys DAEDIGTVVK (71% 8Å match); Gln or Tyr DAESVGTVVK (65% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NPDC023815.ctg-0023 - Region 1 - NRPS,T1PKS,lanthipeptide-class-i

Download region GenBank file

Download region SVG

Location: 32,828 - 96,365 nt. (total: 63,538 nt) Show pHMM detection rules used

lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase reductase

JLDCGCHE_06709: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

JLDCGCHE_06721: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

JLDCGCHE_06730: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

JLDCGCHE_06731: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

JLDCGCHE_06732: alkyl hydroperoxide reductase/ Thiol specific

smcogs: SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

JLDCGCHE_06734: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

Lyases: cyclase

JLDCGCHE_06714: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

Ligases: ligase synthase

JLDCGCHE_06729: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

JLDCGCHE_06737: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Translocases: transporter

JLDCGCHE_06717: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.91	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.90	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.89	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001043.4	0.68	NRPS, PKS	SGR PTMs, SGR PTM Compound b, SGR PTM Compound c, SGR PTM Compound d	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002365.2	0.68	PKS, other (other)	10-epi-HSAF, 10-epi-3-deOH-HSAF, 10-epi-maltophilin, 10-epi-xanthobaccin C, 10-epi-hydroxymaltophilin, 10-epi-FI-2	Streptomyces sp.
BGC0001276.3	0.66	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000996.5	0.64	NRPS, PKS	frontalamide B, frontalamide A	Streptomyces sp. SPB78
BGC0001641.4	0.62	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.62	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.62	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.76	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.75	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.75	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001043.4	0.67	NRPS, PKS	SGR PTMs, SGR PTM Compound b, SGR PTM Compound c, SGR PTM Compound d	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002365.2	0.67	PKS, other (other)	10-epi-HSAF, 10-epi-3-deOH-HSAF, 10-epi-maltophilin, 10-epi-xanthobaccin C, 10-epi-hydroxymaltophilin, 10-epi-FI-2	Streptomyces sp.
BGC0001276.3	0.66	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0000996.5	0.65	NRPS, PKS	frontalamide B, frontalamide A	Streptomyces sp. SPB78
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.65	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for JLDCGCHE_06711

JLDCGCHE_06713

Leader:

MDQAILEPAELDTLISDLEACISEVRLATPA

Core:

EPMAFSTTQCSNLLCSIISYCDGGDGGGQ

Core with dehydrations:

EPMAFDhaDhbDhbQCysDhaNLLCysDhaIIDhaYCysDGGDGGGQ

antiSMASH-DB 4.0 matches for JLDCGCHE_06713

24.2%

NZ_CP102975.1and 1 other:

NZ_FMOE01000002.1 Lanthipeptides: BJT27_RS07810_lanthipeptide

Lanthipeptides: NW953_RS00175_lanthipeptide

3

MAFSTTQCSNLLCS

16

+A ST QC L CS

12

VAASTAQCPTLACS

25

24.1%

NZ_AQRK01000063.1:

Lanthipeptides: YUW_RS35350_lanthipeptide

17

IISYCDGGDG

26

I+S CD GDG

2

IVSSCDTGDG

11

19.0%

NZ_NTWJ01000043.1and 5 others:

NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29365_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29360_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29370_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29365_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29360_lanthipeptide

Lanthipeptides: CN427_RS29370_lanthipeptide

11

SNLLCSIISYCDGGDG

26

+ LLC + SY G DG

11

TTLLCFVGSYTLGNDG

26

with 3 more sequence matches

18.9%

NZ_BCEY01000006.1and 1 other:

NZ_BCEY01000006.1 Lanthipeptides: GOZ53_RS01290_lanthipeptide

Lanthipeptides: GOZ53_RS01290_lanthipeptide

15

CSIISYCDGGDG

26

CS+IS+ G DG

12

CSLISFALGNDG

23

16.7%

NZ_CP072827.1:

Lanthipeptides: allorf_1271443_1271583_lanthipeptide

4

AFSTTQCSNLLCS

16

A ++ +C N LCS

17

ALASYECRNRLCS

29

16.4%

NZ_CP072597.1and 1 other:

NZ_FNOG01000005.1 Lanthipeptides: BLU84_RS14530_lanthipeptide

Lanthipeptides: J5226_RS17500_lanthipeptide

6

STTQCSNLLCSIISYCDGGD

25

+ TQ CS I Y D GD

6

AATQSQGCFCSTIYYNDAGD

25

MIBiG 4.0 matches for JLDCGCHE_06713

17.2%

BGC0002322.3 (CEJ66604.1):

Lasso peptide: citrocin

14

LCSIISYCDGG

24

+ II Y GG

3

VGKIIEYFIGG

13

8.1%

BGC0001229.4 (SBI_06989)and 1 other:

BGC0002110.3 (QKV49894.1) Lanthipeptide: birimositide

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

7

TTQCSN

12

TT+C++

30

TTKCTS

35

Lanthipeptide(s) for JLDCGCHE_06712

JLDCGCHE_06713

Leader:

MDQAILEPAELDTLISDLEACISEVRLATPA

Core:

EPMAFSTTQCSNLLCSIISYCDGGDGGGQ

Core with dehydrations:

EPMAFDhaDhbDhbQCysDhaNLLCysDhaIIDhaYCysDGGDGGGQ

antiSMASH-DB 4.0 matches for JLDCGCHE_06713

24.2%

NZ_CP102975.1and 1 other:

NZ_FMOE01000002.1 Lanthipeptides: BJT27_RS07810_lanthipeptide

Lanthipeptides: NW953_RS00175_lanthipeptide

3

MAFSTTQCSNLLCS

16

+A ST QC L CS

12

VAASTAQCPTLACS

25

24.1%

NZ_AQRK01000063.1:

Lanthipeptides: YUW_RS35350_lanthipeptide

17

IISYCDGGDG

26

I+S CD GDG

2

IVSSCDTGDG

11

19.0%

NZ_NTWJ01000043.1and 5 others:

NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29365_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29360_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29370_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29365_lanthipeptideNZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29360_lanthipeptide

Lanthipeptides: CN427_RS29370_lanthipeptide

11

SNLLCSIISYCDGGDG

26

+ LLC + SY G DG

11

TTLLCFVGSYTLGNDG

26

with 3 more sequence matches

18.9%

NZ_BCEY01000006.1and 1 other:

NZ_BCEY01000006.1 Lanthipeptides: GOZ53_RS01290_lanthipeptide

Lanthipeptides: GOZ53_RS01290_lanthipeptide

15

CSIISYCDGGDG

26

CS+IS+ G DG

12

CSLISFALGNDG

23

16.7%

NZ_CP072827.1:

Lanthipeptides: allorf_1271443_1271583_lanthipeptide

4

AFSTTQCSNLLCS

16

A ++ +C N LCS

17

ALASYECRNRLCS

29

16.4%

NZ_CP072597.1and 1 other:

NZ_FNOG01000005.1 Lanthipeptides: BLU84_RS14530_lanthipeptide

Lanthipeptides: J5226_RS17500_lanthipeptide

6

STTQCSNLLCSIISYCDGGD

25

+ TQ CS I Y D GD

6

AATQSQGCFCSTIYYNDAGD

25

MIBiG 4.0 matches for JLDCGCHE_06713

17.2%

BGC0002322.3 (CEJ66604.1):

Lasso peptide: citrocin

14

LCSIISYCDGG

24

+ II Y GG

3

VGKIIEYFIGG

13

8.1%

BGC0001229.4 (SBI_06989)and 1 other:

BGC0002110.3 (QKV49894.1) Lanthipeptide: birimositide

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

7

TTQCSN

12

TT+C++

30

TTKCTS

35

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.52 out of 19.26

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.50 out of 20.97

Confidence: medium

Additional weak hits (15):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.87 out of 26.85

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.18 out of 29.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.11 out of 21.55

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.82 out of 36.54

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.53 out of 28.14

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.49 out of 26.85

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.63 out of 29.38

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.07 out of 30.25

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.76 out of 26.33

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.52 out of 28.19

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.37 out of 32.93

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.57 out of 28.19

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.94 out of 19.52

Confidence: weak

Module view

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Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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Detailed domain annotation

Selected features only

Show module domains

Lanthipeptides

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Core peptide predictions

JLDCGCHE_06713 - Class I

Cleavage pHMM score: -14.50

RODEO score: 21

Monoisotopic mass: 2845.2 Da

Molecular weight: 2847.1 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2865.1 Da N = 1; 2883.2 Da N = 2; 2901.2 Da N = 3

JLDCGCHE_06713 - Class I

Cleavage pHMM score: -14.50

RODEO score: 21

Monoisotopic mass: 2845.2 Da

Molecular weight: 2847.1 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2865.1 Da N = 1; 2883.2 Da N = 2; 2901.2 Da N = 3

Predicted core structure(s)

For candidate cluster 1, location 32827 - 96365:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (ccmal - Orn)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 47047 - 96365:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (ccmal - Orn)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_06729: mal - Orn

Search NORINE for peptide: strict or relaxed

PKS_AT (543..840): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 70.8%; CE-Malonyl-CoA: 54.2%; Acetyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 109.9
Methylmalonyl-CoA: 109.2
Methoxymalonyl-CoA: 104.4
Ethylmalonyl-CoA: 88.8
Isobutyryl-CoA: 76.1
Propionyl-CoA: 58.9
trans-1,2-CPDA: 50.7
2-Methylbutyryl-CoA: 49.7
Benzoyl-CoA: 45.2
Acetyl-CoA: 41.9
fatty_acid: 37.4
CHC-CoA: 37.4
inactive: 23.4
3-Methylbutyryl-CoA: 20.3

AMP-binding (2288..2691): Orn

nrpys: Orn

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: Orn and hydroxy-Orn specific (Orn, OH-Orn)
Single AA prediction:: orn (Orn)

Stachelhaus prediction details:

Stachelhaus sequence:: DVGEIGSIDK
Nearest Stachelhaus code(s):: Orn DVGEIGSIDK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

JLDCGCHE_06737: X

AMP-binding (19..406): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: QVEVMSGMIK
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CcpA	Catabolite control protein A

NPDC023815.ctg-0025 - Region 1 - terpene-precursor

Download region GenBank file

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Location: 1 - 12,568 nt. (total: 12,568 nt) Show pHMM detection rules used

Region on contig edge.

terpene-precursor: (PT_FPPS_like and not PT_HPP)

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core biosynthetic genes

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Gene overview

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TFBS Finder

Pfam domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

JLDCGCHE_06841: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

JLDCGCHE_06845: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: kinase

JLDCGCHE_06842: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Ligases: synthetase

JLDCGCHE_06839: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002276.2	0.55	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002391.2	0.51	terpene	zealexin B3, zealexin C2	Zea mays
BGC0000675.5	0.46	terpene	(+)-T-muurolol	Streptomyces clavuligerus ATCC 27064
BGC0000677.5	0.46	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0000674.5	0.45	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0000678.5	0.44	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001911.3	0.44	terpene	raimonol	Streptomyces anulatus
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0001910.4	0.42	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002276.2	0.55	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002391.2	0.51	terpene	zealexin B3, zealexin C2	Zea mays
BGC0000675.5	0.46	terpene	(+)-T-muurolol	Streptomyces clavuligerus ATCC 27064
BGC0000677.5	0.46	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0000674.5	0.45	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0000678.5	0.44	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001911.3	0.44	terpene	raimonol	Streptomyces anulatus
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0001910.4	0.42	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

JLDCGCHE_06839: PT_FPPS_like

Domain 1 (56 - 347): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.87 out of 29.51

Confidence: medium

Additional weak hits (8):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.02 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.59 out of 28.14

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.36 out of 27.55

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.94 out of 19.52

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.12 out of 21.55

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.51 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.26 out of 29.65

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.14 out of 26.85

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
DosR	Hypoxia stress response regulator

NPDC023815.ctg-0026 - Region 1 - phosphonate

Download region GenBank file

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Location: 62,572 - 84,882 nt. (total: 22,311 nt) Show pHMM detection rules used

Region on contig edge.

phosphonate: (phosphonates and minimum(1, [2-Hacid_dh_C, Aldedh, Aminotran_1_2, Aminotran_5, AurF, CTP_transf_like, DUF4992, Fe-ADH, HMGL-like, Metallophos_2, NTP_transf_3, NTP_transf_5, PALP, PEP_mutase, TPP_enzyme_C, TPP_enzyme_N, phosphonates]) and not (phosphonatesHydrolase or phosphonatesMeIsocitrateLyase))

Legend:

core biosynthetic genes

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transport-related genes

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resistance

TTA codons

binding site

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Select a gene to view the details available for it

Gene overview

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MIBiG comparison

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TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

JLDCGCHE_06969: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

JLDCGCHE_06984: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

Transferases: methyltransferase

JLDCGCHE_06964: methyltransferase

smcogs: SMCOG1089: methyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001739.3	0.47	other (other)	phosphonoacetic Acid	Streptomyces sp. NRRL F-525
BGC0002036.4	0.47	other (other)	dehydrofosmidomycin	Streptomyces lavendulae
BGC0000904.5	0.47	other (other)	FR-900098	Streptomyces rubellomurinus
BGC0001859.4	0.46	other (phosphonate)	fosfomycin	Pseudomonas syringae
BGC0000926.5	0.46	other (other)	rhizocticin A	Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0002670.2	0.45	other (other)	fosfonochlorin	Fusarium oxysporum f. sp. lycopersici 4287
BGC0000897.5	0.43	other (other)	dehydrophos	Streptomyces luridus
BGC0000938.5	0.43	other (aminocoumarin)	fosfomycin	Streptomyces fradiae
BGC0000937.5	0.42	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0000870.5	0.38	other (other)	mycolic acid	Mycobacterium tuberculosis H37Rv

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001739.3	0.47	other (other)	phosphonoacetic Acid	Streptomyces sp. NRRL F-525
BGC0002036.4	0.47	other (other)	dehydrofosmidomycin	Streptomyces lavendulae
BGC0000904.5	0.47	other (other)	FR-900098	Streptomyces rubellomurinus
BGC0001859.4	0.46	other (phosphonate)	fosfomycin	Pseudomonas syringae
BGC0000926.5	0.46	other (other)	rhizocticin A	Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0002670.2	0.45	other (other)	fosfonochlorin	Fusarium oxysporum f. sp. lycopersici 4287
BGC0000897.5	0.43	other (other)	dehydrophos	Streptomyces luridus
BGC0000938.5	0.43	other (aminocoumarin)	fosfomycin	Streptomyces fradiae
BGC0000937.5	0.42	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0000870.5	0.38	other (other)	mycolic acid	Mycobacterium tuberculosis H37Rv

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (6):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.66 out of 20.97

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.64 out of 27.04

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.25 out of 26.85

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.00 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.13 out of 24.78

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description

NPDC023815.ctg-0033 - Region 1 - NRPS,PKS-like,T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 51,108 nt. (total: 51,108 nt) Show pHMM detection rules used

Region on contig edge.

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
PKS-like: (t2pks2 or ksIII)

Legend:

core biosynthetic genes

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resistance

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binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

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KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

JLDCGCHE_07488: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: acetyltransferase glycosyltransferase

JLDCGCHE_07480: Chloramphenicol acetyltransferase

smcogs: SMCOG1156: Chloramphenicol acetyltransferase

JLDCGCHE_07485: glycosyltransferase

smcogs: SMCOG1102: glycosyltransferase

Hydrolases: esterase hydrolase phosphatase

JLDCGCHE_07465: thioesterase

smcogs: SMCOG1004: thioesterase

JLDCGCHE_07473: FkbH like protein

smcogs: SMCOG1256: FkbH like protein

JLDCGCHE_07475: FkbH like protein

smcogs: SMCOG1256: FkbH like protein

JLDCGCHE_07483: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: cyclase

JLDCGCHE_07462: diguanylate cyclase

smcogs: SMCOG1025: diguanylate cyclase

Ligases: ligase synthase

JLDCGCHE_07466: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_07467: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_07468: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_07469: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

JLDCGCHE_07474: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

JLDCGCHE_07478: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	1.21	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001050.5	1.21	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0001132.4	1.16	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	1.16	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	1.13	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3	1.12	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	1.12	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0000342.4	1.10	NRPS	enniatin	Fusarium equiseti
BGC0002286.3	1.10	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	1.08	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.72	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001050.5	0.72	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.71	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.62 out of 19.52

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.28 out of 19.52

Confidence: medium

Additional weak hits (12):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.58 out of 21.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.24 out of 27.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.18 out of 29.65

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 22.87 out of 32.38

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 22.36 out of 32.93

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.52 out of 25.88

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 12.94 out of 18.57

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.18 out of 29.38

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.29 out of 27.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.58 out of 29.65

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.12 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.06 out of 28.19

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 51108:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Val) + (Val) + (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 0 - 40826:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Val) + (Val) + (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 10088 - 51108:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Val) + (Val) + (mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_07466: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (462..846): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAFLVGGTFK
Nearest Stachelhaus code(s):: Val DAFFVGGTFK (79% 8Å match)
Stachelhaus code match:: 90% (moderate)

JLDCGCHE_07467: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (484..870): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DALFVGIIWK
Nearest Stachelhaus code(s):: Val DALFVGIVLK (53% 8Å match)
Stachelhaus code match:: 80% (moderate)

JLDCGCHE_07468: mal

PKS_AT (511..789): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 83.3%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 179.1
inactive: 102.3
Methoxymalonyl-CoA: 69.3
Methylmalonyl-CoA: 55.1
Propionyl-CoA: 40.8
Isobutyryl-CoA: 29.0
Ethylmalonyl-CoA: 27.8
CHC-CoA: 24.3
fatty_acid: 23.3
2-Methylbutyryl-CoA: 22.2
Benzoyl-CoA: 20.1
Acetyl-CoA: 16.7
3-Methylbutyryl-CoA: 9.8
trans-1,2-CPDA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production

NPDC023815.ctg-0036 - Region 1 - RiPP-like

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Location: 5,602 - 16,399 nt. (total: 10,798 nt) Show pHMM detection rules used

Region on contig edge.

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

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SubClusterBlast

TFBS Finder

Pfam domains

TIGRFAM domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: protease

JLDCGCHE_07638: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000595.3	0.31	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0000597.4	0.29	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000842.5	0.26	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000595.3	0.31	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0000597.4	0.29	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000842.5	0.26	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (8):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.81 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.52 out of 36.54

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.49 out of 25.88

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.83 out of 29.38

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.11 out of 27.04

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.17 out of 26.06

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.84 out of 24.78

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.13 out of 25.75

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description

NPDC023815.ctg-0037 - Region 1 - NRPS,T1PKS

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Location: 12,293 - 52,431 nt. (total: 40,139 nt) Show pHMM detection rules used

Region on contig edge.

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

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KnownClusterBlast

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TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

JLDCGCHE_07717: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Lyases: cyclase

JLDCGCHE_07710: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Ligases: ligase synthase

JLDCGCHE_07713: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

JLDCGCHE_07714: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

JLDCGCHE_07716: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.71	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001166.5	0.69	NRPS	HC-toxin	Alternaria jesenskae
BGC0001135.5	0.68	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.67	NRPS	AbT1	Aureobasidium pullulans
BGC0001833.4	0.66	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.65	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001249.5	0.64	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000357.5	0.63	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001166.5	0.68	NRPS	HC-toxin	Alternaria jesenskae
BGC0001135.5	0.67	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.67	NRPS	AbT1	Aureobasidium pullulans
BGC0001833.4	0.66	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.66	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001249.5	0.65	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002286.3	0.65	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.65	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000357.5	0.65	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.26 out of 19.26

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.93 out of 28.19

Confidence: medium

Additional weak hits (7):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.74 out of 31.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.32 out of 26.33

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.86 out of 19.52

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 19.07 out of 31.73

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.66 out of 35.63

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.16 out of 29.65

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.64 out of 39.62

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 12292 - 52431:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (NH2 - X) + (ohmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_07713: mal

PKS_AT (533..816): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; inactive: 70.8%; Ethylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 130.3
inactive: 68.2
Methoxymalonyl-CoA: 46.2
Methylmalonyl-CoA: 36.0
Propionyl-CoA: 28.9
CHC-CoA: 12.2
2-Methylbutyryl-CoA: 9.0
Ethylmalonyl-CoA: 5.8
Isobutyryl-CoA: 5.4
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

JLDCGCHE_07714: NH2 - X

CAL_domain (39..437): NH2

minowa: NH2

Prediction, score:

NH2: 24.6
fatty_acid: 14.7
AHBA: 4.0
shikimic_acid: 0.0
Acetyl-CoA: -0.9

AMP-binding (1066..1463): X

nrpys: Val, Leu, Ile, Abu, Ival

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DFQFLGGVNK
Nearest Stachelhaus code(s):: Phe DCFFLGGVFK (44% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
ZuR variant 1	Zinc-responsive repressor

NPDC023815.ctg-0050 - Region 1 - NRPS

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Location: 1 - 6,021 nt. (total: 6,021 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

ClusterBlast

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

Pfam domains

TIGRFAM domains

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Ligases: ligase

JLDCGCHE_07890: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.64	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.64	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.63	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001249.5	0.63	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001240.4	0.63	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0000357.5	0.63	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001261.3	0.63	NRPS	AM-toxin	Alternaria alternata
BGC0001132.4	0.63	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.64	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.64	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.63	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001249.5	0.63	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001240.4	0.63	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0000357.5	0.63	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001261.3	0.63	NRPS	AM-toxin	Alternaria alternata
BGC0001132.4	0.63	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters

No significant matches found.

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.75 out of 23.79

Confidence: medium

Additional weak hits (1):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 26.33

Confidence: weak

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 6021:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (D-Ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

JLDCGCHE_07890: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (48..450): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: DVCHISLVEK
Nearest Stachelhaus code(s):: Ser DVWHISLVDK (85% 8Å match)
Stachelhaus code match:: 80% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism