Micromonospora_sediminicola_NPDC019245 - 24 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NPDC019245.ctg-0001 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	lanthipeptide-class-i	29,368	53,976
Region 1.2	NAGGN	328,605	343,417

NPDC019245.ctg-0002 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	NRPS	165,021	218,642
Region 2.2	NRPS-like,NRPS,T1PKS,terpene-precursor	249,858	326,054
Region 2.3	NI-siderophore,T2PKS	438,363	524,863	Medium	actinorhodin	PKS:Type II aromatic
Region 2.4	T2PKS,HR-T2PKS	678,811	751,444

NPDC019245.ctg-0003 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	T3PKS	498,276	539,334	High	loseolamycin A1/loseolamycin A2	PKS

NPDC019245.ctg-0004 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 4.1	terpene	89,450	110,400
Region 4.2	terpene-precursor	172,771	193,853
Region 4.3	terpene-precursor	459,696	480,763	Low	CDA1b/CDA2a/CDA2b/CDA3a/CDA3b/CDA4a/CDA4b	NRPS:Type I

NPDC019245.ctg-0005 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 5.1	terpene	384,137	405,102

NPDC019245.ctg-0006 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 6.1	terpene	412,327	433,553

NPDC019245.ctg-0007 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 7.1	NRPS,T1PKS	41,638	104,219

NPDC019245.ctg-0008 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 8.1	terpene	20,937	43,083	Low	isorenieratene	terpene

NPDC019245.ctg-0009 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 9.1	T1PKS	1	69,827	Low	quinolidomicin A	PKS

NPDC019245.ctg-0011 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 11.1	NRPS-like,T1PKS,NRPS	79,904	128,223

NPDC019245.ctg-0019 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 19.1	other	58,342	83,401

NPDC019245.ctg-0020 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 20.1	terpene,RiPP-like	6,996	31,467	Low	lymphostin/neolymphostinol B/lymphostinol/neolymphostin B	NRPS:Type I+PKS

NPDC019245.ctg-0021 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 21.1	arylpolyene,NRPS	1	69,182	Low	kedarcidin	NRPS:Type I+PKS:Iterative type I

NPDC019245.ctg-0024 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 24.1	NRPS-like,T1PKS,2dos	599	53,100	Low	quinolidomicin A	PKS

NPDC019245.ctg-0025 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 25.1	T1PKS	1	50,235

NPDC019245.ctg-0027 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 27.1	T1PKS	1	35,186	Low	sporolide A/sporolide B	NRPS:Type I+PKS:Enediyne type I

NPDC019245.ctg-0029 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 29.1	T1PKS	1	25,010

NPDC019245.ctg-0030 (Micromonospora sediminicola)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 30.1	T1PKS	1	17,384	Low	quinolidomicin A	PKS

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	lanthipeptide-class-i	29,368	53,976
Region 1.2	NAGGN	328,605	343,417
Region 2.1	NRPS	165,021	218,642
Region 2.2	NRPS-like,NRPS,T1PKS,terpene-precursor	249,858	326,054
Region 2.3	NI-siderophore,T2PKS	438,363	524,863	Medium	actinorhodin	PKS:Type II aromatic
Region 2.4	T2PKS,HR-T2PKS	678,811	751,444
Region 3.1	T3PKS	498,276	539,334	High	loseolamycin A1/loseolamycin A2	PKS
Region 4.1	terpene	89,450	110,400
Region 4.2	terpene-precursor	172,771	193,853
Region 4.3	terpene-precursor	459,696	480,763	Low	CDA1b/CDA2a/CDA2b/CDA3a/CDA3b/CDA4a/CDA4b	NRPS:Type I
Region 5.1	terpene	384,137	405,102
Region 6.1	terpene	412,327	433,553
Region 7.1	NRPS,T1PKS	41,638	104,219
Region 8.1	terpene	20,937	43,083	Low	isorenieratene	terpene
Region 9.1	T1PKS	1	69,827	Low	quinolidomicin A	PKS
Region 11.1	NRPS-like,T1PKS,NRPS	79,904	128,223
Region 19.1	other	58,342	83,401
Region 20.1	terpene,RiPP-like	6,996	31,467	Low	lymphostin/neolymphostinol B/lymphostinol/neolymphostin B	NRPS:Type I+PKS
Region 21.1	arylpolyene,NRPS	1	69,182	Low	kedarcidin	NRPS:Type I+PKS:Iterative type I
Region 24.1	NRPS-like,T1PKS,2dos	599	53,100	Low	quinolidomicin A	PKS
Region 25.1	T1PKS	1	50,235
Region 27.1	T1PKS	1	35,186	Low	sporolide A/sporolide B	NRPS:Type I+PKS:Enediyne type I
Region 29.1	T1PKS	1	25,010
Region 30.1	T1PKS	1	17,384	Low	quinolidomicin A	PKS

No secondary metabolite regions were found in these records:: NPDC019245.ctg-0010 (Micromonospora sediminicola); NPDC019245.ctg-0012 (Micromonospora sediminicola); NPDC019245.ctg-0013 (Micromonospora sediminicola); NPDC019245.ctg-0014 (Micromonospora sediminicola); NPDC019245.ctg-0015 (Micromonospora sediminicola); NPDC019245.ctg-0016 (Micromonospora sediminicola); NPDC019245.ctg-0017 (Micromonospora sediminicola); NPDC019245.ctg-0018 (Micromonospora sediminicola); NPDC019245.ctg-0022 (Micromonospora sediminicola); NPDC019245.ctg-0023 (Micromonospora sediminicola); NPDC019245.ctg-0026 (Micromonospora sediminicola); NPDC019245.ctg-0028 (Micromonospora sediminicola); NPDC019245.ctg-0031 (Micromonospora sediminicola); NPDC019245.ctg-0032 (Micromonospora sediminicola); NPDC019245.ctg-0033 (Micromonospora sediminicola); NPDC019245.ctg-0034 (Micromonospora sediminicola); NPDC019245.ctg-0035 (Micromonospora sediminicola); NPDC019245.ctg-0036 (Micromonospora sediminicola); NPDC019245.ctg-0037 (Micromonospora sediminicola); NPDC019245.ctg-0038 (Micromonospora sediminicola)

Compact view

NPDC019245.ctg-0001 - Region 1 - lanthipeptide-class-i

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Location: 29,368 - 53,976 nt. (total: 24,609 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))

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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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Gene overview

Tailoring

MIBiG comparison

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Lanthipeptides

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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: methyltransferase

CDS_00045: methyltransferase

smcogs: SMCOG1248: methyltransferase

Hydrolases: phosphatase

CDS_00046: inositol monophosphatase

smcogs: SMCOG1207: inositol monophosphatase

Lyases: cyclase dehydratase

CDS_00037: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

CDS_00038: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

Translocases: permease

CDS_00030: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002316.2	0.45	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0001289.5	0.44	ribosomal	penisin	Paenibacillus ehimensis
BGC0000556.5	0.41	ribosomal	streptin	Streptococcus pyogenes
BGC0000544.4	0.41	ribosomal	planosporicin	Planomonospora alba
BGC0001727.3	0.40	ribosomal	paenilan	Paenibacillus polymyxa E681
BGC0000514.5	0.40	ribosomal	gallidermin	Staphylococcus gallinarum
BGC0001441.5	0.36	other (other)	belactosin A, belactosin C	Streptomyces sp.
BGC0000796.3	0.32	saccharide	S-layer glycan	Paenibacillus alvei
BGC0002282.2	0.31	other (other)	formycin A	Streptomyces kaniharaensis
BGC0002040.3	0.30	other (other)	coformycin, formycin A	Streptomyces kaniharaensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002316.2	0.45	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0001289.5	0.44	ribosomal	penisin	Paenibacillus ehimensis
BGC0000556.5	0.41	ribosomal	streptin	Streptococcus pyogenes
BGC0000544.4	0.41	ribosomal	planosporicin	Planomonospora alba
BGC0001727.3	0.40	ribosomal	paenilan	Paenibacillus polymyxa E681
BGC0000514.5	0.40	ribosomal	gallidermin	Staphylococcus gallinarum
BGC0001441.5	0.36	other (other)	belactosin A, belactosin C	Streptomyces sp.
BGC0000796.3	0.32	saccharide	S-layer glycan	Paenibacillus alvei
BGC0002282.2	0.31	other (other)	formycin A	Streptomyces kaniharaensis
BGC0002040.3	0.30	other (other)	coformycin, formycin A	Streptomyces kaniharaensis

Similar known clusters

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for CDS_00037

CDS_00036

Leader:

MNDTETSEFALDVSLVDAGPTAG

Core:

GYATATDDGCGSGNTGSNACTTKCDGGN

Core with dehydrations:

GYADhbADhbDDGCysGDhaGNDhbGDhaNACysDhbDhbKCysDGGN

antiSMASH-DB 4.0 matches for CDS_00036

100.0%

NZ_CP024087.1and 7 others:

NZ_CP024087.1 Lanthipeptides: CSH63_RS21430_lanthipeptideNZ_FMCV01000042.1 Lanthipeptides: GA0070215_RS27180_lanthipeptideNZ_FMCV01000042.1 Lanthipeptides: GA0070215_RS27180_lanthipeptideNZ_JAGFWR010000001.1 Lanthipeptides: JQN83_RS04720_lanthipeptideNZ_JAGFWR010000001.1 Lanthipeptides: JQN83_RS04720_lanthipeptideNZ_LT598496.1 Lanthipeptides: GA0070620_RS18735_lanthipeptideNZ_LT598496.1 Lanthipeptides: GA0070620_RS18735_lanthipeptide

Lanthipeptides: CSH63_RS21430_lanthipeptide

1

GYATATDDGCGSGNTGSNACTTKCDGGN

28

GYATATDDGCGSGNTGSNACTTKCDGGN

1

GYATATDDGCGSGNTGSNACTTKCDGGN

28

75.0%

NZ_AP023438.1and 1 other:

NZ_AP023438.1 Lanthipeptides: IGA62_RS12300_lanthipeptide

Lanthipeptides: IGA62_RS12300_lanthipeptide

1

GYATATDDGCGSGNTGSNACTTK

23

GYAT TDDGCGSGNTGSNACT K

3

GYATNTDDGCGSGNTGSNACTGK

25

67.9%

NZ_BBVA01000012.1and 7 others:

NZ_BBVA01000012.1 Lanthipeptides: A4R25_RS30875_lanthipeptideNZ_CP084582.1 Lanthipeptides: LF814_RS03375_lanthipeptideNZ_CP084582.1 Lanthipeptides: LF814_RS03375_lanthipeptideNZ_CP118233.1 Lanthipeptides: PVK74_RS24320_lanthipeptideNZ_CP118233.1 Lanthipeptides: PVK74_RS24320_lanthipeptideNZ_KK037233.1 Lanthipeptides: MCBG_RS31715_lanthipeptideNZ_KK037233.1 Lanthipeptides: MCBG_RS31715_lanthipeptide

Lanthipeptides: A4R25_RS30875_lanthipeptide

1

GYATATDDGCGSGNTGSNACT

21

GYAT+TDDGCGSGNTGSNAC+

3

GYATSTDDGCGSGNTGSNACS

23

with 52 more sequence matches

Only the first 10 are displayed here.

42.9%

NZ_BBVA01000002.1and 9 others:

NZ_BBXD01000026.1 Lanthipeptides: AW272_RS36470_lanthipeptideNZ_CP030865.1 Lanthipeptides: MicB006_RS27820_lanthipeptideNZ_FMCS01000017.1 Lanthipeptides: GA0070214_RS30700_lanthipeptideNZ_JAGPXW010000015.1 Lanthipeptides: KBX71_RS18490_lanthipeptideNZ_JALJRJ010000030.1 Lanthipeptides: OC439_RS27920_lanthipeptideNZ_KB913036.1 Lanthipeptides: A39M_RS1000000128430_lanthipeptideNZ_LT594324.1 Lanthipeptides: GA0070621_RS04875_lanthipeptideNZ_LT607410.1 Lanthipeptides: GA0074696_RS20405_lanthipeptideNZ_LT607753.1 Lanthipeptides: GA0070614_RS02740_lanthipeptide

Lanthipeptides: A4R25_RS30565_lanthipeptide

6

TDDGCGSGNTGSNACTT

22

TDDGCGS T ACTT

3

TDDGCGSTCT---ACTT

16

42.9%

NZ_CP031264.1and 1 other:

NZ_CP031264.1 Lanthipeptides: C7M71_RS08475_lanthipeptide

Lanthipeptides: C7M71_RS08475_lanthipeptide

6

TDDGCGSGNTGSNACTTKCD

25

T DGCGS +GS ACT+ D

1

TSDGCGSSCSGS-ACTSFTD

19

42.9%

NZ_CP119145.1and 1 other:

NZ_CP119145.1 Lanthipeptides: PZB75_RS00285_lanthipeptide

Lanthipeptides: PZB75_RS00285_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCGS T +AC+T C

5

MTDDGCGS--TCQSACSTTC

22

42.9%

NZ_KI912225.1and 1 other:

NZ_KI912225.1 Lanthipeptides: SACPADRAFT_RS26660_lanthipeptide

Lanthipeptides: SACPADRAFT_RS26660_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCGS T +ACT C

5

PTDDGCGS--TCESACTPTC

22

41.9%

NZ_LWLC01000028.1:

Lanthipeptides: A6A25_RS26255_lanthipeptide

6

TDDGCGSGNTGSNACTTKC-DGG

27

TDDGCG T +AC+ C DGG

11

TDDGCG--QTCESACSNSCTDGG

31

39.3%

NC_007777.1and 1 other:

NC_007777.1 Lanthipeptides: FRANCCI3_RS09160_lanthipeptide

Lanthipeptides: FRANCCI3_RS09160_lanthipeptide

2

YATATDDGCGSGNTGSNACTTKCDG

26

TDDGCG+ T +AC C G

5

LIRMTDDGCGT--TCQSACPNTCPG

27

39.3%

NC_007777.1and 1 other:

NC_007777.1 Lanthipeptides: FRANCCI3_RS10225_lanthipeptide

Lanthipeptides: FRANCCI3_RS10225_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCG+ T AC+T C

5

MTDDGCGT--TCETACSTTC

22

39.3%

NZ_AP026073.1and 17 others:

NZ_BBOK01000007.1 Lanthipeptides: APK71_RS35805_lanthipeptideNZ_BBUY01000020.1 Lanthipeptides: AZE13_RS34600_lanthipeptideNZ_BMUN01000013.1 Lanthipeptides: IE238_RS22260_lanthipeptideNZ_BMVR01000012.1 Lanthipeptides: IE274_RS28010_lanthipeptideNZ_CP009754.1 Lanthipeptides: NI25_RS06465_lanthipeptideNZ_CP015588.1 Lanthipeptides: A7J05_RS07195_lanthipeptideNZ_CP023697.1 Lanthipeptides: CP972_RS03610_lanthipeptideNZ_CP029192.1 Lanthipeptides: DEJ48_RS36690_lanthipeptideNZ_CP029192.1 Lanthipeptides: DEJ48_RS36690_lanthipeptideNZ_CP031194.1 Lanthipeptides: DVK44_RS04655_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS29900_lanthipeptideNZ_CP042324.1 Lanthipeptides: FQ762_RS35785_lanthipeptideNZ_CP042324.1 Lanthipeptides: FQ762_RS35780_lanthipeptideNZ_CP043317.1 Lanthipeptides: FYC74_RS03985_lanthipeptideNZ_CP116257.1 Lanthipeptides: BJ961_RS11895_lanthipeptideNZ_JACHCX010000001.1 Lanthipeptides: HDC93_RS03090_lanthipeptideNZ_ML123127.1 Lanthipeptides: EES47_RS19530_lanthipeptide

Lanthipeptides: HEK616_RS04845_lanthipeptide

6

TDDGCGSGNTGSNACTT

22

TDDGCGS T S+ C T

4

TDDGCGS--TCSSPCAT

18

39.3%

NZ_BBNO01000004.1:

Lanthipeptides: TU31_RS36875_lanthipeptide

2

YATATDDGCGSGNTGSNACTTK

23

TDDGCGS + +AC TK

2

LIVLTDDGCGS--SCPSACATK

21

39.3%

NZ_BMMN01000001.1and 1 other:

NZ_BMMN01000001.1 Lanthipeptides: IEY80_RS02165_lanthipeptide

Lanthipeptides: IEY80_RS02165_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCG+ T +AC+T C

5

MTDDGCGT--TCQSACSTTC

22

MIBiG 4.0 matches for CDS_00036

14.3%

BGC0002110.3 (QKV49894.1):

Lanthipeptide: birimositide

17

SNACTTKC

24

+ CT+KC

19

TTKCTSKC

26

8.1%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

20

CTTKC

24

CT++C

33

CTSRC

37

Lanthipeptide(s) for CDS_00039

CDS_00036

Leader:

MNDTETSEFALDVSLVDAGPTAG

Core:

GYATATDDGCGSGNTGSNACTTKCDGGN

Core with dehydrations:

GYADhbADhbDDGCysGDhaGNDhbGDhaNACysDhbDhbKCysDGGN

antiSMASH-DB 4.0 matches for CDS_00036

100.0%

NZ_CP024087.1and 7 others:

NZ_CP024087.1 Lanthipeptides: CSH63_RS21430_lanthipeptideNZ_FMCV01000042.1 Lanthipeptides: GA0070215_RS27180_lanthipeptideNZ_FMCV01000042.1 Lanthipeptides: GA0070215_RS27180_lanthipeptideNZ_JAGFWR010000001.1 Lanthipeptides: JQN83_RS04720_lanthipeptideNZ_JAGFWR010000001.1 Lanthipeptides: JQN83_RS04720_lanthipeptideNZ_LT598496.1 Lanthipeptides: GA0070620_RS18735_lanthipeptideNZ_LT598496.1 Lanthipeptides: GA0070620_RS18735_lanthipeptide

Lanthipeptides: CSH63_RS21430_lanthipeptide

1

GYATATDDGCGSGNTGSNACTTKCDGGN

28

GYATATDDGCGSGNTGSNACTTKCDGGN

1

GYATATDDGCGSGNTGSNACTTKCDGGN

28

75.0%

NZ_AP023438.1and 1 other:

NZ_AP023438.1 Lanthipeptides: IGA62_RS12300_lanthipeptide

Lanthipeptides: IGA62_RS12300_lanthipeptide

1

GYATATDDGCGSGNTGSNACTTK

23

GYAT TDDGCGSGNTGSNACT K

3

GYATNTDDGCGSGNTGSNACTGK

25

67.9%

NZ_BBVA01000012.1and 7 others:

NZ_BBVA01000012.1 Lanthipeptides: A4R25_RS30875_lanthipeptideNZ_CP084582.1 Lanthipeptides: LF814_RS03375_lanthipeptideNZ_CP084582.1 Lanthipeptides: LF814_RS03375_lanthipeptideNZ_CP118233.1 Lanthipeptides: PVK74_RS24320_lanthipeptideNZ_CP118233.1 Lanthipeptides: PVK74_RS24320_lanthipeptideNZ_KK037233.1 Lanthipeptides: MCBG_RS31715_lanthipeptideNZ_KK037233.1 Lanthipeptides: MCBG_RS31715_lanthipeptide

Lanthipeptides: A4R25_RS30875_lanthipeptide

1

GYATATDDGCGSGNTGSNACT

21

GYAT+TDDGCGSGNTGSNAC+

3

GYATSTDDGCGSGNTGSNACS

23

with 52 more sequence matches

Only the first 10 are displayed here.

42.9%

NZ_BBVA01000002.1and 9 others:

NZ_BBXD01000026.1 Lanthipeptides: AW272_RS36470_lanthipeptideNZ_CP030865.1 Lanthipeptides: MicB006_RS27820_lanthipeptideNZ_FMCS01000017.1 Lanthipeptides: GA0070214_RS30700_lanthipeptideNZ_JAGPXW010000015.1 Lanthipeptides: KBX71_RS18490_lanthipeptideNZ_JALJRJ010000030.1 Lanthipeptides: OC439_RS27920_lanthipeptideNZ_KB913036.1 Lanthipeptides: A39M_RS1000000128430_lanthipeptideNZ_LT594324.1 Lanthipeptides: GA0070621_RS04875_lanthipeptideNZ_LT607410.1 Lanthipeptides: GA0074696_RS20405_lanthipeptideNZ_LT607753.1 Lanthipeptides: GA0070614_RS02740_lanthipeptide

Lanthipeptides: A4R25_RS30565_lanthipeptide

6

TDDGCGSGNTGSNACTT

22

TDDGCGS T ACTT

3

TDDGCGSTCT---ACTT

16

42.9%

NZ_CP031264.1and 1 other:

NZ_CP031264.1 Lanthipeptides: C7M71_RS08475_lanthipeptide

Lanthipeptides: C7M71_RS08475_lanthipeptide

6

TDDGCGSGNTGSNACTTKCD

25

T DGCGS +GS ACT+ D

1

TSDGCGSSCSGS-ACTSFTD

19

42.9%

NZ_CP119145.1and 1 other:

NZ_CP119145.1 Lanthipeptides: PZB75_RS00285_lanthipeptide

Lanthipeptides: PZB75_RS00285_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCGS T +AC+T C

5

MTDDGCGS--TCQSACSTTC

22

42.9%

NZ_KI912225.1and 1 other:

NZ_KI912225.1 Lanthipeptides: SACPADRAFT_RS26660_lanthipeptide

Lanthipeptides: SACPADRAFT_RS26660_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCGS T +ACT C

5

PTDDGCGS--TCESACTPTC

22

41.9%

NZ_LWLC01000028.1:

Lanthipeptides: A6A25_RS26255_lanthipeptide

6

TDDGCGSGNTGSNACTTKC-DGG

27

TDDGCG T +AC+ C DGG

11

TDDGCG--QTCESACSNSCTDGG

31

39.3%

NC_007777.1and 1 other:

NC_007777.1 Lanthipeptides: FRANCCI3_RS09160_lanthipeptide

Lanthipeptides: FRANCCI3_RS09160_lanthipeptide

2

YATATDDGCGSGNTGSNACTTKCDG

26

TDDGCG+ T +AC C G

5

LIRMTDDGCGT--TCQSACPNTCPG

27

39.3%

NC_007777.1and 1 other:

NC_007777.1 Lanthipeptides: FRANCCI3_RS10225_lanthipeptide

Lanthipeptides: FRANCCI3_RS10225_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCG+ T AC+T C

5

MTDDGCGT--TCETACSTTC

22

39.3%

NZ_AP026073.1and 17 others:

NZ_BBOK01000007.1 Lanthipeptides: APK71_RS35805_lanthipeptideNZ_BBUY01000020.1 Lanthipeptides: AZE13_RS34600_lanthipeptideNZ_BMUN01000013.1 Lanthipeptides: IE238_RS22260_lanthipeptideNZ_BMVR01000012.1 Lanthipeptides: IE274_RS28010_lanthipeptideNZ_CP009754.1 Lanthipeptides: NI25_RS06465_lanthipeptideNZ_CP015588.1 Lanthipeptides: A7J05_RS07195_lanthipeptideNZ_CP023697.1 Lanthipeptides: CP972_RS03610_lanthipeptideNZ_CP029192.1 Lanthipeptides: DEJ48_RS36690_lanthipeptideNZ_CP029192.1 Lanthipeptides: DEJ48_RS36690_lanthipeptideNZ_CP031194.1 Lanthipeptides: DVK44_RS04655_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS29900_lanthipeptideNZ_CP042324.1 Lanthipeptides: FQ762_RS35785_lanthipeptideNZ_CP042324.1 Lanthipeptides: FQ762_RS35780_lanthipeptideNZ_CP043317.1 Lanthipeptides: FYC74_RS03985_lanthipeptideNZ_CP116257.1 Lanthipeptides: BJ961_RS11895_lanthipeptideNZ_JACHCX010000001.1 Lanthipeptides: HDC93_RS03090_lanthipeptideNZ_ML123127.1 Lanthipeptides: EES47_RS19530_lanthipeptide

Lanthipeptides: HEK616_RS04845_lanthipeptide

6

TDDGCGSGNTGSNACTT

22

TDDGCGS T S+ C T

4

TDDGCGS--TCSSPCAT

18

39.3%

NZ_BBNO01000004.1:

Lanthipeptides: TU31_RS36875_lanthipeptide

2

YATATDDGCGSGNTGSNACTTK

23

TDDGCGS + +AC TK

2

LIVLTDDGCGS--SCPSACATK

21

39.3%

NZ_BMMN01000001.1and 1 other:

NZ_BMMN01000001.1 Lanthipeptides: IEY80_RS02165_lanthipeptide

Lanthipeptides: IEY80_RS02165_lanthipeptide

5

ATDDGCGSGNTGSNACTTKC

24

TDDGCG+ T +AC+T C

5

MTDDGCGT--TCQSACSTTC

22

MIBiG 4.0 matches for CDS_00036

14.3%

BGC0002110.3 (QKV49894.1):

Lanthipeptide: birimositide

17

SNACTTKC

24

+ CT+KC

19

TTKCTSKC

26

8.1%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

20

CTTKC

24

CT++C

33

CTSRC

37

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.60 out of 23.79

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.07 out of 29.65

Confidence: medium

Additional weak hits (6):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.92 out of 30.22

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.51 out of 20.97

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.56 out of 25.88

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.98 out of 30.22

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.65 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

RREFinder

TFBS Finder

Core peptide predictions

CDS_00036 - Class I

Cleavage pHMM score: -4.20

RODEO score: 14

Monoisotopic mass: 2471.0 Da

Molecular weight: 2472.5 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2490.5 Da N = 1; 2508.5 Da N = 2; 2526.5 Da N = 3; 2544.6 Da N = 4

CDS_00036 - Class I

Cleavage pHMM score: -4.20

RODEO score: 14

Monoisotopic mass: 2471.0 Da

Molecular weight: 2472.5 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2490.5 Da N = 1; 2508.5 Da N = 2; 2526.5 Da N = 3; 2544.6 Da N = 4

RRE predictions

: RRE type: Lanthipeptide_LanB_RRE; Location: 150 - 236; Score: 47.2

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
LexA variant 1	Repressor of DNA damage response

NPDC019245.ctg-0001 - Region 2 - NAGGN

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Location: 328,605 - 343,417 nt. (total: 14,813 nt) Show pHMM detection rules used

NAGGN: ((TIGR03104 or cds(GATase_7 and Asn_synthase)) and TIGR03103 and (TIGR03106 or Peptidase_M42))

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

Hydrolases: hydrolase

CDS_00329: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Ligases: synthase

CDS_00323: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001880.3	0.44	ribosomal	scytodecamide	Scytonema sp. UIC 10036
BGC0000846.5	0.39	other (other)	tabtoxin	Pseudomonas syringae
BGC0000885.3	0.38	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0001587.5	0.38	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2	0.34	other (other)	Ethylenediaminesuccinic acid hydroxyarginine	Streptomyces scabiei 87.22
BGC0000943.5	0.32	other (other)	staphyloferrin B	Staphylococcus aureus subsp. aureus NCTC 8325
BGC0000937.5	0.32	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0001739.3	0.31	other (other)	phosphonoacetic Acid	Streptomyces sp. NRRL F-525
BGC0002213.3	0.31	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5
BGC0001374.5	0.31	other (other)	thienodolin	Streptomyces albogriseolus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001880.3	0.44	ribosomal	scytodecamide	Scytonema sp. UIC 10036
BGC0000846.5	0.39	other (other)	tabtoxin	Pseudomonas syringae
BGC0000885.3	0.38	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0001587.5	0.38	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2	0.34	other (other)	Ethylenediaminesuccinic acid hydroxyarginine	Streptomyces scabiei 87.22
BGC0000943.5	0.32	other (other)	staphyloferrin B	Staphylococcus aureus subsp. aureus NCTC 8325
BGC0000937.5	0.32	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0001739.3	0.31	other (other)	phosphonoacetic Acid	Streptomyces sp. NRRL F-525
BGC0002213.3	0.31	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5
BGC0001374.5	0.31	other (other)	thienodolin	Streptomyces albogriseolus

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 (6):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.95 out of 27.04

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.52 out of 29.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.37 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.27 out of 32.74

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.57 out of 36.53

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

NPDC019245.ctg-0002 - Region 1 - NRPS

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Location: 165,021 - 218,642 nt. (total: 53,622 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

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: oxidase

CDS_01076: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

CDS_01078: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

Ligases: ligase

CDS_01067: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01068: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_01069: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_01070: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01071: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01075: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01082: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

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	0.75	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.75	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.75	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.75	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002075.3	0.75	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001261.3	0.73	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001758.4	0.73	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

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	0.75	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.75	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.75	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.75	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002075.3	0.75	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001261.3	0.73	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001758.4	0.73	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.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.58 out of 23.79

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.62 out of 30.11

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.80 out of 23.79

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 26.66 out of 30.11

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.62 out of 23.79

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.86 out of 26.85

Confidence: medium

Additional weak hits (17):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.52 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.18 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.01 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 18.40 out of 31.73

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: 20.63 out of 26.85

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.04 out of 29.51

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.33 out of 25.75

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.94 out of 20.97

Confidence: weak

CcpA

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

Confidence: weak

ANR

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

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.70 out of 20.97

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.97 out of 24.78

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.89 out of 39.62

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.05 out of 24.78

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.55 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 165020 - 218642:

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

Polymer prediction:: (Asp) + (Ala) + (Ser) + (X - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_01067: Asp

Search NORINE for peptide: strict or relaxed

AMP-binding (254..645): Asp

nrpys: 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:: asp (Asp)

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKVGEIGK
Nearest Stachelhaus code(s):: Asp DLTKVGHIGK (71% 8Å match); Asn DLTKVGEVGK (62% 8Å match)
Stachelhaus code match:: 90% (moderate)

CDS_01068: Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (487..894): Ala

nrpys: Ala

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: ser (Ser)
Single AA prediction:: ala (Ala)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWQLHVDDK
Nearest Stachelhaus code(s):: ohDab DVWQMIGDDK (56% 8Å match)
Stachelhaus code match:: 70% (weak)

CDS_01070: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (40..434): 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:: DVVHISQIDK
Nearest Stachelhaus code(s):: Ser DVWHISLIDK (76% 8Å match)
Stachelhaus code match:: 80% (moderate)

CDS_01071: X - X

AMP-binding (483..870): 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:: DMLQLGAIGK
Nearest Stachelhaus code(s):: Gly DILQLGLIWK (74% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1520..1905): X

nrpys: Asp, Asn, Glu, Gln, Aad

SVM prediction details:

Predicted physicochemical class:: N/A
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:: DARLLSQMTK
Nearest Stachelhaus code(s):: Glu DPRSLSQMAK (65% 8Å match)
Stachelhaus code match:: 70% (weak)

CDS_01075: X

AMP-binding (12..394): 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:: DVEQVGGVTK
Nearest Stachelhaus code(s):: Arg DVENVGAVTK (65% 8Å match); OH-Orn DGEVVGGVTK (59% 8Å match)
Stachelhaus code match:: 80% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CelR	Cellobiose uptake repressor
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism

NPDC019245.ctg-0002 - Region 2 - NRPS,NRPS-like,T1PKS,terpene-precursor

Download region GenBank file

Download region SVG

Location: 249,858 - 326,054 nt. (total: 76,197 nt) Show pHMM detection rules used

NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
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))
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

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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 oxidoreductase oxygenase

CDS_01134: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

CDS_01147: Dioxygenase TauD/TfdA

smcogs: SMCOG1046: Dioxygenase TauD/TfdA

CDS_01157: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

CDS_01164: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Hydrolases: esterase

CDS_01139: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: lyase

CDS_01149: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase synthase synthetase

CDS_01135: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_01136: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01141: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_01142: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

CDS_01144: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_01145: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_01148: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01159: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001132.4	1.28	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	1.27	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	1.27	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001249.5	1.24	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001833.4	1.23	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002075.3	1.18	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001261.3	1.18	NRPS	AM-toxin	Alternaria alternata
BGC0002135.2	1.18	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	1.17	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001825.4	1.13	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001132.4	0.76	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.76	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.76	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
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
BGC0001261.3	0.74	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001135.5	0.73	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001825.4	0.73	NRPS	xenematide	Xenorhabdus nematophila AN6/1

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:

CDS_01159: PT_FPPS_like

Domain 1 (49 - 322): 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:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46

Confidence: strong

AfsQ1

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

Confidence: strong

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.52 out of 25.88

Confidence: medium

Additional weak hits (12):

MatP

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

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.92 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.24 out of 29.25

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.04 out of 31.73

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.76 out of 21.55

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.92 out of 20.97

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.64 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.91 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.58 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.48 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.42 out of 24.78

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.02 out of 33.14

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

Selected features only

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NRPS/PKS products

NRPS/PKS substrates

Terpene

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 249857 - 326054:

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

Polymer prediction:: (X) + (X) + (ccmal) + (Asp - X - Ser) + (Ser)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 249857 - 292986:

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

Polymer prediction:: (X) + (X) + (ccmal) + (Asp - X - Ser)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 258242 - 320709:

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

Polymer prediction:: (X) + (X) + (ccmal) + (Asp - X - Ser) + (Ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_01136: X

AMP-binding (447..847): X

nrpys: Orn, Lys, Arg

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:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DMTHVGGFAK
Nearest Stachelhaus code(s):: Glu DAMHVGGTAK (53% 8Å match)
Stachelhaus code match:: 70% (weak)

CDS_01141: X

AMP-binding (26..414): 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:: DVLSLGCVQK
Nearest Stachelhaus code(s):: Phe or Trp DVLSIGAVVK (53% 8Å match)
Stachelhaus code match:: 70% (weak)

CDS_01142: mal

PKS_AT (537..819): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 83.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 171.7
inactive: 109.6
Methoxymalonyl-CoA: 68.3
Methylmalonyl-CoA: 58.4
Propionyl-CoA: 57.1
Isobutyryl-CoA: 51.3
Ethylmalonyl-CoA: 40.4
CHC-CoA: 38.5
2-Methylbutyryl-CoA: 37.6
fatty_acid: 31.2
Benzoyl-CoA: 26.9
Acetyl-CoA: 22.2
trans-1,2-CPDA: 17.3
3-Methylbutyryl-CoA: 16.7

CDS_01144: Asp - X - Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (452..854): Asp

nrpys: 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:: asp (Asp)

Stachelhaus prediction details:

Stachelhaus sequence:: DFTKLGHVGK
Nearest Stachelhaus code(s):: Asn DGTKLGEVGK (68% 8Å match); Asp DLTKVGHVGK (65% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (1536..1750): X

nrpys: (unknown)

SVM prediction details:

NOTE: uncertain match

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:: VTVARV-VDK
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

AMP-binding (2411..2793): 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)

CDS_01145: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (478..860): 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)

CDS_01148: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (34..424): 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:: DALWLGGTFK
Nearest Stachelhaus code(s):: Val DALWLGGTFK (85% 8Å match); bOH-Val DALWLGGTFK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

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

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
PsrA	Oleic acid responsive regulator
RpoN	Regulator of nitrogen assimilation and virulence

NPDC019245.ctg-0002 - Region 3 - NI-siderophore,T2PKS

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Location: 438,363 - 524,863 nt. (total: 86,501 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC
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 oxidoreductase oxygenase

CDS_01264: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_01276: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

CDS_01306: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

CDS_01309: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_01310: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

CDS_01311: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

CDS_01315: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_01321: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

CDS_01327: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

Transferases: aminotransferase carboxylase transferase

CDS_01267: aminotransferase

smcogs: SMCOG1019: aminotransferase

CDS_01312: acetyl-CoA carboxylase, carboxyl transferase,

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

CDS_01313: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: hydrolase

CDS_01304: metallo-beta-lactamase family protein

smcogs: SMCOG1170: metallo-beta-lactamase family protein

Lyases: cyclase decarboxylase lyase

CDS_01277: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

CDS_01297: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

CDS_01303: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

Isomerases: isomerase

CDS_01266: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: synthase

CDS_01265: carbamoyl phosphate synthase small subunit

smcogs: SMCOG1249: carbamoyl phosphate synthase small subunit

CDS_01300: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_01301: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001478.5	1.15	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.94	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002305.2	0.84	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0000940.5	0.82	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.82	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0001572.3	0.75	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.58	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0002464.3	0.57	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002073.3	0.53	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0000231.5	0.52	PKS	griseusin A, griseusin B	Streptomyces griseus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001478.5	0.83	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.76	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002305.2	0.73	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0000231.5	0.72	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0000940.5	0.72	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.72	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0001572.3	0.70	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.63	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0001723.5	0.63	PKS	oviedomycin	Streptomyces antibioticus
BGC0002464.3	0.63	other (other)	alcaligin	Bordetella pertussis Tohama I

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 34.36 out of 36.53

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.77 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.61 out of 36.53

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.70 out of 23.79

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

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.07 out of 23.79

Confidence: medium

Additional weak hits (19):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.36 out of 20.97

Confidence: weak

HipB

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

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.30 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.86 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.05 out of 27.78

Confidence: weak

MexT

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

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.35 out of 26.33

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 22.36 out of 32.93

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.23 out of 29.38

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: 17.85 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.52 out of 27.78

Confidence: weak

ClgR

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

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.31 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.85 out of 36.53

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 22.87 out of 32.38

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.30 out of 18.57

Confidence: weak

MexT

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

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.88 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

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 452362 to 524863
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:: 7 (Score: 721.7; E-value: 4.9e-220)
Product class(es):: benzoisochromanequinone
Product molecular weight(s):: acetyl-CoA_7: 309 Da

CDS_01300: KS (Score: 785.1; E-value: 3.3e-239)
CDS_01301: CLF 7 (Score: 721.7; E-value: 4.9e-220)
CDS_01302: ACP (Score: 120.5; E-value: 5.2e-38)
CDS_01303: CYC C7-C12 (Score: 405.7; E-value: 2.3e-124)
CDS_01304: CYC C5-C14 (Score: 484.9; E-value: 1.8e-148)
CDS_01309: KR (Score: 160.8; E-value: 1.1e-49)
CDS_01315: KR C9 (Score: 450.3; E-value: 4.6e-138)
CDS_01324: DIMER (Score: 307.9; E-value: 1.5e-94)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
DmdR1	Iron(II)-dependent repressor
IolR	Regulator of the inositol catabolism

NPDC019245.ctg-0002 - Region 4 - HR-T2PKS,T2PKS

Download region GenBank file

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Location: 678,811 - 751,444 nt. (total: 72,634 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)
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

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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 oxygenase

CDS_01506: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

CDS_01542: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: PPTase aminotransferase carboxylase kinase transferase

CDS_01513: acetyl-CoA carboxylase, carboxyl transferase,

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

CDS_01515: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

CDS_01522: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

CDS_01545: aminotransferase

smcogs: SMCOG1019: aminotransferase

CDS_01547: glycerol kinase

smcogs: SMCOG1210: glycerol kinase

Hydrolases: dehalogenase glucanase hydrolase

CDS_01489: Pullulanase, type I

smcogs: SMCOG1297: Pullulanase, type I

CDS_01535: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

CDS_01543: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

Lyases: cyclase

CDS_01510: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

CDS_01512: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

CDS_01516: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

Isomerases: mutase

CDS_01551: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Ligases: ligase synthase

CDS_01498: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01518: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_01519: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

CDS_01521: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01525: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_01527: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_01528: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_01533: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

CDS_01540: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000272.3	0.57	PKS	spore pigment	Streptomyces collinus
BGC0000271.5	0.57	PKS	spore pigment	Streptomyces avermitilis
BGC0001513.3	0.53	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000261.5	0.52	PKS	R1128	Streptomyces sp. R1128
BGC0000234.5	0.50	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001197.5	0.49	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0000275.4	0.49	PKS	tetracenomycin C	Streptomyces glaucescens
BGC0000215.5	0.48	PKS	curamycin	Streptomyces cyaneus
BGC0001723.5	0.48	PKS	oviedomycin	Streptomyces antibioticus
BGC0002084.4	0.47	ribosomal	biarylitide YYH	Planomonospora sp. ID82291

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000272.3	0.62	PKS	spore pigment	Streptomyces collinus
BGC0000271.5	0.62	PKS	spore pigment	Streptomyces avermitilis
BGC0001513.3	0.60	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000261.5	0.59	PKS	R1128	Streptomyces sp. R1128
BGC0000234.5	0.58	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001197.5	0.58	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0000275.4	0.58	PKS	tetracenomycin C	Streptomyces glaucescens
BGC0000215.5	0.57	PKS	curamycin	Streptomyces cyaneus
BGC0001723.5	0.57	PKS	oviedomycin	Streptomyces antibioticus
BGC0002084.4	0.57	ribosomal	biarylitide YYH	Planomonospora sp. ID82291

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.90 out of 30.12

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.68 out of 30.12

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: 24.07 out of 30.11

Confidence: medium

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.80 out of 29.51

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

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.37 out of 23.79

Confidence: medium

Additional weak hits (15):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.82 out of 30.25

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.53 out of 21.84

Confidence: weak

MexT

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

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.73 out of 27.78

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.37 out of 29.51

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.88 out of 33.73

Confidence: weak

MexT

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

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.26 out of 36.54

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.07 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.32 out of 28.19

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.50 out of 20.01

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.88 out of 35.63

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.33 out of 32.93

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.80 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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Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

Type II PKS

TFBS Finder

NRPS/PKS substrate predictions

CDS_01498: X

AMP-binding (77..338): 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:: GLGMVGIVEK
Nearest Stachelhaus code(s):: nohBza GLGLVGAIIK (29% 8Å match)
Stachelhaus code match:: 60% (weak)

CDS_01521: X

AMP-binding (41..371): 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:: GLGVTGMVIK
Nearest Stachelhaus code(s):: nohBza GLGLVGAIIK (56% 8Å match)
Stachelhaus code match:: 60% (weak)

CDS_01527: X

AMP-binding (48..433): X

nrpys: (unknown)

SVM prediction details:

NOTE: uncertain match

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:: TALFFT--VK
Nearest Stachelhaus code(s):: Trp GALFFAAGVK (21% 8Å match)
Stachelhaus code match:: 60% (weak)

CDS_01540: X

AMP-binding (21..411): X

nrpys: Gly, Ala, Val, Leu, Ile, Abu, Ival

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:: -LGFNGVVIK
Nearest Stachelhaus code(s):: Hph or Hty DLGFTGCVNK (38% 8Å match); Hty DLGFTGCVTK (35% 8Å match); 3Me-Glu or Glu DLGKTGVVNK (32% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

Type II PKS gene cluster prediction details

Cluster section:: 678810 to 751444
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Product class(es):: pentangular polyphenol
tetracenomycin

CDS_01510: CYC C4-C21/C2-C23|C2-C19 (Score: 116.8; E-value: 9.8e-37)
CDS_01512: CYC C4-C21/C2-C23|C2-C19 (Score: 134.1; E-value: 3.9e-42)
CDS_01516: CYC C9-C14 (Score: 236.9; E-value: 1.7e-73)
CDS_01517: CYC C5-C18 (Score: 209.6; E-value: 3e-65)
CDS_01518: KS (Score: 706.9; E-value: 1.8e-215)
CDS_01519: CLF (Score: 492.1; E-value: 2.7e-150)
CDS_01528: CLF (Score: 269.3; E-value: 1.2e-82)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
CelR	Cellobiose uptake repressor
DosR	Hypoxia stress response regulator
IolR	Regulator of the inositol catabolism
OsdR	Development and stress management regulator

NPDC019245.ctg-0003 - Region 1 - T3PKS

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Location: 498,276 - 539,334 nt. (total: 41,059 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

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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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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

CDS_02070: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

CDS_02078: Hydroxylation

MITE: MITE0000081Hydroxylation (identity: 78.30%)
smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: Prenylation aminotransferase methyltransferase

CDS_02063: aminotransferase

smcogs: SMCOG1019: aminotransferase

CDS_02079: Methylation

MITE: MITE0000082Methylation (identity: 60.70%)
smcogs: SMCOG1089: methyltransferase

CDS_02080: Prenylation

MITE: MITE0000083Prenylation (identity: 60.10%)

CDS_02091: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: deformylase

CDS_02085: peptide deformylase

smcogs: SMCOG1275: peptide deformylase

Ligases: synthase

CDS_02077: 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
BGC0002362.3	0.84	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001077.4	0.78	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0000918.3	0.56	other (other)	ochronotic pigment	Streptomyces avermitilis
BGC0001896.4	0.43	other (other)	carbazomycin B	Streptomyces luteoverticillatus
BGC0001206.5	0.43	other (other)	indolmycin	Streptomyces griseus subsp. griseus
BGC0000189.4	0.43	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
BGC0001633.3	0.43	other (other)	ketomemicin B3, ketomemicin B4	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0002554.2	0.42	other (other)	carquinostatin A, carquinostatin B	Streptomyces exfoliatus
BGC0002584.2	0.41	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0001903.3	0.41	other (other)	neocarazostatin A	Streptomyces sp. MA37

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002362.3	0.84	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001077.4	0.78	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0000918.3	0.56	other (other)	ochronotic pigment	Streptomyces avermitilis
BGC0001896.4	0.43	other (other)	carbazomycin B	Streptomyces luteoverticillatus
BGC0001206.5	0.43	other (other)	indolmycin	Streptomyces griseus subsp. griseus
BGC0000189.4	0.43	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
BGC0001633.3	0.43	other (other)	ketomemicin B3, ketomemicin B4	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0002554.2	0.42	other (other)	carquinostatin A, carquinostatin B	Streptomyces exfoliatus
BGC0002584.2	0.41	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0001903.3	0.41	other (other)	neocarazostatin A	Streptomyces sp. MA37

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 (9):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.04 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.57 out of 20.97

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.36 out of 21.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.62 out of 27.78

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.69 out of 33.14

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.83 out of 24.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.00 out of 29.65

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.54 out of 35.63

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.10 out of 33.14

Confidence: weak

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

TFBS Finder

TFBS definitions

Regulator	Description

NPDC019245.ctg-0004 - Region 1 - terpene

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Location: 89,450 - 110,400 nt. (total: 20,951 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

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resistance

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Gene overview

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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

CDS_02313: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: aminotransferase

CDS_02309: aminotransferase

smcogs: SMCOG1019: aminotransferase

Lyases: cyclase

CDS_02306: Terpene synthase/cyclase metal-binding domain protein

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

Ligases: ligase

CDS_02307: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002277.2	0.56	NRPS	atromentin	Suillus grevillei
BGC0001135.5	0.55	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.55	NRPS	HC-toxin	Alternaria jesenskae
BGC0001825.4	0.55	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.55	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000496.5	0.49	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000519.4	0.49	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002699.2	0.47	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002277.2	0.56	NRPS	atromentin	Suillus grevillei
BGC0001135.5	0.55	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.55	NRPS	HC-toxin	Alternaria jesenskae
BGC0001825.4	0.55	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.55	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000496.5	0.49	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000519.4	0.49	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002699.2	0.47	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102

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:

CDS_02306: T1TS

Domain 1 (9 - 315): Type 1 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.38 out of 19.26

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.71 out of 23.79

Confidence: medium

Additional weak hits (4):

LuxO

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

Confidence: weak

LuxO

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.38 out of 28.19

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 23.18 out of 32.38

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
IolR	Regulator of the inositol catabolism

NPDC019245.ctg-0004 - Region 2 - terpene-precursor

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Location: 172,771 - 193,853 nt. (total: 21,083 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

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Select a gene to view the details available for it

Gene overview

Tailoring

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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

CDS_02381: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Ligases: synthetase

CDS_02385: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001456.3	0.45	terpene	isorenieratene	Streptomyces argillaceus
BGC0000647.3	0.45	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000664.5	0.45	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.43	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.43	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000677.5	0.43	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000648.3	0.40	terpene	carotenoid	Myxococcus xanthus
BGC0000645.3	0.40	terpene	carotenoid	Halobacillus halophilus DSM 2266
BGC0001521.3	0.39	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0001910.4	0.39	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001456.3	0.45	terpene	isorenieratene	Streptomyces argillaceus
BGC0000647.3	0.45	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000664.5	0.45	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.43	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.43	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000677.5	0.43	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000648.3	0.40	terpene	carotenoid	Myxococcus xanthus
BGC0000645.3	0.40	terpene	carotenoid	Halobacillus halophilus DSM 2266
BGC0001521.3	0.39	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0001910.4	0.39	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:

CDS_02385: PT_FPPS_like

Domain 1 (44 - 353): 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:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.10 out of 23.79

Confidence: medium

Additional weak hits (4):

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: 14.13 out of 21.55

Confidence: weak

MogR

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

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.68 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
IolR	Regulator of the inositol catabolism

NPDC019245.ctg-0004 - Region 3 - terpene-precursor

Download region GenBank file

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Location: 459,696 - 480,763 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

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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

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

CDS_02665: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

Ligases: synthetase

CDS_02657: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.39	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.38	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0000643.3	0.34	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.34	terpene	carotenoid	Brevundimonas sp. SD212
BGC0001910.4	0.34	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.32	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001227.3	0.32	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000633.3	0.32	terpene	carotenoid	Streptomyces avermitilis
BGC0000644.3	0.32	terpene	carotenoid	Dietzia sp. CQ4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.39	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.38	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0000643.3	0.34	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.34	terpene	carotenoid	Brevundimonas sp. SD212
BGC0001910.4	0.34	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.32	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001227.3	0.32	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000633.3	0.32	terpene	carotenoid	Streptomyces avermitilis
BGC0000644.3	0.32	terpene	carotenoid	Dietzia sp. CQ4

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:

CDS_02657: PT_FPPS_like

Domain 1 (40 - 346): 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:

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 24.73 out of 30.22

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.79 out of 25.31

Confidence: medium

Additional weak hits (2):

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.87 out of 32.93

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.71 out of 28.19

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
CatR	H2O2-responsive repressor
ClgR	Caseinolytic protease gene regulator

NPDC019245.ctg-0005 - Region 1 - terpene

Download region GenBank file

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Location: 384,137 - 405,102 nt. (total: 20,966 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

Oxidoreductases: dehydrogenase

CDS_03163: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: dehalogenase

CDS_03170: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

Lyases: cyclase

CDS_03167: Terpene synthase/cyclase metal-binding domain protein

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

Isomerases: mutase

CDS_03178: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Ligases: synthase

CDS_03162: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000889.5	0.42	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.41	other (other)	ferroverdin, bagremycin	Streptomyces lunaelactis
BGC0000905.5	0.39	other (other)	heme D1	Heliobacillus mobilis
BGC0002493.3	0.38	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0000806.5	0.36	saccharide	phosphonoglycans	Glycomyces sp. NRRL B-16210
BGC0001708.3	0.35	PKS, terpene	novofumigatonin	Aspergillus novofumigatus IBT 16806
BGC0000682.3	0.34	terpene	terretonin	Aspergillus terreus NIH2624
BGC0000653.5	0.33	terpene	pentalenolactone	Streptomyces arenae
BGC0000157.5	0.33	PKS	tautomycetin	Streptomyces sp. CK4412
BGC0002002.3	0.33	NRPS	1,6-phenazinedimethanol, fontizine A	Serratia fonticola

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000889.5	0.42	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.41	other (other)	ferroverdin, bagremycin	Streptomyces lunaelactis
BGC0000905.5	0.39	other (other)	heme D1	Heliobacillus mobilis
BGC0002493.3	0.38	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0000806.5	0.36	saccharide	phosphonoglycans	Glycomyces sp. NRRL B-16210
BGC0001708.3	0.35	PKS, terpene	novofumigatonin	Aspergillus novofumigatus IBT 16806
BGC0000682.3	0.34	terpene	terretonin	Aspergillus terreus NIH2624
BGC0000653.5	0.33	terpene	pentalenolactone	Streptomyces arenae
BGC0000157.5	0.33	PKS	tautomycetin	Streptomyces sp. CK4412
BGC0002002.3	0.33	NRPS	1,6-phenazinedimethanol, fontizine A	Serratia fonticola

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:

CDS_03167: T1TS

Domain 1 (8 - 315): Type 1 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (4):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.40 out of 18.57

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.98 out of 26.85

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 14.89 out of 20.97

Confidence: weak

ClgR

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

Terpene

TFBS Finder

Glossary

No acronyms to display

TFBS definitions

Regulator	Description

NPDC019245.ctg-0006 - Region 1 - terpene

Download region GenBank file

Download region SVG

Location: 412,327 - 433,553 nt. (total: 21,227 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

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

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

CDS_03641: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

Hydrolases: hydrolase

CDS_03644: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	0.47	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000503.5	0.40	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0001725.3	0.40	other (other)	oxetanocin A	Bacillus megaterium
BGC0000903.3	0.40	other (other)	fluorometabolite	Streptomyces cattleya
BGC0001928.2	0.40	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000844.5	0.39	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002316.2	0.38	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0001456.3	0.37	terpene	isorenieratene	Streptomyces argillaceus
BGC0000495.5	0.37	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000470.6	0.36	ribosomal	bottromycin D	Streptomyces sp. WMMB272

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	0.47	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000503.5	0.40	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0001725.3	0.40	other (other)	oxetanocin A	Bacillus megaterium
BGC0000903.3	0.40	other (other)	fluorometabolite	Streptomyces cattleya
BGC0001928.2	0.40	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000844.5	0.39	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002316.2	0.38	ribosomal	cebulantin	Saccharopolyspora cebuensis
BGC0001456.3	0.37	terpene	isorenieratene	Streptomyces argillaceus
BGC0000495.5	0.37	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000470.6	0.36	ribosomal	bottromycin D	Streptomyces sp. WMMB272

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:

CDS_03642: Lycopene_cycl

Domain 1 (10 - 379): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (6):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.38 out of 20.97

Confidence: weak

ANR

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

Confidence: weak

ZuR variant 1

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.06 out of 28.19

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.31 out of 23.43

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.93 out of 28.19

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

NPDC019245.ctg-0007 - Region 1 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 41,638 - 104,219 nt. (total: 62,582 nt) Show pHMM detection rules used

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

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

CDS_03696: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

CDS_03709: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

CDS_03710: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

CDS_03714: Dioxygenase TauD/TfdA

smcogs: SMCOG1046: Dioxygenase TauD/TfdA

CDS_03715: Dioxygenase TauD/TfdA

smcogs: SMCOG1046: Dioxygenase TauD/TfdA

Transferases: kinase sulfhydrylase

CDS_03717: O-succinylhomoserine sulfhydrylase

smcogs: SMCOG1168: O-succinylhomoserine sulfhydrylase

CDS_03731: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Hydrolases: dehalogenase protease

CDS_03723: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

CDS_03727: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

Ligases: ligase synthase

CDS_03712: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

CDS_03713: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_03716: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.84	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.83	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	0.83	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002135.2	0.80	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002286.3	0.80	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.79	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.77	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.73	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.72	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.73	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	0.73	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002135.2	0.72	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002286.3	0.72	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.71	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.71	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.69	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.69	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.

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

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

Confidence: medium

Additional weak hits (12):

HipB

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

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.21 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.33 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.31 out of 26.06

Confidence: weak

CcpA

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

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.81 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.97 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.33 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.95 out of 28.14

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.35 out of 21.55

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.65 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.40 out of 28.19

Confidence: weak

Module view

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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 41637 - 104219:

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

Polymer prediction:: (Asn - mal - X) + (Ala) + (Glu)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_03712: Asn - mal - X

Search NORINE for peptide: strict or relaxed

AMP-binding (500..909): 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:: DLTKVGEVGK
Nearest Stachelhaus code(s):: Asn DLTKVGEVGK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

PKS_AT (1659..1938): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 105.6
inactive: 62.8
Methoxymalonyl-CoA: 44.9
Methylmalonyl-CoA: 37.4
Propionyl-CoA: 30.2
2-Methylbutyryl-CoA: 11.5
CHC-CoA: 9.9
Ethylmalonyl-CoA: 9.8
fatty_acid: 8.4
Isobutyryl-CoA: 5.4
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMP-binding (2650..3037): 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:: 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:: DMPQVGLVWK
Nearest Stachelhaus code(s):: D-Ala DMPQLGMVWK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

CDS_03713: Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (32..416): 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:: DLFNCALTYK
Nearest Stachelhaus code(s):: Ala DLFNCALTYK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

CDS_03716: Glu

Search NORINE for peptide: strict or relaxed

AMP-binding (396..768): Glu

nrpys: Glu

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:: glu,gln (Glu, Gln)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAKDLGLVDK
Nearest Stachelhaus code(s):: Glu DAKDLGVVDK (71% 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

NPDC019245.ctg-0008 - Region 1 - terpene

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Location: 20,937 - 43,083 nt. (total: 22,147 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)

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

CDS_03989: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

CDS_03994: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Hydrolases: deacetylase hydrolase

CDS_03990: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

CDS_03997: polysaccharide deacetylase

smcogs: SMCOG1235: polysaccharide deacetylase

Lyases: hydratase

CDS_03988: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

Ligases: synthetase

CDS_03993: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.55	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.52	terpene	isorenieratene	Streptomyces argillaceus
BGC0000633.3	0.52	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.52	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000649.3	0.52	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000640.3	0.50	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000639.3	0.49	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000641.3	0.49	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000648.3	0.49	terpene	carotenoid	Myxococcus xanthus
BGC0000645.3	0.47	terpene	carotenoid	Halobacillus halophilus DSM 2266

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.55	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.52	terpene	isorenieratene	Streptomyces argillaceus
BGC0000633.3	0.52	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.52	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000649.3	0.52	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000640.3	0.50	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000639.3	0.49	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000641.3	0.49	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000648.3	0.49	terpene	carotenoid	Myxococcus xanthus
BGC0000645.3	0.47	terpene	carotenoid	Halobacillus halophilus DSM 2266

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
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:

CDS_03992: PT_phytoene_like

Domain 1 (5 - 288): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → diapophytoene; FPP → squalene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

CDS_03993: PT_FPPS_like

Domain 1 (68 - 373): 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):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.50 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.06 out of 27.78

Confidence: weak

LexA variant 1

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

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 20.70 out of 36.53

Confidence: weak

ToxT

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

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.31 out of 23.43

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.03 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

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
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description

NPDC019245.ctg-0009 - Region 1 - T1PKS

Download region GenBank file

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Location: 1 - 69,827 nt. (total: 69,827 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

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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

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

CDS_04216: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: PPTase acylase glycosyltransferase

CDS_04217: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

CDS_04224: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

CDS_04228: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

Lyases: dehydratase

CDS_04235: L-carnitine dehydratase/bile acid-inducible

smcogs: SMCOG1189: L-carnitine dehydratase/bile acid-inducible

Ligases: ligase synthase

CDS_04218: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_04219: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

CDS_04220: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_04221: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_04227: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_04229: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000018.5	0.70	PKS	angolamycin	Streptomyces eurythermus
BGC0001276.3	0.64	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002191.2	0.64	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
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
BGC0002175.3	0.63	PKS	YWA1	Aspergillus oryzae RIB40
BGC0000107.3	0.63	PKS	naphthopyrone	Aspergillus nidulans FGSC A4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000018.5	0.70	PKS	angolamycin	Streptomyces eurythermus
BGC0001276.3	0.64	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002191.2	0.64	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
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
BGC0002175.3	0.63	PKS	YWA1	Aspergillus oryzae RIB40
BGC0000107.3	0.63	PKS	naphthopyrone	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:

VqsM

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

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.94 out of 20.97

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.21 out of 23.79

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.05 out of 26.85

Confidence: medium

Additional weak hits (27):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.38 out of 26.85

Confidence: weak

MexT

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

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.70 out of 26.33

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.23 out of 19.26

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.82 out of 26.33

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.01 out of 20.97

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.77 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.32 out of 31.73

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.70 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.47 out of 26.06

Confidence: weak

MogR

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

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.08 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.25 out of 26.06

Confidence: weak

SypG

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

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.46 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.99 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.66 out of 29.38

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.05 out of 19.26

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.06 out of 20.97

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.67 out of 28.19

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.03 out of 27.04

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 15.94 out of 26.12

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: 20.34 out of 26.85

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.46 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.09 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.60 out of 28.19

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 0 - 69827:

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

Polymer prediction:: (Me-redmal) + (ohmal - Me-ohmal - Me-ohmal) + (ccmal - Me-ccmal) + (Me-ohmal) + (Me-ohmal - ohmal) + (ohmal)
Non-colinear ordering:: CDS_04216 + CDS_04217 + CDS_04218 + CDS_04219 + CDS_04220 + CDS_04221

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_04216: mmal

PKS_AT (0..203): mmal

ATSignature: (unknown)

No matches above 50%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 93.6
Ethylmalonyl-CoA: 69.6
Methoxymalonyl-CoA: 68.3
trans-1,2-CPDA: 54.3
Propionyl-CoA: 41.9
2-Methylbutyryl-CoA: 41.3
Malonyl-CoA: 37.1
3-Methylbutyryl-CoA: 27.5
Isobutyryl-CoA: 25.6
fatty_acid: 22.7
CHC-CoA: 19.1
Acetyl-CoA: 14.0
Benzoyl-CoA: 7.4
inactive: 0.0

CDS_04217: mal - mmal - mmal

PKS_AT (567..858): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 209.2
inactive: 105.5
Methoxymalonyl-CoA: 62.8
Methylmalonyl-CoA: 56.0
Propionyl-CoA: 39.6
2-Methylbutyryl-CoA: 23.9
Isobutyryl-CoA: 22.3
Acetyl-CoA: 21.9
Ethylmalonyl-CoA: 21.0
Benzoyl-CoA: 9.6
CHC-CoA: 8.6
fatty_acid: 7.2
trans-1,2-CPDA: 6.3
3-Methylbutyryl-CoA: 0.0

PKS_AT (2073..2373): mmal

ATSignature: Methylmalonyl-CoA

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

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 200.6
Ethylmalonyl-CoA: 193.7
Methoxymalonyl-CoA: 158.4
2-Methylbutyryl-CoA: 112.1
trans-1,2-CPDA: 111.9
Propionyl-CoA: 93.2
Malonyl-CoA: 85.1
Isobutyryl-CoA: 79.1
CHC-CoA: 76.5
Benzoyl-CoA: 63.3
Acetyl-CoA: 46.7
fatty_acid: 37.6
3-Methylbutyryl-CoA: 36.4
inactive: 25.1

PKS_AT (3626..3944): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Malonyl-CoA: 83.3%; Methoxymalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 171.9
Methoxymalonyl-CoA: 149.6
Ethylmalonyl-CoA: 147.7
2-Methylbutyryl-CoA: 127.8
Propionyl-CoA: 117.6
trans-1,2-CPDA: 102.5
Malonyl-CoA: 100.1
CHC-CoA: 84.9
Isobutyryl-CoA: 61.4
3-Methylbutyryl-CoA: 50.3
Acetyl-CoA: 41.6
fatty_acid: 38.3
inactive: 38.0
Benzoyl-CoA: 34.7

CDS_04218: mal - mmal

PKS_AT (568..861): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 227.1
inactive: 109.5
Methoxymalonyl-CoA: 77.5
Methylmalonyl-CoA: 70.7
Propionyl-CoA: 43.8
Ethylmalonyl-CoA: 32.1
Isobutyryl-CoA: 28.3
Benzoyl-CoA: 25.4
trans-1,2-CPDA: 21.4
CHC-CoA: 20.6
Acetyl-CoA: 19.5
fatty_acid: 17.8
2-Methylbutyryl-CoA: 17.7
3-Methylbutyryl-CoA: 0.0

PKS_AT (2341..2660): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Malonyl-CoA: 83.3%; Methoxymalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 174.4
Ethylmalonyl-CoA: 152.7
Methoxymalonyl-CoA: 151.3
2-Methylbutyryl-CoA: 120.3
Propionyl-CoA: 115.8
trans-1,2-CPDA: 101.4
Malonyl-CoA: 101.2
CHC-CoA: 88.0
Isobutyryl-CoA: 67.3
3-Methylbutyryl-CoA: 53.4
Acetyl-CoA: 45.2
inactive: 39.5
Benzoyl-CoA: 38.4
fatty_acid: 34.3

CDS_04219: mmal

PKS_AT (577..872): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Malonyl-CoA: 83.3%; Methoxymalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 181.5
Methoxymalonyl-CoA: 154.8
Ethylmalonyl-CoA: 154.3
2-Methylbutyryl-CoA: 127.5
Propionyl-CoA: 121.9
Malonyl-CoA: 109.2
trans-1,2-CPDA: 105.9
CHC-CoA: 93.0
Isobutyryl-CoA: 67.6
3-Methylbutyryl-CoA: 52.5
Acetyl-CoA: 49.5
fatty_acid: 44.4
Benzoyl-CoA: 42.1
inactive: 37.5

CDS_04220: mmal - mal

PKS_AT (568..863): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Malonyl-CoA: 83.3%; Methoxymalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 172.8
Methoxymalonyl-CoA: 146.6
Ethylmalonyl-CoA: 143.6
2-Methylbutyryl-CoA: 119.6
Propionyl-CoA: 111.8
Malonyl-CoA: 107.9
trans-1,2-CPDA: 97.7
CHC-CoA: 83.2
Isobutyryl-CoA: 65.9
3-Methylbutyryl-CoA: 48.3
inactive: 45.7
Acetyl-CoA: 44.4
Benzoyl-CoA: 39.8
fatty_acid: 33.3

PKS_AT (2052..2350): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 75.0%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 190.3
inactive: 85.3
Methoxymalonyl-CoA: 83.8
Methylmalonyl-CoA: 79.6
Propionyl-CoA: 49.3
Ethylmalonyl-CoA: 44.8
Isobutyryl-CoA: 43.2
Acetyl-CoA: 33.3
2-Methylbutyryl-CoA: 23.3
fatty_acid: 21.0
CHC-CoA: 18.7
Benzoyl-CoA: 11.3
trans-1,2-CPDA: 8.2
3-Methylbutyryl-CoA: 1.7

CDS_04221: mal

PKS_AT (582..878): 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: 191.6
inactive: 86.0
Methoxymalonyl-CoA: 70.7
Methylmalonyl-CoA: 59.2
Propionyl-CoA: 37.0
Ethylmalonyl-CoA: 30.6
CHC-CoA: 28.2
Isobutyryl-CoA: 23.6
Acetyl-CoA: 22.5
2-Methylbutyryl-CoA: 17.9
Benzoyl-CoA: 16.4
trans-1,2-CPDA: 9.8
fatty_acid: 9.5
3-Methylbutyryl-CoA: 0.0

CDS_04227: X

AMP-binding (20..354): 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:: GLGAVGGVVK
Nearest Stachelhaus code(s):: nohBza GLGLVGAIIK (38% 8Å match); cycHexAla DLLSVGGVFK (32% 8Å match)
Stachelhaus code match:: 60% (weak)

CDS_04229: X

AMP-binding (11..378): X

nrpys: Asp, Asn, Glu, Gln, Aad

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 with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: --LFVGRITK
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NPDC019245.ctg-0011 - Region 1 - NRPS,NRPS-like,T1PKS

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Location: 79,904 - 128,223 nt. (total: 48,320 nt) Show pHMM detection rules used

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))
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

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Gene overview

Tailoring

MIBiG comparison

ClusterBlast

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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: oxygenase

CDS_04651: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

CDS_04654: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

CDS_04666: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: aminotransferase

CDS_04659: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

Hydrolases: back translocase esterase hydrolase

CDS_04648: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

CDS_04662: thioesterase

smcogs: SMCOG1004: thioesterase

CDS_04668: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

Lyases: lyase

CDS_04649: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

CDS_04652: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase synthase

CDS_04663: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CDS_04664: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_04665: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	1.21	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	1.05	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	1.04	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	1.03	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002164.2	1.03	NRPS	peramine	Epichloe festucae
BGC0001261.3	1.01	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	1.01	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001641.4	0.98	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.97	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.95	NRPS	icosalide A, icosalide B	Burkholderia gladioli

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.72	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.68	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.68	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002164.2	0.68	NRPS	peramine	Epichloe festucae
BGC0001261.3	0.67	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.67	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001641.4	0.66	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.66	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.65	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:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.82 out of 18.46

Confidence: medium

Additional weak hits (6):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.19 out of 27.78

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.78 out of 30.97

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.25 out of 30.22

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 18.56 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.51 out of 33.14

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.94 out of 23.43

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 79903 - 128223:

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

Polymer prediction:: (Val) + (mal) + (His)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 79903 - 121865:

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

Polymer prediction:: (Val) + (mal) + (His)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 81915 - 124873:

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

Polymer prediction:: (Val) + (mal) + (His)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 84971 - 128223:

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

Polymer prediction:: (Val) + (mal) + (His)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_04663: His

Search NORINE for peptide: strict or relaxed

AMP-binding (39..436): His

nrpys: His

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:: DSALIAEVWK
Nearest Stachelhaus code(s):: His DSALIAEVWK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

CDS_04664: mal

PKS_AT (527..805): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 66.7%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 94.8
Methoxymalonyl-CoA: 69.2
Methylmalonyl-CoA: 62.2
Isobutyryl-CoA: 38.6
Ethylmalonyl-CoA: 33.0
2-Methylbutyryl-CoA: 33.0
inactive: 25.9
Acetyl-CoA: 25.2
fatty_acid: 24.1
CHC-CoA: 23.8
Benzoyl-CoA: 22.8
Propionyl-CoA: 21.7
trans-1,2-CPDA: 19.6
3-Methylbutyryl-CoA: 0.0

CDS_04665: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (50..441): 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:: DALWMGGIFK
Nearest Stachelhaus code(s):: Val DALWMGGTFK (65% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
RpoN	Regulator of nitrogen assimilation and virulence

NPDC019245.ctg-0019 - Region 1 - other

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Location: 58,342 - 83,401 nt. (total: 25,060 nt) Show pHMM detection rules used

Region on contig edge.

other: (Neocarzinostat or bcpB or frbD or mitE or prnB or CaiA or bacilysin or orf2_PTase)

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

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

Oxidoreductases: dehydrogenase oxygenase

CDS_05821: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_05838: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

Hydrolases: phosphatase

CDS_05836: inositol monophosphatase

smcogs: SMCOG1207: inositol monophosphatase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000933.3	0.41	other (other)	xiamenmycin A	Streptomyces xiamenensis
BGC0002609.2	0.39	NRPS, PKS	ochratoxin A	Aspergillus welwitschiae
BGC0000878.5	0.36	other (other)	puromycin	Streptomyces alboniger
BGC0000509.4	0.32	ribosomal	epilancin 15x	Staphylococcus epidermidis
BGC0000597.4	0.32	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0001735.5	0.32	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001575.4	0.31	NRPS	PZN5, PZN6, PZN7, PZN9, PZN10, PZN11	Ruminococcus sp. 5_1_39BFAA
BGC0002387.2	0.30	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0002729.2	0.30	PKS	sordarial	Neurospora crassa OR74A
BGC0000595.3	0.30	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000933.3	0.41	other (other)	xiamenmycin A	Streptomyces xiamenensis
BGC0002609.2	0.39	NRPS, PKS	ochratoxin A	Aspergillus welwitschiae
BGC0000878.5	0.36	other (other)	puromycin	Streptomyces alboniger
BGC0000509.4	0.32	ribosomal	epilancin 15x	Staphylococcus epidermidis
BGC0000597.4	0.32	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0001735.5	0.32	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001575.4	0.31	NRPS	PZN5, PZN6, PZN7, PZN9, PZN10, PZN11	Ruminococcus sp. 5_1_39BFAA
BGC0002387.2	0.30	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0002729.2	0.30	PKS	sordarial	Neurospora crassa OR74A
BGC0000595.3	0.30	ribosomal	SCO-2138	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:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.28 out of 23.05

Confidence: medium

Additional weak hits (11):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.63 out of 28.14

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.80 out of 31.73

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.79 out of 22.40

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 21.28 out of 35.63

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 23.20 out of 30.11

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.10 out of 30.11

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.74 out of 29.25

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.62 out of 26.12

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.16 out of 31.73

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.02 out of 26.85

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.46 out of 28.19

Confidence: weak

Detailed Pfam domain annotation

Selected features only

Expand to show all names

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

NPDC019245.ctg-0020 - Region 1 - RiPP-like,terpene

Download region GenBank file

Download region SVG

Location: 6,996 - 31,467 nt. (total: 24,472 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)
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

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 oxygenase

CDS_05846: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_05856: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

CDS_05865: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: hydrolase

CDS_05859: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Lyases: hydratase

CDS_05860: Nitrilase/cyanide hydratase and apolipoprotein

smcogs: SMCOG1294: Nitrilase/cyanide hydratase and apolipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001007.5	0.31	NRPS, PKS	lymphostin, neolymphostinol B, lymphostinol, neolymphostin b	Salinispora arenicola CNS-205
BGC0001006.5	0.30	NRPS, PKS	lymphostin, neolymphostinol B, lymphostinol, neolymphostin B	Salinispora tropica CNB-440
BGC0002425.3	0.22	ribosomal	stlassin	Streptomyces sp.
BGC0001910.4	0.20	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000188.5	0.20	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0002391.2	0.20	terpene	zealexin B3, zealexin C2	Zea mays
BGC0001911.3	0.18	terpene	raimonol	Streptomyces anulatus
BGC0000845.5	0.17	other (non-nrp beta-lactam)	clavulanic acid	Streptomyces clavuligerus ATCC 27064
BGC0001197.5	0.17	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0002657.2	0.17	NRPS, PKS	deoxyhangtaimycin	Streptomyces spectabilis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001910.4	0.53	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0002391.2	0.52	terpene	zealexin B3, zealexin C2	Zea mays
BGC0001911.3	0.50	terpene	raimonol	Streptomyces anulatus
BGC0001197.5	0.49	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001006.5	0.47	NRPS, PKS	lymphostin, neolymphostinol B, lymphostinol, neolymphostin B	Salinispora tropica CNB-440
BGC0001007.5	0.47	NRPS, PKS	lymphostin, neolymphostinol B, lymphostinol, neolymphostin b	Salinispora arenicola CNS-205
BGC0001483.4	0.47	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0000286.3	0.44	PKS	viguiepinol	Streptomyces sp. KO-3988
BGC0002545.3	0.43	PKS	sungeidine C, sungeidine B, sungeidine D, sungeidine H, sungeidine A, sungeidine E, sungeidine F, sungeidine G	Micromonospora sp.
BGC0000563.4	0.43	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712

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
diterpene			C20	C6-C11 + C10-C15	PP

Genes with terpene domains:

CDS_05854: T2TS

Domain 1 (25 - 501): Type 2 terpene synthase

Subtype: Diterpene synthase

Reactions:: GGPP → diterpene_C6-C11/C10-C15_PP

Transcription Factor Binding Sites

Binding sites found:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 21.40 out of 23.05

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.23 out of 23.79

Confidence: medium

Additional weak hits (7):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.82 out of 26.33

Confidence: weak

SypG

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

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.42 out of 29.51

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.67 out of 18.57

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.03 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.19 out of 28.19

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.16 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

Terpene

TFBS Finder

Glossary

Acronym	Full name
GGPP	Geranylgeranyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
IolR	Regulator of the inositol catabolism

NPDC019245.ctg-0021 - Region 1 - NRPS,arylpolyene

Download region GenBank file

Download region SVG

Location: 1 - 69,182 nt. (total: 69,182 nt) Show pHMM detection rules used

Region on contig edge.

arylpolyene: (APE_KS1 or APE_KS2)
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

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 oxidoreductase oxygenase

CDS_05911: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

CDS_05925: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CDS_05931: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

CDS_05939: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

CDS_05947: dihydropteridine reductase

smcogs: SMCOG1159: dihydropteridine reductase

CDS_05958: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

CDS_05962: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: acetyltransferase acyltransferase aminotransferase glycosyltransferase kinase methyltransferase

CDS_05910: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs: SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

CDS_05934: methyltransferase

smcogs: SMCOG1089: methyltransferase

CDS_05935: acyltransferase 3

smcogs: SMCOG1088: acyltransferase 3

CDS_05936: acetyl-CoA acetyltransferase

smcogs: SMCOG1124: acetyl-CoA acetyltransferase

CDS_05945: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

CDS_05960: methyltransferase

smcogs: SMCOG1248: methyltransferase

CDS_05961: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

CDS_05966: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Hydrolases: deacetylase dehalogenase

CDS_05917: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

CDS_05949: acetylornithine deacetylase

smcogs: SMCOG1247: acetylornithine deacetylase

Lyases: dehydratase

CDS_05937: L-carnitine dehydratase/bile acid-inducible

smcogs: SMCOG1189: L-carnitine dehydratase/bile acid-inducible

Ligases: ligase synthase

CDS_05919: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_05920: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_05921: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_05948: carboxylate-amine ligase

smcogs: SMCOG1165: carboxylate-amine ligase

CDS_05952: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_05957: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CDS_05963: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Translocases: transporter

CDS_05933: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001268.4	0.48	NRPS, PKS	fusarin C	Fusarium fujikuroi
BGC0002547.2	0.36	PKS	youssoufene A1, youssoufene B1, youssoufene B2, youssoufene B3, youssoufene B4	Streptomyces youssoufiensis
BGC0000019.5	0.31	PKS	angolamycin	Streptomyces eurythermus
BGC0001251.4	0.30	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.30	NRPS	epichloenin A	Epichloe festucae
BGC0002000.4	0.30	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0001240.4	0.29	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0000357.5	0.29	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
BGC0001135.5	0.29	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000898.5	0.29	saccharide	desosamine, pikromycin, neomethymycin, narbomycin	Streptomyces venezuelae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001251.4	0.63	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.63	NRPS	epichloenin A	Epichloe festucae
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
BGC0001135.5	0.63	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001261.3	0.62	NRPS	AM-toxin	Alternaria alternata
BGC0002135.2	0.62	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.62	NRPS	enniatin	Fusarium equiseti
BGC0000307.4	0.62	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.62	NRPS	HC-toxin	Alternaria jesenskae

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: 19.52 out of 19.52

Confidence: strong

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.28 out of 19.52

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.99 out of 20.47

Confidence: medium

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.12 out of 29.72

Confidence: medium

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 24.54 out of 30.22

Confidence: medium

Additional weak hits (17):

ANR

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

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.05 out of 19.26

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.51 out of 21.84

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.98 out of 30.22

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.81 out of 39.62

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.21 out of 26.33

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.25 out of 20.01

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.51 out of 21.84

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.99 out of 32.74

Confidence: weak

MatP

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

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.10 out of 27.78

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.43 out of 24.78

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.03 out of 23.43

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.57 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

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.74 out of 33.14

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 22.00 out of 32.38

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

TFBS Finder

NRPS/PKS substrate predictions

CDS_05952: X

AMP-binding (447..850): X

nrpys: aza-bTyr

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:: DAVQLALLAK
Nearest Stachelhaus code(s):: aza-bTyr DACELALLAK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

CDS_05963: X

AMP-binding (41..453): X

nrpys: Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr

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:: SLGALGGVCK
Nearest Stachelhaus code(s):: Val DMGFLGGVCK (26% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
ClgR	Caseinolytic protease gene regulator
NtrC	Nitrogen regulatory protein C
VqsM	Regulator of quorum-sensing signalling systems

NPDC019245.ctg-0024 - Region 1 - 2dos,NRPS-like,T1PKS

Download region GenBank file

Download region SVG

Location: 599 - 53,100 nt. (total: 52,502 nt) Show pHMM detection rules used

Region on contig edge.

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))
2dos: ((DOIS or DHQ_synthase or ValA or salQ) and DegT_DnrJ_EryC1 and (LipV or ADSI-DH or cds(ADH_N and ADH_zinc_N)))

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: oxidase oxidoreductase oxygenase

CDS_06085: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

CDS_06100: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

CDS_06105: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: aminotransferase methyltransferase

CDS_06099: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs: SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

CDS_06106: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: esterase hydrolase

CDS_06101: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

CDS_06107: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: synthase

CDS_06102: 3-dehydroquinate synthase

smcogs: SMCOG1183: 3-dehydroquinate synthase

CDS_06104: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_06108: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	1.24	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	1.23	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000041.3	0.97	PKS	oronofacic acid	Pseudomonas syringae
BGC0002154.2	0.90	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002175.3	0.89	PKS	YWA1	Aspergillus oryzae RIB40
BGC0000107.3	0.89	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002191.2	0.87	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001276.3	0.87	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001284.4	0.85	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001160.5	0.84	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.73	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.73	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000041.3	0.66	PKS	oronofacic acid	Pseudomonas syringae
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
BGC0002175.3	0.63	PKS	YWA1	Aspergillus oryzae RIB40
BGC0000107.3	0.63	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001276.3	0.63	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001160.5	0.62	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

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: 17.88 out of 20.47

Confidence: medium

Additional weak hits (12):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.34 out of 26.33

Confidence: weak

ANR

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

Confidence: weak

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 17.94 out of 23.05

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 14.93 out of 20.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.53 out of 27.78

Confidence: weak

SypG

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

Confidence: weak

MexT

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

Confidence: weak

FuR variant 1

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

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 11.63 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.16 out of 27.78

Confidence: weak

ClgR

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.98 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 598 - 53100:

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

Polymer prediction:: (AHBA - ccmal - Me-redmal) + (ccmal)
Non-colinear ordering:: CDS_06104 + CDS_06108

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_06104: AHBA - mal - mmal

CAL_domain (35..442): AHBA

minowa: AHBA

Prediction, score:

AHBA: 379.3
shikimic_acid: 249.2
Acetyl-CoA: 13.1
fatty_acid: 0.0
NH2: -4.9

PKS_AT (1544..1844): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 208.1
inactive: 110.2
Methoxymalonyl-CoA: 65.4
Methylmalonyl-CoA: 54.6
Propionyl-CoA: 39.2
Acetyl-CoA: 25.1
Isobutyryl-CoA: 19.7
Ethylmalonyl-CoA: 17.4
2-Methylbutyryl-CoA: 15.6
Benzoyl-CoA: 15.2
CHC-CoA: 4.9
trans-1,2-CPDA: 3.8
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (3240..3537): 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: 209.7
Ethylmalonyl-CoA: 188.8
Methoxymalonyl-CoA: 169.9
2-Methylbutyryl-CoA: 143.5
Malonyl-CoA: 118.8
trans-1,2-CPDA: 111.0
CHC-CoA: 103.6
Propionyl-CoA: 100.0
Isobutyryl-CoA: 74.2
Benzoyl-CoA: 58.2
Acetyl-CoA: 44.9
inactive: 41.4
3-Methylbutyryl-CoA: 28.8
fatty_acid: 27.9

CDS_06108: mal

PKS_AT (562..886): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 208.8
inactive: 96.1
Methoxymalonyl-CoA: 52.9
Methylmalonyl-CoA: 48.2
Isobutyryl-CoA: 26.5
Propionyl-CoA: 25.8
Acetyl-CoA: 15.8
Ethylmalonyl-CoA: 13.5
fatty_acid: 12.1
Benzoyl-CoA: 10.5
CHC-CoA: 4.7
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
VqsM	Regulator of quorum-sensing signalling systems

NPDC019245.ctg-0025 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 50,235 nt. (total: 50,235 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

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: synthase

CDS_06119: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CDS_06120: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.61	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.61	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

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 (3):

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.57 out of 27.55

Confidence: weak

CatR

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.15 out of 28.19

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 0 - 50235:

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

Polymer prediction:: (ohmal) + (pk - ccmal - ccmal - ccmal - ohmal - ohmal)
Non-colinear ordering:: CDS_06120 + CDS_06119

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_06119: pk - mal - mal - mal - mal - mal

PKS_AT (572..865): pk

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; Methylmalonyl-CoA: 79.2%; Methoxymalonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 157.7
Ethylmalonyl-CoA: 130.3
Methoxymalonyl-CoA: 127.2
Malonyl-CoA: 114.8
2-Methylbutyryl-CoA: 101.7
Propionyl-CoA: 99.3
trans-1,2-CPDA: 88.1
CHC-CoA: 72.5
Isobutyryl-CoA: 51.4
fatty_acid: 45.3
inactive: 41.5
3-Methylbutyryl-CoA: 34.4
Benzoyl-CoA: 34.3
Acetyl-CoA: 33.3

PKS_AT (2101..2385): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 208.2
inactive: 96.4
Methoxymalonyl-CoA: 63.8
Methylmalonyl-CoA: 54.5
Isobutyryl-CoA: 34.1
Benzoyl-CoA: 29.3
Propionyl-CoA: 28.6
fatty_acid: 12.3
Acetyl-CoA: 11.8
2-Methylbutyryl-CoA: 11.6
CHC-CoA: 6.3
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0
Ethylmalonyl-CoA: -2.6

PKS_AT (3827..4113): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 215.1
inactive: 104.7
Methoxymalonyl-CoA: 68.4
Methylmalonyl-CoA: 58.2
Propionyl-CoA: 34.8
Ethylmalonyl-CoA: 25.8
Isobutyryl-CoA: 25.5
fatty_acid: 23.2
2-Methylbutyryl-CoA: 20.0
Benzoyl-CoA: 17.5
CHC-CoA: 15.8
Acetyl-CoA: 13.8
trans-1,2-CPDA: 11.7
3-Methylbutyryl-CoA: 0.0

PKS_AT (5553..5846): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 87.5%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 217.2
inactive: 104.3
Methoxymalonyl-CoA: 62.4
Methylmalonyl-CoA: 56.6
Propionyl-CoA: 30.7
Ethylmalonyl-CoA: 26.9
Isobutyryl-CoA: 25.2
Benzoyl-CoA: 21.2
fatty_acid: 12.6
Acetyl-CoA: 12.2
2-Methylbutyryl-CoA: 11.5
trans-1,2-CPDA: 8.4
CHC-CoA: 7.6
3-Methylbutyryl-CoA: 0.0

PKS_AT (7323..7615): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 213.8
inactive: 109.6
Methoxymalonyl-CoA: 71.3
Methylmalonyl-CoA: 60.4
Isobutyryl-CoA: 35.8
Benzoyl-CoA: 32.4
Propionyl-CoA: 27.5
Ethylmalonyl-CoA: 26.3
Acetyl-CoA: 18.9
fatty_acid: 14.0
CHC-CoA: 9.6
2-Methylbutyryl-CoA: 9.0
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (8838..9129): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 87.5%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 220.8
inactive: 102.9
Methoxymalonyl-CoA: 64.8
Methylmalonyl-CoA: 58.0
Propionyl-CoA: 29.3
Ethylmalonyl-CoA: 27.7
Benzoyl-CoA: 23.1
Isobutyryl-CoA: 22.8
fatty_acid: 13.5
Acetyl-CoA: 12.7
trans-1,2-CPDA: 8.8
2-Methylbutyryl-CoA: 7.8
CHC-CoA: 6.6
3-Methylbutyryl-CoA: 0.0

CDS_06120: mal

PKS_AT (1077..1374): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 220.3
inactive: 103.3
Methoxymalonyl-CoA: 74.7
Methylmalonyl-CoA: 64.9
Isobutyryl-CoA: 32.5
Propionyl-CoA: 32.4
Benzoyl-CoA: 24.3
Ethylmalonyl-CoA: 23.2
Acetyl-CoA: 18.4
fatty_acid: 17.3
CHC-CoA: 13.2
2-Methylbutyryl-CoA: 11.8
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description

NPDC019245.ctg-0027 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 35,186 nt. (total: 35,186 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

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: oxidoreductase oxygenase

CDS_06165: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

CDS_06166: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

Transferases: methyltransferase

CDS_06170: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

CDS_06171: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

Ligases: synthase

CDS_06163: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000056.3	0.66	PKS	esperamicin	Actinomadura verrucosospora
BGC0001284.4	0.57	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001257.3	0.56	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0000107.3	0.56	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002154.2	0.55	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002175.3	0.55	PKS	YWA1	Aspergillus oryzae RIB40
BGC0001258.3	0.55	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0002192.3	0.55	PKS	FR901512	fungal sp. No.14919
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

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000056.3	0.66	PKS	esperamicin	Actinomadura verrucosospora
BGC0001284.4	0.57	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001257.3	0.56	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0000107.3	0.56	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002154.2	0.55	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002175.3	0.55	PKS	YWA1	Aspergillus oryzae RIB40
BGC0001258.3	0.55	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0002192.3	0.55	PKS	FR901512	fungal sp. No.14919
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

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

RpoN

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

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.22 out of 18.46

Confidence: strong

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: 22.15 out of 29.72

Confidence: medium

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: 17.92 out of 20.47

Confidence: medium

Additional weak hits (14):

ANR

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

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.09 out of 20.01

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.80 out of 23.43

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.26 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.14 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.58 out of 28.14

Confidence: weak

MexT

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

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.33 out of 25.75

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.49 out of 30.22

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.35 out of 33.14

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.96 out of 24.78

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.33 out of 24.78

Confidence: weak

MatP

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

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.88 out of 26.85

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

TFBS Finder

NRPS/PKS substrate predictions

CDS_06163: mal

PKS_AT (612..846): 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: 67.9
inactive: 38.8
Methoxymalonyl-CoA: 35.4
Methylmalonyl-CoA: 33.5
Propionyl-CoA: 27.1
fatty_acid: 25.7
CHC-CoA: 10.6
Ethylmalonyl-CoA: 9.6
trans-1,2-CPDA: 8.3
Isobutyryl-CoA: 7.2
2-Methylbutyryl-CoA: 4.1
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
NtrC	Nitrogen regulatory protein C
RpoN	Regulator of nitrogen assimilation and virulence
VqsM	Regulator of quorum-sensing signalling systems

NPDC019245.ctg-0029 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 25,010 nt. (total: 25,010 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

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

Ligases: synthase

CDS_06207: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.73	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000041.3	0.56	PKS	oronofacic acid	Pseudomonas syringae
BGC0001051.5	0.47	NRPS, PKS	thuggacin A	Sorangium cellulosum
BGC0000067.5	0.46	PKS	geldanamycin	Streptomyces hygroscopicus subsp. duamyceticus
BGC0000143.5	0.44	PKS	salinomycin	Streptomyces albus
BGC0001342.3	0.43	NRPS, PKS	Cmc-thuggacin A, Cmc-thuggacin B	Chondromyces crocatus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.73	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000041.3	0.56	PKS	oronofacic acid	Pseudomonas syringae
BGC0001051.5	0.47	NRPS, PKS	thuggacin A	Sorangium cellulosum
BGC0000067.5	0.46	PKS	geldanamycin	Streptomyces hygroscopicus subsp. duamyceticus
BGC0000143.5	0.44	PKS	salinomycin	Streptomyces albus
BGC0001342.3	0.43	NRPS, PKS	Cmc-thuggacin A, Cmc-thuggacin B	Chondromyces crocatus

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

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

Predicted core structure(s)

For candidate cluster 1, location 0 - 25010:

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

Polymer prediction:: (Me-ccmal) + (ccmal - Me-ohmal - ohmal)
Non-colinear ordering:: CDS_06206 + CDS_06207

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_06206: mmal

PKS_AT (0..203): mmal

ATSignature: (unknown)

No matches above 50%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 99.2
Ethylmalonyl-CoA: 77.4
Methoxymalonyl-CoA: 75.6
trans-1,2-CPDA: 50.4
Propionyl-CoA: 45.7
Malonyl-CoA: 43.5
2-Methylbutyryl-CoA: 41.8
3-Methylbutyryl-CoA: 25.7
Isobutyryl-CoA: 24.4
CHC-CoA: 22.1
fatty_acid: 21.4
Acetyl-CoA: 13.5
inactive: 0.0
Benzoyl-CoA: 0.0

CDS_06207: mal - mmal - mal

PKS_AT (562..854): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 207.2
inactive: 119.3
Methoxymalonyl-CoA: 70.6
Methylmalonyl-CoA: 64.6
Isobutyryl-CoA: 35.8
Propionyl-CoA: 32.2
Benzoyl-CoA: 28.5
CHC-CoA: 27.6
Ethylmalonyl-CoA: 26.7
Acetyl-CoA: 24.3
fatty_acid: 21.9
trans-1,2-CPDA: 19.0
2-Methylbutyryl-CoA: 14.7
3-Methylbutyryl-CoA: 10.7

PKS_AT (2319..2616): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 75.0%; Malonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 192.7
Ethylmalonyl-CoA: 173.2
Methoxymalonyl-CoA: 162.5
2-Methylbutyryl-CoA: 134.2
Malonyl-CoA: 110.0
Propionyl-CoA: 107.2
trans-1,2-CPDA: 100.3
CHC-CoA: 89.8
Isobutyryl-CoA: 78.5
Benzoyl-CoA: 47.4
3-Methylbutyryl-CoA: 41.6
fatty_acid: 40.8
Acetyl-CoA: 40.1
inactive: 32.2

PKS_AT (3878..4166): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 91.7%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 200.6
inactive: 102.4
Methoxymalonyl-CoA: 61.0
Methylmalonyl-CoA: 44.7
Propionyl-CoA: 22.2
Benzoyl-CoA: 21.6
fatty_acid: 18.5
Isobutyryl-CoA: 14.2
Ethylmalonyl-CoA: 11.1
Acetyl-CoA: 8.1
CHC-CoA: 1.8
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

NPDC019245.ctg-0030 - Region 1 - T1PKS

Download region GenBank file

Download region SVG

Location: 1 - 17,384 nt. (total: 17,384 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

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

Ligases: synthase

CDS_06212: 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	0.63	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.61	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.64	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.63	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001284.4	0.62	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001254.3	0.61	PKS	ACT-Toxin II	Alternaria alternata
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.61	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Similar known clusters

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Module view

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Detailed Pfam domain annotation

Selected features only

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Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 17384:

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

Polymer prediction:: (ohmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CDS_06212: mal

PKS_AT (714..1039): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 195.1
inactive: 86.8
Methoxymalonyl-CoA: 53.4
Methylmalonyl-CoA: 42.7
Propionyl-CoA: 26.6
Isobutyryl-CoA: 26.3
CHC-CoA: 12.1
Acetyl-CoA: 11.4
Ethylmalonyl-CoA: 10.0
Benzoyl-CoA: 9.6
fatty_acid: 8.3
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor