GCF_000063485.1 - 11 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_009480.1 (Clavibacter michiganensis subsp. michiganensis NCPPB 382)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	NRPS-like	162,195	205,590
Region 1.2	NRP-metallophore,NRPS	373,197	429,668	High	coelibactin	NRPS:Type I
Region 1.3	NAPAA	688,102	722,271	High	ε-Poly-L-lysine	NRPS:Type I
Region 1.4	lipolanthine,lanthipeptide-class-iii	756,959	786,554
Region 1.5	hydrogen-cyanide	905,532	918,799
Region 1.6	T3PKS	1,716,319	1,757,539
Region 1.7	terpene-precursor,betalactone	2,102,994	2,138,668
Region 1.8	lanthipeptide-class-ii	2,211,401	2,234,562	High	michiganin A	ribosomal:RiPP:Lanthipeptide
Region 1.9	NI-siderophore	2,347,212	2,377,728	Low	legonoxamine A/desferrioxamine B/legonoxamine B	other:other
Region 1.10	azole-containing-RiPP	3,092,527	3,114,816
Region 1.11	terpene	3,199,351	3,223,772	Low	carotenoid	terpene

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	NRPS-like	162,195	205,590
Region 1.2	NRP-metallophore,NRPS	373,197	429,668	High	coelibactin	NRPS:Type I
Region 1.3	NAPAA	688,102	722,271	High	ε-Poly-L-lysine	NRPS:Type I
Region 1.4	lipolanthine,lanthipeptide-class-iii	756,959	786,554
Region 1.5	hydrogen-cyanide	905,532	918,799
Region 1.6	T3PKS	1,716,319	1,757,539
Region 1.7	terpene-precursor,betalactone	2,102,994	2,138,668
Region 1.8	lanthipeptide-class-ii	2,211,401	2,234,562	High	michiganin A	ribosomal:RiPP:Lanthipeptide
Region 1.9	NI-siderophore	2,347,212	2,377,728	Low	legonoxamine A/desferrioxamine B/legonoxamine B	other:other
Region 1.10	azole-containing-RiPP	3,092,527	3,114,816
Region 1.11	terpene	3,199,351	3,223,772	Low	carotenoid	terpene

No secondary metabolite regions were found in these records:: NC_009478.1 (Clavibacter michiganensis subsp. michiganensis NCPPB 382); NC_009479.1 (Clavibacter michiganensis subsp. michiganensis NCPPB 382)

Compact view

NC_009480.1 - Region 1 - NRPS-like

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Location: 162,195 - 205,590 nt. (total: 43,396 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)

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

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

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

CMM_RS01090: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

Transferases: PPTase carboxylase

CMM_RS01130: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

CMM_RS01155: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

Hydrolases: hydrolase

CMM_RS01095: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: dehydratase

CMM_RS01150: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Translocases: permease transporter

CMM_RS01075: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

CMM_RS01145: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000893.5	0.45	NRPS	chloramphenicol	Streptomyces venezuelae ATCC 10712
BGC0001873.3	0.44	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0002284.3	0.43	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001948.3	0.42	other (other)	naseseazine C, C3-aryl pyrroloindolines	Streptomyces sp.
BGC0001377.5	0.42	PKS	uncialamycin	Streptomyces uncialis
BGC0000234.5	0.42	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002387.2	0.41	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0001500.3	0.41	PKS	allocyclinone A, allocyclinone B, allocyclinone C, allocyclinone D	Actinoallomurus sp. ID145698
BGC0000275.4	0.41	PKS	tetracenomycin C	Streptomyces glaucescens
BGC0001850.4	0.40	other (shikimate-derived)	diazaquinomycin A, diazaquinomycin E, diazaquinomycin F, diazaquinomycin G	Streptomyces sp. F001

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000893.5	0.45	NRPS	chloramphenicol	Streptomyces venezuelae ATCC 10712
BGC0001873.3	0.44	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0002284.3	0.43	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001948.3	0.42	other (other)	naseseazine C, C3-aryl pyrroloindolines	Streptomyces sp.
BGC0001377.5	0.42	PKS	uncialamycin	Streptomyces uncialis
BGC0000234.5	0.42	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002387.2	0.41	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0001500.3	0.41	PKS	allocyclinone A, allocyclinone B, allocyclinone C, allocyclinone D	Actinoallomurus sp. ID145698
BGC0000275.4	0.41	PKS	tetracenomycin C	Streptomyces glaucescens
BGC0001850.4	0.40	other (shikimate-derived)	diazaquinomycin A, diazaquinomycin E, diazaquinomycin F, diazaquinomycin G	Streptomyces sp. F001

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 (12):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.52 out of 21.55

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97

Confidence: weak

HypR

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

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.19 out of 28.14

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.17 out of 35.63

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 30.11

Confidence: weak

CelR

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

Confidence: weak

MexT

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

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.27 out of 25.75

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.00 out of 20.01

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.35 out of 24.78

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

Module view

Legend

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 162194 - 205590:

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

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CMM_RS01150: X

AMP-binding (24..465): 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:: RHALHLTGRSSAVFTAGSDHRA-------ICTSA
Nearest Stachelhaus code(s):: bOH-Tyr DTSKTAAICK (21% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description

NC_009480.1 - Region 2 - NRP-metallophore,NRPS

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Location: 373,197 - 429,668 nt. (total: 56,472 nt) Show pHMM detection rules used

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

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

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

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 reductase

CMM_RS02110: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

CMM_RS02140: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: PPTase kinase

CMM_RS02200: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

CMM_RS02290: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Hydrolases: esterase

CMM_RS02170: thioesterase

smcogs: SMCOG1004: thioesterase

Isomerases: isomerase

CMM_RS02205: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase synthase

CMM_RS02105: cobalamin synthesis protein/P47K family protein

smcogs: SMCOG1178: cobalamin synthesis protein/P47K family protein

CMM_RS02190: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CMM_RS02195: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Translocases: transporter

CMM_RS02295: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000412.5	0.63	NRPS	pyochelin	Pseudomonas aeruginosa PAO1
BGC0001758.4	0.61	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.61	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.60	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.60	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.58	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.58	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001166.5	0.57	NRPS	HC-toxin	Alternaria jesenskae
BGC0000307.4	0.57	NRPS	AbT1	Aureobasidium pullulans

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000412.5	0.65	NRPS	pyochelin	Pseudomonas aeruginosa PAO1
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.63	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.63	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001641.4	0.63	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.63	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.63	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001166.5	0.62	NRPS	HC-toxin	Alternaria jesenskae
BGC0000307.4	0.62	NRPS	AbT1	Aureobasidium pullulans

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.92 out of 32.74

Confidence: medium

VqsM

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

Confidence: medium

CatR

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

Confidence: medium

Additional weak hits (22):

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.55 out of 39.62

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.53 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.30 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.04 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.09 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.25 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.56 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.18 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.16 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.32 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.65 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.29 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.28 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 14.87 out of 31.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.86 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.39 out of 29.65

Confidence: weak

PerR

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

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.20 out of 26.06

Confidence: weak

SypG

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.17 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.03 out of 28.19

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.30 out of 20.01

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 373196 - 429668:

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

Polymer prediction:: (Ser - Cys) + (Me-Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CMM_RS02185: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (543..956): Cys

nrpys: Cys

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: TDIAFDLSVFDGNSLLSGDVSLGGATEAAIWSVH
Nearest Stachelhaus code(s):: Cys DLFNLSLIWK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

CMM_RS02190: Ser - Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (588..991): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: TSLSFDLSVYDANTLLGGDLALGGMTEATIHSTV
Nearest Stachelhaus code(s):: Ser DLYNLGLIHK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1659..2058): Cys

nrpys: Cys

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: TAVSFDLSVFDGDTLVSGDVALGGATEAAIWSNA
Nearest Stachelhaus code(s):: Cys DLFNLSLIWK (76% 8Å match)
Stachelhaus code match:: 90% (moderate)

CMM_RS02195: X

AMP-binding (44..464): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: NAALFTLACPGGALQVGGAQQVYGMAEGLVCMTG
Nearest Stachelhaus code(s):: Sal TLPAQGVICK (79% 8Å match); n-oh-nitropheBut TLPSQGVVCK (74% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
FuR variant 2	Ferric Uptake Regulator
VqsM	Regulator of quorum-sensing signalling systems

NC_009480.1 - Region 3 - NAPAA

Download region GenBank file

Download region SVG

Location: 688,102 - 722,271 nt. (total: 34,170 nt) Show pHMM detection rules used

NAPAA: (AMP-binding and TIGR02353)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

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

CMM_RS03660: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

Transferases: PPTase aminotransferase

CMM_RS03670: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

CMM_RS03715: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Ligases: ligase

CMM_RS03680: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001833.4	0.60	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001240.4	0.59	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001132.4	0.59	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.59	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001833.4	0.60	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001240.4	0.59	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001132.4	0.59	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.59	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (4):

HipB

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

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.02 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.97 out of 24.78

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.32 out of 29.25

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 3, location 688101 - 722271:

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

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CMM_RS03680: X

AMP-binding (56..456): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FAELFDASCEELSTIFGGEWNTYGPTEATVVACA
Nearest Stachelhaus code(s):: Lys DAEDIGTVVK (71% 8Å match); Gln or Tyr DAESVGTVVK (65% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description

NC_009480.1 - Region 4 - lanthipeptide-class-iii,lipolanthine

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Location: 756,959 - 786,554 nt. (total: 29,596 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

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 oxidase

CMM_RS03980: pyruvate oxidase/decarboxylase

smcogs: SMCOG1055: pyruvate oxidase/decarboxylase

CMM_RS04005: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase

CMM_RS03965: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: hydrolase

CMM_RS04045: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Ligases: ligase synthase

CMM_RS03970: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CMM_RS03975: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000513.3	0.32	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.31	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0002711.2	0.30	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0001152.5	0.27	NRPS, PKS	fusaricidin B	Paenibacillus polymyxa
BGC0000520.5	0.26	ribosomal	lacticin 3147 A1, lacticin 3147 A2	Lactococcus lactis
BGC0000516.4	0.25	ribosomal	geobacillin II	Geobacillus thermodenitrificans
BGC0000255.5	0.25	PKS	pederin	Uncultured bacterium
BGC0000626.3	0.24	ribosomal	thuricin	Bacillus thuringiensis
BGC0000546.3	0.24	ribosomal	SAL-2242	Streptomyces albidoflavus
BGC0002591.2	0.24	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002711.2	0.47	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0000513.3	0.46	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.46	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0001152.5	0.44	NRPS, PKS	fusaricidin B	Paenibacillus polymyxa
BGC0001869.4	0.42	NRPS, other (phenazine)	griseoluteic acid, demethoxygriseoluteic acid, phenaszentine A, phenaszentine C, phenaszenketide C, phenaszenketide D	Xenorhabdus szentirmaii DSM 16338
BGC0000516.4	0.42	ribosomal	geobacillin II	Geobacillus thermodenitrificans
BGC0000520.5	0.42	ribosomal	lacticin 3147 A1, lacticin 3147 A2	Lactococcus lactis
BGC0000255.5	0.42	PKS	pederin	Uncultured bacterium
BGC0002591.2	0.41	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.
BGC0000546.3	0.40	ribosomal	SAL-2242	Streptomyces albidoflavus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptides - No core peptides found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (3):

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: 15.36 out of 21.84

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.80 out of 28.19

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

No core peptides found.

TFBS definitions

Regulator	Description

NC_009480.1 - Region 5 - hydrogen-cyanide

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Location: 905,532 - 918,799 nt. (total: 13,268 nt) Show pHMM detection rules used

hydrogen-cyanide: (Fer2_4 and cds(Pyr_redox_2 and Fer2_BFD) and DAO)

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

KnownClusterBlast

SubClusterBlast

TFBS Finder

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

CMM_RS04605: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

CMM_RS04630: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

Hydrolases: peptidase

CMM_RS04595: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.53	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000538.3	0.40	ribosomal	nisin Z	Lactococcus lactis
BGC0002382.3	0.39	ribosomal	grimoviridin	Grimontia marina
BGC0001289.5	0.39	ribosomal	penisin	Paenibacillus ehimensis
BGC0000500.5	0.39	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002064.2	0.37	ribosomal	felipeptin A2, felipeptin A1	Amycolatopsis sp. YIM 10
BGC0000497.3	0.37	ribosomal	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000541.5	0.37	ribosomal	paenicidin A	Paenibacillus polymyxa

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.53	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000538.3	0.40	ribosomal	nisin Z	Lactococcus lactis
BGC0002382.3	0.39	ribosomal	grimoviridin	Grimontia marina
BGC0001289.5	0.39	ribosomal	penisin	Paenibacillus ehimensis
BGC0000500.5	0.39	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002064.2	0.37	ribosomal	felipeptin A2, felipeptin A1	Amycolatopsis sp. YIM 10
BGC0000497.3	0.37	ribosomal	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000541.5	0.37	ribosomal	paenicidin A	Paenibacillus polymyxa

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.35 out of 20.47

Confidence: strong

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.57 out of 26.33

Confidence: medium

TFBS Finder

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
VqsM	Regulator of quorum-sensing signalling systems

NC_009480.1 - Region 6 - T3PKS

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Location: 1,716,319 - 1,757,539 nt. (total: 41,221 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

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

CMM_RS08300: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

CMM_RS08350: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: acetyltransferase

CMM_RS08365: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: hydrolase

CMM_RS08250: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Isomerases: isomerase

CMM_RS08400: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: synthase

CMM_RS08340: 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
BGC0000282.3	0.53	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3	0.51	PKS	hierridin B, hierridin C	Cyanobium sp. LEGE 06113
BGC0001905.4	0.50	PKS	violapyrone B	Streptomyces somaliensis
BGC0002332.2	0.50	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0001077.4	0.50	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
BGC0001831.3	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0001529.5	0.45	other (other)	benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K	Streptomyces sp. RI18
BGC0002362.3	0.43	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0002150.2	0.42	ribosomal	triculamin	Streptomyces triculaminicus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.53	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3	0.51	PKS	hierridin B, hierridin C	Cyanobium sp. LEGE 06113
BGC0001905.4	0.50	PKS	violapyrone B	Streptomyces somaliensis
BGC0002332.2	0.50	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0001077.4	0.50	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
BGC0001831.3	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0001529.5	0.45	other (other)	benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K	Streptomyces sp. RI18
BGC0002362.3	0.43	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0002151.2	0.43	ribosomal	alboverticillin	Streptomyces griseocarneus
BGC0002150.2	0.42	ribosomal	triculamin	Streptomyces triculaminicus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.83 out of 29.65

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78

Confidence: medium

Additional weak hits (5):

LexA variant 1

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

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.21 out of 24.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.31 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.56 out of 28.14

Confidence: weak

MexT

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

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
LexA variant 1	Repressor of DNA damage response
LexA variant 2	Repressor of DNA damage response

NC_009480.1 - Region 7 - betalactone,terpene-precursor

Download region GenBank file

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Location: 2,102,994 - 2,138,668 nt. (total: 35,675 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)
betalactone: (HMGL-like and AMP-binding)

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

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

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

CMM_RS10130: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acyltransferase carboxylase

CMM_RS10110: acyltransferase

smcogs: SMCOG1141: acyltransferase

CMM_RS10135: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: deformylase

CMM_RS10125: peptide deformylase

smcogs: SMCOG1275: peptide deformylase

Ligases: ligase synthetase

CMM_RS10085: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

CMM_RS10120: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.31	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.29	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.26	terpene	raimonol	Streptomyces anulatus
BGC0001910.4	0.26	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.26	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.26	terpene	isorenieratene	Streptomyces argillaceus
BGC0002561.3	0.25	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000633.3	0.25	terpene	carotenoid	Streptomyces avermitilis
BGC0000936.5	0.25	other (other)	pyocyanine	Pseudomonas aeruginosa PAO1
BGC0000649.3	0.25	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002309.2	0.47	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000677.5	0.46	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001911.3	0.43	terpene	raimonol	Streptomyces anulatus
BGC0000649.3	0.43	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002284.3	0.43	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001910.4	0.43	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.43	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.42	terpene	isorenieratene	Streptomyces argillaceus
BGC0002561.3	0.42	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000678.5	0.42	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893

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:

CMM_RS10085: PT_FPPS_like

Domain 1 (45 - 371): 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 (3):

HypR

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

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.21 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.77 out of 33.14

Confidence: weak

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

NC_009480.1 - Region 8 - lanthipeptide-class-ii

Download region GenBank file

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Location: 2,211,401 - 2,234,562 nt. (total: 23,162 nt) Show pHMM detection rules used

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

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

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

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

CMM_RS10610: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

Lyases: cyclase

CMM_RS10580: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	1.00	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001579.4	0.50	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000527.5	0.50	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002346.3	0.49	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000503.5	0.48	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001210.5	0.47	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000539.5	0.47	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0000626.3	0.47	ribosomal	thuricin	Bacillus thuringiensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	1.00	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001579.4	0.50	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000527.5	0.50	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002346.3	0.49	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000503.5	0.48	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001210.5	0.47	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000539.5	0.47	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0000626.3	0.47	ribosomal	thuricin	Bacillus thuringiensis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for CMM_RS10580

CMM_RS10575

Leader:

MNDILETETPVMVSPRWDMLLDAGEDTSPSVQTQIDAEFRRVVSPYM

Core:

SSSGWLCTLTIECGTIICACR

Core with dehydrations:

DhaDhaDhaGWLCysDhbLDhbIECysGDhbIICysACysR

antiSMASH-DB 4.0 matches for CMM_RS10575

100.0%

NC_009480.1and 10 others:

NZ_CP033724.1 Lanthipeptides: EFE39_RS10220_lanthipeptideNZ_CP047051.1 Lanthipeptides: GRD74_RS10365_lanthipeptideNZ_CP047054.1 Lanthipeptides: GRD61_RS10460_lanthipeptideNZ_CP053860.1 Lanthipeptides: DQP62_RS10825_lanthipeptideNZ_CP076352.1 Lanthipeptides: KN218_RS09900_lanthipeptideNZ_CP085137.1 Lanthipeptides: LHJ48_RS10290_lanthipeptideNZ_CP085140.1 Lanthipeptides: LHJ47_RS10305_lanthipeptideNZ_CP095274.1 Lanthipeptides: MU580_RS10460_lanthipeptideNZ_PSTW01000024.1 Lanthipeptides: C5C03_RS09675_lanthipeptideNZ_SISU01000002.1 Lanthipeptides: EOG37_RS09890_lanthipeptide

Lanthipeptides: CMM_RS10575_lanthipeptide

1

SSSGWLCTLTIECGTIICACR

21

SSSGWLCTLTIECGTIICACR

1

SSSGWLCTLTIECGTIICACR

21

90.5%

NZ_CP028130.1:

Lanthipeptides: C7V51_RS14690_lanthipeptide

2

SSGWLCTLTIECGTIICACR

21

SSGW+CTLTIECGTIICACR

2

SSGWMCTLTIECGTIICACR

21

90.5%

NZ_CP061274.1and 1 other:

NZ_JADKRR010000001.1 Lanthipeptides: ITJ40_RS10085_lanthipeptide

Lanthipeptides: H9X71_RS09850_lanthipeptide

1

SSSGWLCTLTIECGTIICACR

21

+SSGWLCTLTIECGT ICACR

1

ASSGWLCTLTIECGTFICACR

21

with 109 more sequence matches

Only the first 10 are displayed here.

85.7%

NZ_AUBN01000022.1:

Lanthipeptides: G448_RS16025_lanthipeptide

1

SSSGWLCTLTIECGTIICACR

21

+SSGW CTLTIECGT ICACR

1

ASSGWFCTLTIECGTFICACR

21

81.0%

NZ_CP015515.1and 1 other:

NZ_PSUO01000011.1 Lanthipeptides: C5C18_RS08595_lanthipeptide

Lanthipeptides: A6122_RS12855_lanthipeptide

2

SSGWLCTLTIECGTIICACR

21

SSGW+CTLTIECGT++CACR

2

SSGWMCTLTIECGTVVCACR

21

81.0%

NZ_JAGPXN010000019.1:

Lanthipeptides: KBX06_RS22045_lanthipeptide

2

SSGWLCTLTIECGTIICACR

21

SSGW+CTLTIECGT++CACR

1

SSGWVCTLTIECGTVVCACR

20

76.2%

NZ_CP036455.1:

Lanthipeptides: EKD16_RS25235_lanthipeptide

2

SSGWLCTLTIECGTIICACR

21

SSGW+CTLTIECGT++CAC+

1

SSGWVCTLTIECGTLVCACQ

20

76.2%

NZ_JAODUN010000003.1:

Lanthipeptides: BXY51_RS10560_lanthipeptide

2

SSGWLCTLTIECGTIICAC

20

SSGW+CTLTIECGT++CAC

1

SSGWVCTLTIECGTLVCAC

19

76.2%

NZ_KB895893.1and 1 other:

NZ_KB900614.1 Lanthipeptides: SALPAC6_RS0114155_lanthipeptide

Lanthipeptides: C569_RS0129325_lanthipeptide

2

SSGWLCTLTIECGTIICACR

21

SSGW+CTLTIECGT++CAC+

1

SSGWVCTLTIECGTVVCACQ

20

40.9%

NZ_CP034669.1:

Lanthipeptides: EJ065_RS32040_lanthipeptide

1

SSSGWLCTLTIECG

14

+S G++CTLT ECG

8

NSCGYVCTLTTECG

21

40.9%

NZ_NIHT01000008.1and 1 other:

NZ_NIHT01000008.1 Lanthipeptides: CDL23_RS06740_lanthipeptide

Lanthipeptides: CDL23_RS06745_lanthipeptide

1

SSSGWLCTLTIECGTIICAC

20

+ SGWL T+T +C I C

2

NGSGWLPTITDDCPNSIFVC

21

38.1%

NZ_CP022413.2and 1 other:

NZ_JAQEYW010000009.1 Lanthipeptides: PG422_RS09400_lanthipeptide

Lanthipeptides: CGC63_RS01420_lanthipeptide

3

SGWLCTLTIECGTII

17

SG +CT+++ECG+I

1

SGVVCTISVECGSIF

15

38.1%

NZ_CP036073.1and 11 others:

NZ_CP036073.1 Lanthipeptides: EXW45_RS04930_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04925_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04920_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04915_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04910_lanthipeptideNZ_NUEG01000031.1 Lanthipeptides: CN905_RS18915_lanthipeptideNZ_NUEG01000031.1 Lanthipeptides: CN905_RS18910_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05275_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05270_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05265_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05260_lanthipeptide

Lanthipeptides: EXW45_RS04935_lanthipeptide

4

GWLCTLTIECGTIICAC

20

GWLCT+T +C + C

4

GWLCTVTDDCPNSVFVC

20

MIBiG 4.0 matches for CMM_RS10575

26.7%

BGC0002110.3 (QKV49893.1):

Lanthipeptide: birimositide

1

SSSGWLCTLTIEC

13

++ GW CTLT EC

14

NNGGW-CTLTKEC

25

25.0%

BGC0000517.4 (BAB04173.1):

Lanthipeptide: haloduracin β or haloduracin α

2

SSGWLCTLTIEC

13

+ G CTLT+EC

12

NKGAYCTLTVEC

23

12.8%

BGC0001229.4 (SBI_06990):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

7

CTLTIEC

13

CTL+ EC

28

CTLSKEC

34

allorf_2226592_2226732

Leader:

MRERNPLHTG

Core:

CSALRTSVARSAELEGRPARRNAVSRATATGYWSSA

Core with dehydrations:

CysDhaALRDhbDhaVARDhaAELEGRPARRNAVDhaRADhbADhbGYWDhaDhaA

antiSMASH-DB 4.0 matches for allorf_2226592_2226732

100.0%

NC_009480.1and 1 other:

NZ_CP047054.1 Lanthipeptides: allorf_2242448_2242588_lanthipeptide

Lanthipeptides: allorf_2226592_2226732_lanthipeptide

1

CSALRTSVARSAELEGRPARRNAVSRATATGYWSSA

36

CSALRTSVARSAELEGRPARRNAVSRATATGYWSSA

1

CSALRTSVARSAELEGRPARRNAVSRATATGYWSSA

36

97.2%

NZ_PSTW01000024.1:

Lanthipeptides: allorf_20775_20915_lanthipeptide

1

CSALRTSVARSAELEGRPARRNAVSRATATGYWSSA

36

CSALRTSVARSAELEGRPA RNAVSRATATGYWSSA

1

CSALRTSVARSAELEGRPAGRNAVSRATATGYWSSA

36

31.6%

NZ_CP011505.1:

Lanthipeptides: allorf_0567554_0567700_lanthipeptide

2

SALRTSVARSAELEGRPARRNAVSRA

27

A+RT VAR EG P VS A

7

QAIRTVVARECVGEGTPFDLKGVSGA

32

with 2 more sequence matches

31.6%

NZ_DF978419.1:

Lanthipeptides: allorf_0451261_0451407_lanthipeptide

2

SALRTSVARSAELEGRPARRNAVSRA

27

A+RT VAR EG P VS A

7

QAIRTVVARECVGEGAPFDLKGVSGA

32

15.3%

NZ_CP046514.1and 9 others:

NZ_CP069278.1 Lanthipeptides: allorf_1033752_1033973_lanthipeptideNZ_GL622638.1 Lanthipeptides: allorf_31875_32096_lanthipeptideNZ_JADMSA010000006.1 Lanthipeptides: allorf_049253_049474_lanthipeptideNZ_JADMUN010000007.1 Lanthipeptides: allorf_076793_077014_lanthipeptideNZ_JADNBL010000011.1 Lanthipeptides: allorf_61109_61330_lanthipeptideNZ_JADPBZ010000019.1 Lanthipeptides: allorf_14831_15052_lanthipeptideNZ_JADPCP010000015.1 Lanthipeptides: allorf_17792_18013_lanthipeptideNZ_JAHTKJ010000004.1 Lanthipeptides: allorf_025782_026003_lanthipeptideNZ_NJNX01000015.1 Lanthipeptides: allorf_53588_53809_lanthipeptide

Lanthipeptides: allorf_1935663_1935884_lanthipeptide

3

ALRTSVARSAELEGRPARRNAVSRATATGYW

33

AL ++ + G P NA++R + G W

25

ALDGLISLNLRWLGEPNFGNALARTSTNGLW

55

MIBiG 4.0 matches for allorf_2226592_2226732

8.3%

BGC0002111.3 (multiple genes):

Lanthipeptide: andalusicin A or andalusicin B

31

GYWSS

35

G W+S

13

GVWAS

17

allorf_2228055_2228147

Leader:

MPRSRRLAPSGDLVGDTVMFA

Core:

SMGICASRS

Core with dehydrations:

DhaMGICysADhaRDha

antiSMASH-DB 4.0 matches for allorf_2228055_2228147

100.0%

NC_009480.1and 2 others:

NZ_CP047054.1 Lanthipeptides: allorf_2243911_2244003_lanthipeptideNZ_PSTW01000024.1 Lanthipeptides: allorf_22239_22331_lanthipeptide

Lanthipeptides: allorf_2228055_2228147_lanthipeptide

1

SMGICASRS

9

SMGICASRS

1

SMGICASRS

9

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 27.18 out of 30.12

Confidence: medium

VqsM

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

Confidence: medium

VqsM

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

Confidence: medium

Additional weak hits (4):

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.67 out of 27.04

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.75 out of 36.54

Confidence: weak

MexT

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

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.44 out of 26.85

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

CMM_RS10575 - Class II

Cleavage pHMM score: -3.60

RODEO score: 0

Monoisotopic mass: 2108.0 Da

Molecular weight: 2109.5 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 2127.5 Da N = 1; 2145.5 Da N = 2

allorf_2226592_2226732 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 3645.9 Da

Molecular weight: 3648.0 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 3666.0 Da N = 1; 3684.0 Da N = 2; 3702.1 Da N = 3; 3720.1 Da N = 4; 3738.1 Da N = 5; 3756.1 Da N = 6; 3774.1 Da N = 7; 3792.2 Da N = 8

allorf_2228055_2228147 - Class II

Cleavage pHMM score: -5.20

RODEO score: 0

Monoisotopic mass: 856.4 Da

Molecular weight: 857.0 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 875.0 Da N = 1; 893.0 Da N = 2

TFBS definitions

Regulator	Description
OsdR	Development and stress management regulator
VqsM	Regulator of quorum-sensing signalling systems

NC_009480.1 - Region 9 - NI-siderophore

Download region GenBank file

Download region SVG

Location: 2,347,212 - 2,377,728 nt. (total: 30,517 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

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

KnownClusterBlast

SubClusterBlast

TFBS Finder

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

CMM_RS11200: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

CMM_RS11215: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CMM_RS11235: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

CMM_RS11260: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: hydrolase

CMM_RS11185: alpha/beta hydrolase domain-containing protein

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

Lyases: decarboxylase dehydratase

CMM_RS11210: L-carnitine dehydratase/bile acid-inducible

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

CMM_RS11240: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Translocases: transporter

CMM_RS11300: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001572.3	0.69	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.66	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.64	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002305.2	0.61	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001453.5	0.60	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000940.5	0.60	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000244.4	0.55	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0002073.3	0.53	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002690.2	0.52	other (other)	FW0622	Verrucosispora sp. FIM060022

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001572.3	0.69	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.66	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.64	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002305.2	0.61	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001453.5	0.60	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000940.5	0.60	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000244.4	0.55	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0002073.3	0.53	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002690.2	0.52	other (other)	FW0622	Verrucosispora sp. FIM060022

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.88 out of 36.53

Confidence: medium

Additional weak hits (16):

MexT

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

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.35 out of 27.55

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.37 out of 26.85

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 19.37 out of 36.54

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.10 out of 25.88

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.42 out of 33.73

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.65 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.58 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.98 out of 28.14

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.19 out of 36.54

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.72 out of 29.38

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.56 out of 29.65

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.88 out of 28.19

Confidence: weak

NrtR

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

Confidence: weak

AfsQ1

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

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.65 out of 29.65

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
DmdR1	Iron(II)-dependent repressor

NC_009480.1 - Region 10 - azole-containing-RiPP

Download region GenBank file

Download region SVG

Location: 3,092,527 - 3,114,816 nt. (total: 22,290 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

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

CMM_RS14750: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Hydrolases: hydrolase

CMM_RS14755: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Translocases: transporter

CMM_RS14775: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002144.3	0.47	ribosomal	phazolicin	Rhizobium sp. Pop5
BGC0002013.4	0.47	ribosomal	curacozole	Streptomyces curacoi
BGC0000569.5	0.42	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0000571.3	0.41	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000515.4	0.39	ribosomal	geobacillin I	Geobacillus thermodenitrificans NG80-2
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000188.5	0.39	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0000845.5	0.39	other (non-nrp beta-lactam)	clavulanic acid	Streptomyces clavuligerus ATCC 27064
BGC0000537.3	0.39	ribosomal	nisin U	Streptococcus uberis
BGC0001789.3	0.39	ribosomal	suicin 90-1330	Streptococcus suis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002144.3	0.47	ribosomal	phazolicin	Rhizobium sp. Pop5
BGC0002013.4	0.47	ribosomal	curacozole	Streptomyces curacoi
BGC0000569.5	0.42	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0000571.3	0.41	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000515.4	0.39	ribosomal	geobacillin I	Geobacillus thermodenitrificans NG80-2
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000188.5	0.39	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0000845.5	0.39	other (non-nrp beta-lactam)	clavulanic acid	Streptomyces clavuligerus ATCC 27064
BGC0000537.3	0.39	ribosomal	nisin U	Streptococcus uberis
BGC0001789.3	0.39	ribosomal	suicin 90-1330	Streptococcus suis

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: 18.46 out of 23.05

Confidence: medium

Additional weak hits (2):

HypR

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

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 18.03 out of 33.14

Confidence: weak

(Thi)azol(in)e containing peptide predictions

(Thi)azol(in)e containing peptide(s)

CMM_RS14740

Leader:

MSLLMEPTRTTAPEVAPAAGGEAASDALLAEAFGFTITHRGAEEELVMGDVTLCCS

Core:

TTCSSSGSGHQQPR

Core with dehydrations:

DhbDhbCysDhaDhaDhaGDhaGHQQPR

antiSMASH-DB 4.0 matches for CMM_RS14740

23.1%

NZ_CP012109.1:

Lanthipeptides: allorf_4705695_4705880_lanthipeptide

3

CSSSGSGHQQPR

14

CS +G G + PR

3

CSDAGGGVRTPR

14

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Types:

Type I: Featuring genes encoding indolic acid side ring (series e)
Type II: Featuring the gene coding for quinaldic acid moiety formation (series a, b, and c)
Type III: No genes for synthesizing L-Trp derivatives (series d)

TFBS Finder

Azole RiPPs

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

Core peptide predictions

CMM_RS14740

Putative Type III

Cleavage pHMM score: 6.10

RODEO score: 30

Monoisotopic mass: 1431.6 Da

Molecular weight: 1432.5 Da

Predicted peptide features:
Central ring: pyridine trisubstituted

Alternative weights: (assuming N unmodified Ser/Thr residues); 1450.5 Da N = 1; 1468.5 Da N = 2; 1486.5 Da N = 3; 1504.6 Da N = 4; 1522.6 Da N = 5; 1540.6 Da N = 6

NC_009480.1 - Region 11 - terpene

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Location: 3,199,351 - 3,223,772 nt. (total: 24,422 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

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

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

CMM_RS15310: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

CMM_RS15340: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Ligases: synthetase

CMM_RS15315: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Translocases: transport

CMM_RS15335: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000644.3	0.63	terpene	carotenoid	Dietzia sp. CQ4
BGC0000637.3	0.58	terpene	carotenoid	Corynebacterium glutamicum
BGC0000648.3	0.56	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.51	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000664.5	0.48	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3	0.47	terpene	carotenoid	Brevibacterium linens
BGC0002309.2	0.46	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3	0.46	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000649.3	0.44	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000644.3	0.63	terpene	carotenoid	Dietzia sp. CQ4
BGC0000637.3	0.58	terpene	carotenoid	Corynebacterium glutamicum
BGC0000648.3	0.56	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.51	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000664.5	0.48	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3	0.47	terpene	carotenoid	Brevibacterium linens
BGC0002309.2	0.46	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3	0.46	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000649.3	0.44	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350

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:

CMM_RS15300: Lycopene_cycl

Domain 1 (1 - 107): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

CMM_RS15305: Lycopene_cycl

Domain 1 (4 - 92): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

CMM_RS15310: PT_phytoene_like

Domain 1 (33 - 301): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

CMM_RS15315: PT_FPPS_like

Domain 1 (49 - 332): 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):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.70 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.48 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.61 out of 29.38

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.03 out of 26.33

Confidence: weak

NuR

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

Confidence: weak

ZuR variant 1

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

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.24 out of 20.01

Confidence: weak

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
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description