GCF_001403875.1 - 15 region(s)

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Location: 101,901 - 117,768 nt. (total: 15,868 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

Hydrolases: hydrolase

BN2762_RS01470: hydrolase

smcogs: SMCOG1179: hydrolase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000617.5	0.49	ribosomal	coagulin	Bacillus coagulans
BGC0000558.5	0.49	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0002579.2	0.48	ribosomal	carnobacteriocin XY	Carnobacterium maltaromaticum
BGC0000624.3	0.46	ribosomal	salivaricin CRL1328 α peptide, salivaricin CRL1328 β peptide	Lactobacillus salivarius
BGC0000619.3	0.45	ribosomal	gassericin T	Lactobacillus gasseri
BGC0001602.3	0.45	ribosomal	gassericin-T	Lactobacillus gasseri
BGC0001388.3	0.45	ribosomal	gassericin E	Lactobacillus gasseri
BGC0001862.4	0.45	ribosomal	pallidocin	Aeribacillus pallidus
BGC0002577.2	0.44	ribosomal	lactococcin G	Lactococcus lactis
BGC0000589.5	0.44	ribosomal	microcin M	Escherichia coli Nissle 1917

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000617.5	0.49	ribosomal	coagulin	Bacillus coagulans
BGC0000558.5	0.49	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0002579.2	0.48	ribosomal	carnobacteriocin XY	Carnobacterium maltaromaticum
BGC0000624.3	0.46	ribosomal	salivaricin CRL1328 α peptide, salivaricin CRL1328 β peptide	Lactobacillus salivarius
BGC0000619.3	0.45	ribosomal	gassericin T	Lactobacillus gasseri
BGC0001602.3	0.45	ribosomal	gassericin-T	Lactobacillus gasseri
BGC0001388.3	0.45	ribosomal	gassericin E	Lactobacillus gasseri
BGC0001862.4	0.45	ribosomal	pallidocin	Aeribacillus pallidus
BGC0002577.2	0.44	ribosomal	lactococcin G	Lactococcus lactis
BGC0000589.5	0.44	ribosomal	microcin M	Escherichia coli Nissle 1917

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 28.84 out of 29.38

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.40 out of 29.38

Confidence: medium

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 28.83 out of 32.74

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.17 out of 29.38

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.61 out of 27.78

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.70 out of 28.19

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.06 out of 28.19

Confidence: medium

Additional weak hits (12):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.80 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.03 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.90 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.89 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.63 out of 26.06

Confidence: weak

ANR

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

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.81 out of 39.62

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 25.38 out of 31.73

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.75 out of 30.98

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 22.24 out of 35.63

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.26 out of 35.63

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.38 out of 23.43

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1	Ferric Uptake Regulator
FuR variant 2	Ferric Uptake Regulator
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_LN884295.1 - Region 2 - lanthipeptide-class-iii

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Location: 165,176 - 187,782 nt. (total: 22,607 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002700.2	0.57	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.50	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000496.5	0.50	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002111.3	0.49	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000513.3	0.49	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000553.3	0.49	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0002701.2	0.45	ribosomal	paenithipeptin	Paenibacillus thiaminolyticus
BGC0000518.3	0.44	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000528.5	0.43	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002700.2	0.57	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.50	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000496.5	0.50	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002111.3	0.49	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000513.3	0.49	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000553.3	0.49	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0002701.2	0.45	ribosomal	paenithipeptin	Paenibacillus thiaminolyticus
BGC0000518.3	0.44	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000528.5	0.43	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for BN2762_RS01745

BN2762_RS27185

Leader:

MNAVLELQKLEHDTDDKD

Core:

QAMIGLVSTVGPIKTIITFTSTIKC

Core with dehydrations:

QAMIGLVDhaDhbVGPIKDhbIIDhbFDhbDhaDhbIKCys

antiSMASH-DB 4.0 matches for BN2762_RS27185

100.0%

NZ_LN884295.1:

Lanthipeptides: BN2762_RS27185_lanthipeptide

1

QAMIGLVSTVGPIKTIITFTSTIKC

25

QAMIGLVSTVGPIKTIITFTSTIKC

1

QAMIGLVSTVGPIKTIITFTSTIKC

25

23.7%

NZ_CP084237.1:

Lanthipeptides: RES5_RS11640_lanthipeptide

4

IGLVSTVGPIKTIITFTSTIKC

25

IG+ S V I T T ++ KC

11

IGIASFVATIPTGYTASAAFKC

32

15.2%

NZ_CP096019.1:

Lanthipeptides: MW046_RS07480_lanthipeptide

5

GLVSTVGPIKTIITFTSTIKC

25

G V +VG + +++ F + KC

15

GPVVSVGYMPSVMEFVTGYKC

35

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.18 out of 27.78

Confidence: medium

Additional weak hits (1):

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.48 out of 29.65

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

BN2762_RS27185 - Class III

Cleavage pHMM score: -0.00

RODEO score: 0

Monoisotopic mass: 2495.5 Da

Molecular weight: 2497.0 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 2515.1 Da N = 1; 2533.1 Da N = 2; 2551.1 Da N = 3; 2569.1 Da N = 4; 2587.1 Da N = 5; 2605.2 Da N = 6

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
ToxT	Regulator of MSHA biosynthesis

NZ_LN884296.1 - Region 1 - NRPS-like

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Location: 23,725 - 67,465 nt. (total: 43,741 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

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

Isomerases: isomerase

BN2762_RS02190: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase synthase

BN2762_RS02130: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS02185: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

BN2762_RS02195: carbamoyl phosphate synthase small subunit

smcogs: SMCOG1249: carbamoyl phosphate synthase small subunit

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002164.2	0.61	NRPS	peramine	Epichloe festucae
BGC0001135.5	0.60	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001261.3	0.60	NRPS	AM-toxin	Alternaria alternata

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002164.2	0.61	NRPS	peramine	Epichloe festucae
BGC0001135.5	0.60	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001261.3	0.60	NRPS	AM-toxin	Alternaria alternata

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.22 out of 18.57

Confidence: strong

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.87 out of 29.72

Confidence: medium

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 16.86 out of 18.57

Confidence: medium

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.94 out of 21.55

Confidence: medium

Additional weak hits (16):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.41 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.46 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.95 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.73 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.90 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.64 out of 29.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.92 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.79 out of 31.73

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.88 out of 33.14

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 22.72 out of 35.63

Confidence: weak

HypR

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

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.50 out of 24.78

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.47 out of 30.98

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 19.65 out of 22.40

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.39 out of 33.14

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.94 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 1, location 23724 - 67465:

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

Polymer prediction:: (Leu)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS02130: Leu

Search NORINE for peptide: strict or relaxed

AMP-binding (244..657): Leu

nrpys: Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LAASFDASVYDSILVIGGEVNAYGPTEATVVTTV
Nearest Stachelhaus code(s):: Leu DAWIVGAIVK (62% 8Å match)
Stachelhaus code match:: 80% (moderate)

TFBS definitions

Regulator	Description
ArcA	Repressor of carbon oxidation
NtrC	Nitrogen regulatory protein C
ToxT	Regulator of MSHA biosynthesis

NZ_LN884297.1 - Region 1 - proteusin

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Location: 268,851 - 289,096 nt. (total: 20,246 nt) Show pHMM detection rules used

proteusin: (PoyD or TIGR03793)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

Transferases: phosphotransferase

BN2762_RS04055: Glucose-specific phosphotransferase enzyme IIA

smcogs: SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000908.3	0.39	other (other)	melanin	Streptomyces avermitilis
BGC0001778.5	0.31	other (other)	showdomycin	Streptomyces showdoensis
BGC0002496.3	0.30	NRPS	serratiochelin A, serratiochelin C, serratiochelin B	Serratia plymuthica
BGC0001047.4	0.30	NRPS, PKS	syringolin A	Pseudomonas syringae
BGC0000436.5	0.29	NRPS	syringolin A	Rhizobium sp. AP16
BGC0002713.2	0.26	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii
BGC0002443.3	0.26	PKS	mycemycin C, mycemycin A, mycemycin B	Streptomyces olivaceus
BGC0001392.5	0.25	ribosomal	pinensins	Chitinophaga pinensis DSM 2588
BGC0002122.2	0.24	NRPS	gramicidin S	Aneurinibacillus migulanus
BGC0000905.5	0.23	other (other)	heme D1	Heliobacillus mobilis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000908.3	0.39	other (other)	melanin	Streptomyces avermitilis
BGC0001778.5	0.31	other (other)	showdomycin	Streptomyces showdoensis
BGC0002496.3	0.30	NRPS	serratiochelin A, serratiochelin C, serratiochelin B	Serratia plymuthica
BGC0001047.4	0.30	NRPS, PKS	syringolin A	Pseudomonas syringae
BGC0000436.5	0.29	NRPS	syringolin A	Rhizobium sp. AP16
BGC0002713.2	0.26	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii
BGC0002443.3	0.26	PKS	mycemycin C, mycemycin A, mycemycin B	Streptomyces olivaceus
BGC0001392.5	0.25	ribosomal	pinensins	Chitinophaga pinensis DSM 2588
BGC0002122.2	0.24	NRPS	gramicidin S	Aneurinibacillus migulanus
BGC0000905.5	0.23	other (other)	heme D1	Heliobacillus mobilis

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MogR

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

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.56 out of 26.06

Confidence: strong

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 19.12 out of 20.97

Confidence: strong

CRP

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

Confidence: medium

Additional weak hits (5):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.54 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.49 out of 26.06

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.59 out of 39.62

Confidence: weak

AfsQ1

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

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.98 out of 29.25

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CcpA	Catabolite control protein A
MogR	Repressor of flagellar motility genes

NZ_LN884298.1 - Region 1 - NRPS,T1PKS

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Location: 561,587 - 619,458 nt. (total: 57,872 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

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 oxidoreductase

BN2762_RS07520: dihydropteridine reductase

smcogs: SMCOG1159: dihydropteridine reductase

BN2762_RS07540: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BN2762_RS28135: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

Hydrolases: hydrolase

BN2762_RS07515: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

BN2762_RS07550: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Lyases: cyclase

BN2762_RS07415: diguanylate cyclase

smcogs: SMCOG1025: diguanylate cyclase

Ligases: ligase synthase

BN2762_RS07475: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BN2762_RS07480: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

BN2762_RS07490: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS07495: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.85	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0000426.5	0.81	NRPS	sevadicin	Paenibacillus larvae
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.75	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.75	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.74	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001133.4	0.72	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.72	NRPS	enniatin	Fusarium equiseti
BGC0002286.3	0.72	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.70	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0000426.5	0.72	NRPS	sevadicin	Paenibacillus larvae
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.69	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001133.4	0.69	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.68	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.90 out of 26.06

Confidence: medium

ArcA

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

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.22 out of 18.57

Confidence: strong

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.56 out of 27.55

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.67 out of 32.93

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.69 out of 26.06

Confidence: medium

AfsQ1

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

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.42 out of 25.88

Confidence: medium

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.82 out of 21.84

Confidence: medium

Additional weak hits (10):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.65 out of 29.38

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.05 out of 28.14

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.08 out of 39.62

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.08 out of 39.62

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.51 out of 30.25

Confidence: weak

HypR

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

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.26 out of 26.06

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 22.07 out of 32.93

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.81 out of 32.93

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 561586 - 619458:

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

Polymer prediction:: (X) + (ohmal) + (D-X) + (X)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS07475: X

AMP-binding (470..871): 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:: LAMSFDASVVEPISVSVGEINAYGPTEATVWVTD
Nearest Stachelhaus code(s):: S-bohPhe or Phe DALIVAAVCK (50% 8Å match)
Stachelhaus code match:: 70% (weak)

BN2762_RS07480: mal

PKS_AT (546..836): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 83.3%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 175.2
inactive: 128.6
Methoxymalonyl-CoA: 68.4
Methylmalonyl-CoA: 47.1
Propionyl-CoA: 34.6
Isobutyryl-CoA: 33.4
Ethylmalonyl-CoA: 22.0
CHC-CoA: 18.2
Benzoyl-CoA: 15.8
2-Methylbutyryl-CoA: 14.6
fatty_acid: 11.9
Acetyl-CoA: 5.2
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

BN2762_RS07490: X

AMP-binding (512..906): 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:: AAAAFDASVLEAVLGSGGELNMYGPTEATIFATA
Nearest Stachelhaus code(s):: Val DALWMGGTFK (62% 8Å match); aIle DALVFGVVLK (56% 8Å match)
Stachelhaus code match:: 60% (weak)

BN2762_RS07495: X

AMP-binding (481..874): X

nrpys: Tyr, bOH-Tyr

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: Polar aromatic ring (Tyr, bOH-Tyr)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: TARYFDAFLSCTDCTLGGEVDEYGPTENSIVTTL
Nearest Stachelhaus code(s):: Tyr DALTTGEVVK (59% 8Å match)
Stachelhaus code match:: 70% (weak)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
ArcA	Repressor of carbon oxidation
GnfM	Regulator of nitrogen-fixation genes
LexA variant 3	Repressor of DNA damage response
MexT	Global virulence regulator
MogR	Repressor of flagellar motility genes
PsrA	Oleic acid responsive regulator
ToxT	Regulator of MSHA biosynthesis

NZ_LN884299.1 - Region 1 - lanthipeptide-class-ii

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Location: 157,797 - 180,850 nt. (total: 23,054 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

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

BN2762_RS08695: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: protease

BN2762_RS08690: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

Lyases: cyclase

BN2762_RS08670: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Translocases: transporter

BN2762_RS08610: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000504.5	0.63	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000500.5	0.56	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0001210.5	0.55	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000527.5	0.52	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001555.4	0.52	ribosomal	colicin V	Escherichia coli chi7122
BGC0002005.2	0.51	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0002698.2	0.50	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000502.5	0.50	ribosomal	cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7	Bacillus cereus
BGC0001407.5	0.50	ribosomal	bicereucin	Bacillus cereus SJ1
BGC0000588.5	0.49	ribosomal	microcin L	Escherichia coli

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000504.5	0.63	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000500.5	0.56	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0001210.5	0.55	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000527.5	0.52	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001555.4	0.52	ribosomal	colicin V	Escherichia coli chi7122
BGC0002005.2	0.51	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0002698.2	0.50	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000502.5	0.50	ribosomal	cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7	Bacillus cereus
BGC0001407.5	0.50	ribosomal	bicereucin	Bacillus cereus SJ1
BGC0000588.5	0.49	ribosomal	microcin L	Escherichia coli

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for BN2762_RS08670

BN2762_RS08660

Leader:

MTHEEIKLMNQSCGSGLKSLSMEEMQNIYGA

Core:

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

Core with dehydrations:

DhaDVDPRADhbPDhbIVADhaIIRDhaVAQDhaDhaKVCysIDhaAVGDhaAIDhaGIVDhaNNKNCysLG

antiSMASH-DB 4.0 matches for BN2762_RS08660

100.0%

NZ_LN884299.1:

Lanthipeptides: BN2762_RS08660_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

71.7%

NZ_LWAG01000079.1:

Lanthipeptides: A4R27_RS25230_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

SDVDPR TP A+I S A+SSK+CISAVGSAI GIVS NKNC G

1

SDVDPRWTPIASAAI-NSAARSSKICISAVGSAIGGIVSYNKNCAG

45

65.2%

NZ_CP041405.1:

Lanthipeptides: FLT43_RS14400_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

SDV+PRATPTIV +I +V SSKVC+S V SAI GI S+N +CLG

1

SDVEPRATPTIVPAISAAVRTSSKVCLSLVASAIGGIASHNNDCLG

46

with 59 more sequence matches

Only the first 10 are displayed here.

65.2%

NZ_CP094446.1:

Lanthipeptides: L3476_RS23825_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

SDV+PR TP A+I+ +V +SSK CISA+GSAISGI+S+NK+CLG

1

SDVEPRGTP---ATIVSAVTRSSKPCISAIGSAISGIISHNKDCLG

43

60.9%

NZ_JACSNF010000005.1and 1 other:

NZ_LMPR01000013.1 Lanthipeptides: ASF99_RS16390_lanthipeptide

Lanthipeptides: KNQ12_RS14665_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

SDVDPR TP +++ + RS+ +S+K CI A SAISGIVS+NK+CLG

1

SDVDPRWTP-VISLVARSIVKSTKACIGAGASAISGIVSHNKDCLG

45

56.5%

NZ_CP026035.1:

Lanthipeptides: C2H96_RS00305_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+D DPR TP V++++ +V +S+++CIS +GSAISGIVS+NK+CLG

1

ADADPRWTPA-VSAVLSAVGRSTRLCISGIGSAISGIVSHNKDCLG

45

56.5%

NZ_JAMYJM010000002.1:

Lanthipeptides: NKE69_RS04880_lanthipeptide

4

DPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+PR TPT I++S SSKVCISAV S I GIVS N +CLG

5

EPRWTPTPF--ILKSATASSKVCISAVVSGIGGIVSYNNDCLG

45

54.3%

NC_003028.3and 39 others:

NC_003098.1 Lanthipeptides: SPR_RS08860_lanthipeptideNC_011900.1 Lanthipeptides: SPN23F_RS10045_lanthipeptideNC_012466.1 Lanthipeptides: SPJ_RS09630_lanthipeptideNZ_CFDV01000030.1 Lanthipeptides: AQB43_RS08315_lanthipeptideNZ_CFVJ01000005.1 Lanthipeptides: AP598_RS03270_lanthipeptideNZ_CGGJ01000006.1 Lanthipeptides: AP607_RS03210_lanthipeptideNZ_CHVQ01000007.1 Lanthipeptides: AQF85_RS04280_lanthipeptideNZ_CJZM01000008.1 Lanthipeptides: AEE29_RS04150_lanthipeptideNZ_CLHL01000007.1 Lanthipeptides: AE723_RS05755_lanthipeptideNZ_CMIW01000004.1 Lanthipeptides: AD046_RS04070_lanthipeptideNZ_CP035253.1 Lanthipeptides: EQH27_RS09735_lanthipeptideNZ_CP082820.1 Lanthipeptides: K8B76_RS08860_lanthipeptideNZ_CPRX01000013.1 Lanthipeptides: AEE77_RS05815_lanthipeptideNZ_CPTT01000011.1 Lanthipeptides: AEH42_RS06005_lanthipeptideNZ_CRAW01000006.1 Lanthipeptides: AK725_RS04390_lanthipeptideNZ_CRXO01000010.1 Lanthipeptides: AKU38_RS05255_lanthipeptideNZ_FCRW01000008.1 Lanthipeptides: A1N73_RS07430_lanthipeptideNZ_FDDE01000015.1 Lanthipeptides: A1A23_RS09710_lanthipeptideNZ_FDFR01000008.1 Lanthipeptides: A1O50_RS09315_lanthipeptideNZ_FDGF01000009.1 Lanthipeptides: A0899_RS06590_lanthipeptideNZ_FDQP01000009.1 Lanthipeptides: A1S42_RS08045_lanthipeptideNZ_FECM01000008.1 Lanthipeptides: A1930_RS06470_lanthipeptideNZ_FEEQ01000001.1 Lanthipeptides: A1T31_RS01150_lanthipeptideNZ_FEOS01000003.1 Lanthipeptides: A1178_RS03090_lanthipeptideNZ_FFTU01000009.1 Lanthipeptides: A1K37_RS06340_lanthipeptideNZ_FHRS02000028.1 Lanthipeptides: A1898_RS09825_lanthipeptideNZ_FIXQ01000010.1 Lanthipeptides: AZ721_RS04795_lanthipeptideNZ_FZDX01000018.1 Lanthipeptides: CFW91_RS09485_lanthipeptideNZ_FZEI01000008.1 Lanthipeptides: CFW58_RS06405_lanthipeptideNZ_JACVHZ010000010.1 Lanthipeptides: ICJ99_RS03885_lanthipeptideNZ_JAGFAE010000038.1 Lanthipeptides: J5E60_RS09010_lanthipeptideNZ_LR216014.1 Lanthipeptides: E0F05_RS09380_lanthipeptideNZ_LR216019.1 Lanthipeptides: E0E94_RS09630_lanthipeptideNZ_LR216027.1 Lanthipeptides: E0E81_RS09200_lanthipeptideNZ_LR216049.1 Lanthipeptides: E0E96_RS09535_lanthipeptideNZ_LR216064.1 Lanthipeptides: E0F31_RS09520_lanthipeptideNZ_LR536843.1 Lanthipeptides: E0F34_RS09595_lanthipeptideNZ_NANQ01000003.1 Lanthipeptides: B5K28_RS01930_lanthipeptideNZ_NAOJ01000022.1 Lanthipeptides: B5K31_RS08010_lanthipeptide

Lanthipeptides: SP_RS09790_lanthipeptide

4

DPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+PR TPT + I++S A SSKVCISA S I G+VS N +CLG

5

EPRWTPTPI--ILKSAAASSKVCISAAVSGIGGLVSYNNDCLG

45

54.3%

NZ_JALDUX010000010.1:

Lanthipeptides: M1F92_RS09530_lanthipeptide

4

DPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+PR TPT + I++S A SSKVCISA+ S I G+VS N +CLG

5

EPRWTPTPL--ILKSAAASSKVCISALVSGIGGLVSYNNDCLG

45

54.3%

NZ_KB976303.1and 1 other:

NZ_KB976303.1 Lanthipeptides: IGY_RS26035_lanthipeptide

Lanthipeptides: IGY_RS26045_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

S VD R PT+ I+ S A SSK C+S V SAISG++S NK+C+G

1

SGVDTRTHPTV---IVVSRA-SSKACMSGV-SAISGLLSYNKDCIG

41

52.2%

NZ_CP035244.1and 3 others:

NZ_CPPE01000023.1 Lanthipeptides: AD654_RS06870_lanthipeptideNZ_FHJP02000011.1 Lanthipeptides: A1O79_RS07380_lanthipeptideNZ_LR216016.1 Lanthipeptides: E0F10_RS10155_lanthipeptide

Lanthipeptides: EQH36_RS09100_lanthipeptide

4

DPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+PR TPT + I++S A SSK+CISA S I G+VS N +CLG

5

EPRWTPTPI--ILKSAAASSKICISAAVSGIGGLVSYNNDCLG

45

52.2%

NZ_KN125582.1:

Lanthipeptides: DJ91_RS27550_lanthipeptide

1

SDVDPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

S VD R PT+ I+ S S+K C S + SAISG+VS NK+CLG

1

SGVDTRTHPTV---IVVSRISSAK-CASTI-SAISGLVSYNKDCLG

41

52.2%

NZ_MRXY01000010.1:

Lanthipeptides: BTU63_RS06300_lanthipeptide

4

DPRATPTIVASIIRSVAQSSKVCISAVGSAISGIVSNNKNCLG

46

+P TPT +I++S A+SSKVCISA+ S I GI S N +CLG

5

EPLWTPT--PTILKSAARSSKVCISAIISGIGGIFSYNNDCLG

45

BN2762_RS08665

Leader:

MNNSLEQSPVGKSLKSLPKEEMAAIFGG

Core:

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

Core with dehydrations:

DhbGMDAEVRDhaDhbLLCysGMGIDhaFVADhaYLADhaAAFKCysGKDNKN

antiSMASH-DB 4.0 matches for BN2762_RS08665

100.0%

NZ_LN884299.1:

Lanthipeptides: BN2762_RS08665_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

37

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

37

81.1%

NZ_CP041405.1:

Lanthipeptides: FLT43_RS14405_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

37

GMD EVRS+L+CG GIS+VASYLASAAFKCGK NKN

1

NGMDVEVRSSLVCGAGISYVASYLASAAFKCGKKNKN

37

76.3%

NZ_LWAG01000079.1:

Lanthipeptides: A4R27_RS25235_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

+GMDAE RSTL+CG GIS + SYLASAAFKCGKDNK

1

SGMDAEARSTLICGAGISLIGSYLASAAFKCGKDNK

36

with 22 more sequence matches

Only the first 10 are displayed here.

75.7%

NZ_CP094446.1:

Lanthipeptides: L3476_RS23820_lanthipeptide

2

GMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNKN

37

GMD EVRSTL+CG+G SF+ SYLASAAFKCGK NK

2

GMDVEVRSTLICGVGASFIGSYLASAAFKCGKKNKK

37

64.9%

NZ_CP026035.1:

Lanthipeptides: C2H96_RS00310_lanthipeptide

2

GMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

G DA+VRST +C GISF+A+YL SAA CGKDNK

2

GADADVRSTPICSAGISFIATYLGSAATNCGKDNK

36

59.5%

NZ_JACSNF010000005.1and 1 other:

NZ_LMPR01000013.1 Lanthipeptides: ASF99_RS16385_lanthipeptide

Lanthipeptides: KNQ12_RS14670_lanthipeptide

4

DAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

D +VRS+L+C +SFV SYLASA KCGKDNK

3

DVDVRSSLVCSALLSFVGSYLASAGLKCGKDNK

35

55.3%

NZ_CP084237.1:

Lanthipeptides: RES5_RS11640_lanthipeptide

4

DAEVRSTLLCGMGISFVAS----YLASAAFKCGKDNKN

37

+ E+R T G+ SFVA+ Y ASAAFKCGKDNK

2

EVELRGTPTIGIA-SFVATIPTGYTASAAFKCGKDNKK

38

54.1%

NZ_JACSPZ010000014.1:

Lanthipeptides: H9635_RS18395_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

TG + + +ST LC SF+ASY+ SA FKCG DNK

1

TGSEIQPQSTPLC----SFLASYIISAQFKCGGDNK

32

54.1%

NZ_NVMQ01000017.1:

Lanthipeptides: CON32_RS17790_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

+G+D + L SFVASY+ASA FKCGKDNK

1

SGVDPRTTPSPLLA---SFVASYIASAEFKCGKDNK

33

51.4%

NC_003028.3and 45 others:

NC_003098.1 Lanthipeptides: SPR_RS08865_lanthipeptideNC_011900.1 Lanthipeptides: SPN23F_RS10050_lanthipeptideNC_012466.1 Lanthipeptides: SPJ_RS09635_lanthipeptideNZ_CFDV01000030.1 Lanthipeptides: AQB43_RS08320_lanthipeptideNZ_CFVJ01000005.1 Lanthipeptides: AP598_RS03265_lanthipeptideNZ_CGGJ01000006.1 Lanthipeptides: AP607_RS03205_lanthipeptideNZ_CHVQ01000007.1 Lanthipeptides: AQF85_RS04285_lanthipeptideNZ_CJZM01000008.1 Lanthipeptides: AEE29_RS04155_lanthipeptideNZ_CLHL01000007.1 Lanthipeptides: AE723_RS05750_lanthipeptideNZ_CMIW01000004.1 Lanthipeptides: AD046_RS04075_lanthipeptideNZ_CMKL01000017.1 Lanthipeptides: AD734_RS09110_lanthipeptideNZ_CP035244.1 Lanthipeptides: EQH36_RS09105_lanthipeptideNZ_CP035253.1 Lanthipeptides: EQH27_RS09740_lanthipeptideNZ_CP082820.1 Lanthipeptides: K8B76_RS08865_lanthipeptideNZ_CPPE01000023.1 Lanthipeptides: AD654_RS06875_lanthipeptideNZ_CPRX01000013.1 Lanthipeptides: AEE77_RS05820_lanthipeptideNZ_CPTT01000011.1 Lanthipeptides: AEH42_RS06000_lanthipeptideNZ_CRAW01000006.1 Lanthipeptides: AK725_RS04395_lanthipeptideNZ_CRXO01000010.1 Lanthipeptides: AKU38_RS05260_lanthipeptideNZ_FCRW01000008.1 Lanthipeptides: A1N73_RS07425_lanthipeptideNZ_FDDE01000015.1 Lanthipeptides: A1A23_RS09705_lanthipeptideNZ_FDFR01000008.1 Lanthipeptides: A1O50_RS09320_lanthipeptideNZ_FDGF01000009.1 Lanthipeptides: A0899_RS06595_lanthipeptideNZ_FDQP01000009.1 Lanthipeptides: A1S42_RS08050_lanthipeptideNZ_FECM01000008.1 Lanthipeptides: A1930_RS06475_lanthipeptideNZ_FEEQ01000001.1 Lanthipeptides: A1T31_RS01145_lanthipeptideNZ_FEOS01000003.1 Lanthipeptides: A1178_RS03085_lanthipeptideNZ_FFTU01000009.1 Lanthipeptides: A1K37_RS06335_lanthipeptideNZ_FHJP02000011.1 Lanthipeptides: A1O79_RS07375_lanthipeptideNZ_FHRS02000028.1 Lanthipeptides: A1898_RS09820_lanthipeptideNZ_FIXQ01000010.1 Lanthipeptides: AZ721_RS04790_lanthipeptideNZ_FZDX01000018.1 Lanthipeptides: CFW91_RS09480_lanthipeptideNZ_FZEI01000008.1 Lanthipeptides: CFW58_RS06410_lanthipeptideNZ_JACVHZ010000010.1 Lanthipeptides: ICJ99_RS03880_lanthipeptideNZ_JAGFAE010000038.1 Lanthipeptides: J5E60_RS09005_lanthipeptideNZ_JALDUX010000010.1 Lanthipeptides: M1F92_RS09535_lanthipeptideNZ_JAMYJM010000002.1 Lanthipeptides: NKE69_RS04885_lanthipeptideNZ_LR216014.1 Lanthipeptides: E0F05_RS09385_lanthipeptideNZ_LR216016.1 Lanthipeptides: E0F10_RS10160_lanthipeptideNZ_LR216019.1 Lanthipeptides: E0E94_RS09635_lanthipeptideNZ_LR216027.1 Lanthipeptides: E0E81_RS09205_lanthipeptideNZ_LR216049.1 Lanthipeptides: E0E96_RS09540_lanthipeptideNZ_LR216064.1 Lanthipeptides: E0F31_RS09525_lanthipeptideNZ_LR536843.1 Lanthipeptides: E0F34_RS09600_lanthipeptideNZ_NANQ01000003.1 Lanthipeptides: B5K28_RS01935_lanthipeptide

Lanthipeptides: SP_RS09795_lanthipeptide

5

AEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

A+ RST++C +SF+ASYL SA +CGKDNK

4

ADPRSTIICSATLSFIASYLGSAQTRCGKDNK

35

51.4%

NZ_FNYB01000021.1:

Lanthipeptides: BMZ34_RS24355_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

+G+D + L SFVASY+ASA F+CGKDNK

1

SGVDPRTTPSPLLA---SFVASYIASAEFRCGKDNK

33

51.4%

NZ_KB976303.1:

Lanthipeptides: IGY_RS26050_lanthipeptide

1

TGMDAEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

+G+D + L SFVASY+ASA F+CGKDNK

1

SGVDPRTTPSPLLA---SFVASYIASAQFRCGKDNK

33

51.4%

NZ_NAOJ01000022.1:

Lanthipeptides: B5K31_RS08015_lanthipeptide

5

AEVRSTLLCGMGISFVASYLASAAFKCGKDNK

36

A+ RST +C +SF+ASYL SA +CGKDNK

4

ADPRSTTICSATLSFIASYLGSAQTRCGKDNK

35

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.08 out of 23.79

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.01 out of 26.06

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.46 out of 24.78

Confidence: medium

Additional weak hits (2):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.76 out of 23.43

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

BN2762_RS08660 - Class II

Cleavage pHMM score: 3.00

RODEO score: 0

Monoisotopic mass: 4386.4 Da

Molecular weight: 4389.0 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 4407.0 Da N = 1; 4425.0 Da N = 2; 4443.0 Da N = 3; 4461.1 Da N = 4; 4479.1 Da N = 5; 4497.1 Da N = 6; 4515.1 Da N = 7; 4533.1 Da N = 8; 4551.2 Da N = 9

BN2762_RS08665 - Class II

Cleavage pHMM score: 2.50

RODEO score: 0

Monoisotopic mass: 3746.8 Da

Molecular weight: 3749.3 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3767.3 Da N = 1; 3785.3 Da N = 2; 3803.4 Da N = 3; 3821.4 Da N = 4

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
LexA variant 2	Repressor of DNA damage response
MogR	Repressor of flagellar motility genes

NZ_LN884299.1 - Region 2 - NRPS

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Location: 988,532 - 1,031,687 nt. (total: 43,156 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

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

Ligases: ligase

BN2762_RS12155: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.65	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.65	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001833.4	0.65	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001240.4	0.64	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.65	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.65	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001833.4	0.65	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001240.4	0.64	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

AfsR

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

Confidence: medium

CRP

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

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.67 out of 20.97

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 22.16 out of 24.78

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.83 out of 28.19

Confidence: medium

Additional weak hits (9):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.06 out of 31.73

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.61 out of 30.11

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.34 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.34 out of 29.25

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.22 out of 28.14

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 22.70 out of 33.73

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.88 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.68 out of 28.14

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.95 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 2, location 988531 - 1031687:

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

Polymer prediction:: (Ile)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS12155: Ile

Search NORINE for peptide: strict or relaxed

AMP-binding (468..863): Ile

nrpys: Ile

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:: ile (Ile)

Stachelhaus prediction details:

Stachelhaus sequence:: LGASFDGSTFDNFMFFGGEYHIYGPTECTVYAAY
Nearest Stachelhaus code(s):: Ile DGFFFGVVYK (68% 8Å match)
Stachelhaus code match:: 90% (moderate)

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
CcpA	Catabolite control protein A
LexA variant 2	Repressor of DNA damage response
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 3 - terpene-precursor

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Location: 1,617,329 - 1,638,183 nt. (total: 20,855 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

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

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

Transferases: carboxylase

BN2762_RS14690: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: synthase synthetase

BN2762_RS14730: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

BN2762_RS14735: 1-deoxy-D-xylulose-5-phosphate synthase

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

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0002397.2	0.47	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.39	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002284.3	0.38	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001594.3	0.37	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0001501.5	0.36	other (other)	ambiguine P	Fischerella sp. TAU
BGC0000666.5	0.36	terpene	xiamycin A	Streptomyces sp. SCSIO 02999

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0002397.2	0.47	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.39	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002284.3	0.38	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001594.3	0.37	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0001501.5	0.36	other (other)	ambiguine P	Fischerella sp. TAU
BGC0000666.5	0.36	terpene	xiamycin A	Streptomyces sp. SCSIO 02999

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor		FPP	C15	acyclic	PP

Genes with terpene domains:

BN2762_RS14730: PT_FPPS_like

Domain 1 (19 - 283): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:: DMAPP, IPP → FPP

Transcription Factor Binding Sites

Binding sites found:

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 23.25 out of 25.31

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

RpoN

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

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.17 out of 27.78

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.49 out of 27.78

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.55 out of 27.78

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.50 out of 24.78

Confidence: medium

Additional weak hits (10):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.93 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.04 out of 26.06

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.15 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.88 out of 29.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.28 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.53 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.78 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.84 out of 28.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.21 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.73 out of 29.65

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 2	Repressor of DNA damage response
RpoN	Regulator of nitrogen assimilation and virulence
ToxT	Regulator of MSHA biosynthesis

NZ_LN884299.1 - Region 4 - cyclic-lactone-autoinducer

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Location: 1,847,769 - 1,868,409 nt. (total: 20,641 nt) Show pHMM detection rules used

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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

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: oxidoreductase oxygenase

BN2762_RS15840: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

BN2762_RS15845: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0000846.5	0.41	other (other)	tabtoxin	Pseudomonas syringae
BGC0001940.3	0.39	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0001864.3	0.39	ribosomal	listeriocytocin	Listeria monocytogenes SLCC2540
BGC0001684.3	0.37	other (other)	N-acyloxyacyl glutamine	Klebsiella variicola
BGC0002289.2	0.37	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
BGC0000043.5	0.36	PKS	curacin A	Moorea producens 19L
BGC0002509.3	0.36	NRPS	montamide A, capsimycin, clifednamide A, frontalamide A, combamide A	Streptomyces sp.
BGC0000632.5	0.36	saccharide, terpene	brasilicardin A	Nocardia terpenica
BGC0002470.2	0.34	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0000846.5	0.41	other (other)	tabtoxin	Pseudomonas syringae
BGC0001940.3	0.39	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0001864.3	0.39	ribosomal	listeriocytocin	Listeria monocytogenes SLCC2540
BGC0001684.3	0.37	other (other)	N-acyloxyacyl glutamine	Klebsiella variicola
BGC0002289.2	0.37	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
BGC0000043.5	0.36	PKS	curacin A	Moorea producens 19L
BGC0002509.3	0.36	NRPS	montamide A, capsimycin, clifednamide A, frontalamide A, combamide A	Streptomyces sp.
BGC0000632.5	0.36	saccharide, terpene	brasilicardin A	Nocardia terpenica
BGC0002470.2	0.34	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

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

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.54 out of 27.78

Confidence: medium

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.83 out of 28.14

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.06 out of 27.78

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.67 out of 28.19

Confidence: medium

Additional weak hits (13):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.25 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.78 out of 30.25

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.79 out of 36.54

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.82 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.61 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.04 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.00 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.47 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.34 out of 26.06

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.43 out of 39.62

Confidence: weak

ZuR variant 2

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

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.09 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.42 out of 33.14

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
PerR	Peroxide regulator
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 5 - NRPS,T3PKS

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Location: 2,125,276 - 2,215,578 nt. (total: 90,303 nt) Show pHMM detection rules used

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

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 oxidoreductase oxygenase

BN2762_RS17110: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

BN2762_RS17125: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BN2762_RS17295: oxidoreductase

smcogs: SMCOG1161: oxidoreductase

BN2762_RS17360: dihydropteridine reductase

smcogs: SMCOG1159: dihydropteridine reductase

BN2762_RS17395: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase kinase methyltransferase phosphotransferase

BN2762_RS17100: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

BN2762_RS17105: Glucose-specific phosphotransferase enzyme IIA

smcogs: SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

BN2762_RS17215: methyltransferase

smcogs: SMCOG1089: methyltransferase

BN2762_RS17350: methyltransferase

smcogs: SMCOG1089: methyltransferase

BN2762_RS17370: Chloramphenicol acetyltransferase

smcogs: SMCOG1156: Chloramphenicol acetyltransferase

Hydrolases: peptidase

BN2762_RS17340: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

Lyases: dehydratase

BN2762_RS17380: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase

BN2762_RS17135: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BN2762_RS17305: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

BN2762_RS17310: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS17320: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001132.4	1.08	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	1.04	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	1.04	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	1.03	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0002286.3	1.02	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	1.00	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.99	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0000342.4	0.99	NRPS	enniatin	Fusarium equiseti
BGC0002075.3	0.98	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001758.4	0.97	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.75	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.74	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.73	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.72	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.71	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.71	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001261.3	0.69	NRPS	AM-toxin	Alternaria alternata
BGC0002135.2	0.69	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004

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

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.70 out of 27.78

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.21 out of 27.78

Confidence: medium

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.63 out of 18.46

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.68 out of 27.78

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.30 out of 28.19

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.48 out of 28.19

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.15 out of 24.78

Confidence: medium

Additional weak hits (20):

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.99 out of 20.01

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 22.23 out of 33.73

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.04 out of 31.73

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.19 out of 26.85

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.32 out of 29.38

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 21.71 out of 33.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.96 out of 30.22

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.17 out of 32.74

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 28.27 out of 39.62

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.06 out of 29.38

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.66 out of 25.75

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.40 out of 31.73

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.64 out of 24.78

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.73 out of 28.14

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.96 out of 29.25

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.50 out of 32.93

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 25.24 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.41 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.58 out of 28.14

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.33 out of 27.18

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 5, location 2125275 - 2215578:

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

Polymer prediction:: (D-X - Val) + (Val) + (Asp)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 6, location 2125275 - 2169544:

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

Polymer prediction:: (Asp)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 2161391 - 2202546:

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

Polymer prediction:: (D-X - Val) + (Val)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 8, location 2162732 - 2215578:

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

Polymer prediction:: (D-X - Val) + (Val)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS17135: Asp

Search NORINE for peptide: strict or relaxed

AMP-binding (568..968): 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:: YGVQVDSCQTVPKIILGGEYNHYGPTETTVGIST
Nearest Stachelhaus code(s):: Asp DLTKIGHVGK (74% 8Å match)
Stachelhaus code match:: 90% (moderate)

BN2762_RS17310: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (25..418): Val

nrpys: Val

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LNCGFDASTFEGFLLVGGEMNGYGPTENTTFSTV
Nearest Stachelhaus code(s):: Ile DAFFLGITFK (88% 8Å match); Val DAFWLGGTFK (85% 8Å match)
Stachelhaus code match:: 90% (moderate)

BN2762_RS17320: X - Val

Search NORINE for peptide: strict or relaxed

AMP-binding (254..663): 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:: LYLAFDASVYEGMLVSAGELNAYGPTEVTIICSV
Nearest Stachelhaus code(s):: Phe DAWTVAAICK (65% 8Å match); Ph-Ser or Phe DAFTVAAIWK (62% 8Å match); Val DAWMFAAILK (53% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1782..2190): Val

nrpys: Val

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LHTGFDASTFEGWLLVGGELNVYGPTENTTFSTS
Nearest Stachelhaus code(s):: Val DAFWLGGTFK (85% 8Å match); Ile DAFFLGVTFK (76% 8Å match)
Stachelhaus code match:: 90% (moderate)

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 2	Repressor of DNA damage response
RpoN	Regulator of nitrogen assimilation and virulence
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 6 - NRPS

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Location: 2,315,911 - 2,426,579 nt. (total: 110,669 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

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: synthase

BN2762_RS17860: riboflavin biosynthesis protein RibD

smcogs: SMCOG1240: riboflavin biosynthesis protein RibD

Hydrolases: esterase synthase

BN2762_RS17860: riboflavin biosynthesis protein RibD

smcogs: SMCOG1240: riboflavin biosynthesis protein RibD

BN2762_RS17950: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: cyclase

BN2762_RS17855: diguanylate cyclase

smcogs: SMCOG1025: diguanylate cyclase

Ligases: ligase

BN2762_RS17915: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BN2762_RS17920: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS17925: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS17935: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS17940: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS17945: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.74	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001758.4	0.74	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001133.4	0.73	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0001641.4	0.73	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.73	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001135.5	0.72	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.71	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.71	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.74	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001758.4	0.74	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001133.4	0.73	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0001641.4	0.73	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.73	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001135.5	0.72	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.71	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.71	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.99 out of 29.38

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.22 out of 18.57

Confidence: strong

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.19 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.95 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.84 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.86 out of 29.38

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.59 out of 27.78

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.46 out of 27.78

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 24.23 out of 28.19

Confidence: medium

Additional weak hits (20):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.99 out of 32.74

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.35 out of 29.25

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.02 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.21 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.55 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.51 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.42 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.88 out of 28.14

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 25.77 out of 36.54

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.61 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.41 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.88 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.12 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.74 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 21.31 out of 31.73

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 24.73 out of 30.97

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 24.13 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.52 out of 36.54

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.24 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 22.70 out of 33.14

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 9, location 2315910 - 2426579:

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

Polymer prediction:: (fatty_acid - Thr - D-Ala) + (Val - Leu - Tyr - D-Leu) + (Leu - Val - D-X) + (Leu - Ala - D-Thr) + (Val - X - D-Ala) + (Orn - Ala - X)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS17915: Orn - Ala - X

Search NORINE for peptide: strict or relaxed

AMP-binding (469..871): Orn

nrpys: Orn

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: Orn and hydroxy-Orn specific (Orn, OH-Orn)
Single AA prediction:: orn (Orn)

Stachelhaus prediction details:

Stachelhaus sequence:: AAWAFDVFAGDRESILGSDINSYGVTEACIDSSY
Nearest Stachelhaus code(s):: Orn DVGEIGSIDK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1518..1913): 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:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: VSLTFDVSVTEGNFLIAGEENIYGPTEGTIYATK
Nearest Stachelhaus code(s):: Ala DVANFAIIYK (82% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (2559..2950): X

nrpys: Asp, Asn, Glu, Gln, Aad

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:: LWFTFDVSVLEVQFISGGDFNHYGPTETTVDVLH
Nearest Stachelhaus code(s):: Orn DVGEIGSVDK (38% 8Å match)
Stachelhaus code match:: 70% (weak)

BN2762_RS17920: Val - X - Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (473..869): Val

nrpys: Val

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LNTGFDASTLEGFLMVGGDVNGYGPTENTTFSTT
Nearest Stachelhaus code(s):: Val DALWMGGTFK (85% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (1521..1923): X

nrpys: Ile, Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LNTGFDASTLEGFLMVGGDLNVYGPTENTTFSTS
Nearest Stachelhaus code(s):: Leu or Ile DALFMGATFK (74% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (2575..2970): 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:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: IALTFDVSVSEGNFFVAGEENIYGPTEGTIYATR
Nearest Stachelhaus code(s):: Ala DVANFAIIYK (88% 8Å match)
Stachelhaus code match:: 90% (moderate)

BN2762_RS17925: Leu - Ala - Thr

Search NORINE for peptide: strict or relaxed

AMP-binding (470..858): Leu

nrpys: Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LWHAFDASVWEPFLLTGGEVNNYGPTESTVVATS
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1502..1897): 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:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: IALTFDVSVSEGNFFVAGEENIYGPTEGTIYATR
Nearest Stachelhaus code(s):: Ala DVANFAIIYK (88% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (2541..2940): Thr

nrpys: Thr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LASHFDFSVWEGNIIFGGEVNMYGITETTVHVTY
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

BN2762_RS17935: Leu - Val - X

Search NORINE for peptide: strict or relaxed

AMP-binding (465..885): Leu

nrpys: Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LWHAFDASVWEPFLLTGGDVNNYGPTENTVVTTS
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1549..1942): Val

nrpys: Val

SVM prediction details:

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

Stachelhaus prediction details:

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

AMP-binding (2604..2993): X

nrpys: Asp, Asn, Glu, Gln, Aad

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:: LWFTFDVVIEEGQFICGGEFNHYGPTETTVDALR
Nearest Stachelhaus code(s):: Trp DVSQIGAVCK (59% 8Å match); Lys or Arg DVEDIGSVAK (56% 8Å match)
Stachelhaus code match:: 70% (weak)

BN2762_RS17940: Val - Leu - Tyr - Leu

Search NORINE for peptide: strict or relaxed

AMP-binding (472..865): Val

nrpys: Val

SVM prediction details:

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

Stachelhaus prediction details:

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

AMP-binding (1533..1953): Leu

nrpys: Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LWHAFDASVWEPFLLTGGDVNNYGPTENTVVTTS
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2622..3028): Tyr

nrpys: Tyr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: AWRFFDGFVLSTICTLAGDVNEYGPTENSVVASC
Nearest Stachelhaus code(s):: Tyr DGTITAEVAK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (3674..4094): Leu

nrpys: Leu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LWHAFDASVWEPFLLTGGDVNNYGPTENTVVTTS
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

BN2762_RS17945: fatty_acid - Thr - Ala

Search NORINE for peptide: strict or relaxed

CAL_domain (256..564): fatty_acid

minowa: fatty_acid

Prediction, score:

fatty_acid: 29.4
AHBA: 14.8
Acetyl-CoA: 9.3
shikimic_acid: 0.0
NH2: 0.0

AMP-binding (1792..2191): Thr

nrpys: Thr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LNDHFDFSVWEGNQIFGGEINMYGITETAVHVTF
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2865..3263): 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:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LALTFDVSVTEGNFFVAGEENIYGPTEVTVYATK
Nearest Stachelhaus code(s):: Ala DVANFAIIYK (85% 8Å match)
Stachelhaus code match:: 80% (moderate)

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1	Ferric Uptake Regulator
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 7 - NRP-metallophore,NRPS

Download region SVG

Location: 2,749,140 - 2,801,501 nt. (total: 52,362 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

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: dehydrogenase

BN2762_RS19645: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase methyltransferase

BN2762_RS19670: methyltransferase

smcogs: SMCOG1248: methyltransferase

BN2762_RS19675: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: dehalogenase hydrolase

BN2762_RS19585: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

BN2762_RS19630: isochorismatase

smcogs: SMCOG1027: isochorismatase

Isomerases: isomerase

BN2762_RS19640: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase

BN2762_RS19625: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BN2762_RS26240: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000401.5	1.06	NRPS	paenibactin	Paenibacillus elgii B69
BGC0001185.5	1.01	NRPS	bacillibactin	Bacillus velezensis FZB42
BGC0000309.5	1.01	NRPS	bacillibactin	Bacillus subtilis subsp. subtilis str. 168
BGC0002075.3	0.87	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0000343.5	0.87	NRPS	enterobactin	Pseudomonas sp. J465
BGC0001132.4	0.78	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.75	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.75	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.73	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000401.5	0.80	NRPS	paenibactin	Paenibacillus elgii B69
BGC0001185.5	0.79	NRPS	bacillibactin	Bacillus velezensis FZB42
BGC0000309.5	0.79	NRPS	bacillibactin	Bacillus subtilis subsp. subtilis str. 168
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0000343.5	0.74	NRPS	enterobactin	Pseudomonas sp. J465
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.69	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

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 16.59 out of 18.57

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.13 out of 23.79

Confidence: medium

FuR variant 1

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

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.84 out of 27.78

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.22 out of 29.38

Confidence: medium

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 28.01 out of 32.74

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.99 out of 29.38

Confidence: medium

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 16.86 out of 18.57

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 25.16 out of 28.19

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19

Confidence: medium

CatR

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

Confidence: medium

AfsR

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

Confidence: medium

Additional weak hits (33):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.22 out of 26.06

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 26.33

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.12 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.15 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.68 out of 31.73

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.72 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.83 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.96 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.72 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.93 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.00 out of 29.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.46 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.27 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.01 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.71 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.52 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.07 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.54 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.31 out of 28.14

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.89 out of 30.25

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.71 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.19 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.45 out of 26.06

Confidence: weak

MexT

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

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.86 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.24 out of 26.06

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.60 out of 30.98

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.22 out of 28.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 25.52 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 22.99 out of 33.14

Confidence: weak

HypR

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

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 10, location 2749139 - 2801501:

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

Polymer prediction:: (Ala - Thr)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS19625: Ala - Thr

Search NORINE for peptide: strict or relaxed

AMP-binding (466..868): Ala

nrpys: Ala

SVM prediction details:

Predicted physicochemical class:: N/A
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:: gly (Gly)

Stachelhaus prediction details:

Stachelhaus sequence:: LDMTFDISVLELQAIAGGENNQYGPTETTIYSTA
Nearest Stachelhaus code(s):: Ala DILQIGQIYK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1556..1972): Thr

nrpys: Thr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LATHFDFSVWEGNQIFGGEINMYGITETTVHVSY
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

BN2762_RS26240: diOH-Bz

Search NORINE for peptide: strict or relaxed

AMP-binding (31..526): diOH-Bz

nrpys: diOH-Bz

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: SLSLYPLSSPGGALQVGGAQQVFGMAEGLVNYTR
Nearest Stachelhaus code(s):: diOH-Bz PLPAQGVVNK (97% 8Å match); diOH-Bz or Sal PLPAQGVVNK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CatR	H2O2-responsive repressor
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1	Ferric Uptake Regulator
FuR variant 2	Ferric Uptake Regulator
IolR	Regulator of the inositol catabolism
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 8 - ranthipeptide

Download region SVG

Location: 2,821,946 - 2,843,364 nt. (total: 21,419 nt) Show pHMM detection rules used

ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or (YcaO or TIGR03604))))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

Transferases: acetyltransferase methyltransferase

BN2762_RS19835: methyltransferase

smcogs: SMCOG1089: methyltransferase

BN2762_RS19885: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.50	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000521.3	0.44	ribosomal	lacticin 481	Lactococcus lactis subsp. lactis
BGC0000539.5	0.44	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0001787.3	0.42	ribosomal	suicin 3908	Streptococcus suis
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0001210.5	0.41	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000547.5	0.41	ribosomal	salivaricin 9	Streptococcus salivarius
BGC0002700.2	0.41	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002005.2	0.40	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0000626.3	0.40	ribosomal	thuricin	Bacillus thuringiensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.50	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000521.3	0.44	ribosomal	lacticin 481	Lactococcus lactis subsp. lactis
BGC0000539.5	0.44	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0001787.3	0.42	ribosomal	suicin 3908	Streptococcus suis
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0001210.5	0.41	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000547.5	0.41	ribosomal	salivaricin 9	Streptococcus salivarius
BGC0002700.2	0.41	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002005.2	0.40	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0000626.3	0.40	ribosomal	thuricin	Bacillus thuringiensis

Similar known clusters from MIBiG 4.0

No significant matches found.

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: 18.15 out of 18.46

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.91 out of 26.06

Confidence: strong

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.16 out of 20.97

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.10 out of 27.78

Confidence: medium

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.82 out of 21.84

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.53 out of 28.19

Confidence: medium

Additional weak hits (2):

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 19.59 out of 30.12

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 19.72 out of 30.11

Confidence: weak

RREFinder

TFBS Finder

RRE predictions

: RRE type: Other_Sactipeptide_rSAM_RRE; Location: 4 - 110; Score: 37.4

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
MexT	Global virulence regulator
MogR	Repressor of flagellar motility genes
RpoN	Regulator of nitrogen assimilation and virulence
ZuR variant 1	Zinc-responsive repressor

NZ_LN884299.1 - Region 9 - NRPS,betalactone

Download region SVG

Location: 2,903,119 - 2,967,574 nt. (total: 64,456 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

BN2762_RS20345: alkyl hydroperoxide reductase/ Thiol specific

smcogs: SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

BN2762_RS20400: dihydropteridine reductase

smcogs: SMCOG1159: dihydropteridine reductase

Transferases: aminotransferase

BN2762_RS20330: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Hydrolases: hydrolase

BN2762_RS20210: hydrolase

smcogs: SMCOG1179: hydrolase

Ligases: ligase synthase

BN2762_RS20215: Pseudouridine synthase

smcogs: SMCOG1154: Pseudouridine synthase

BN2762_RS20255: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

BN2762_RS20305: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS20310: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BN2762_RS20315: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BN2762_RS20320: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.70	NRPS	enniatin	Fusarium equiseti
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.69	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	0.66	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.65	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.64	NRPS	HC-toxin	Alternaria jesenskae
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.69	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.67	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002164.2	0.66	NRPS	peramine	Epichloe festucae
BGC0000307.4	0.66	NRPS	AbT1	Aureobasidium pullulans
BGC0001240.4	0.66	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57

Confidence: strong

ToxT

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

Confidence: strong

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.14 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.70 out of 29.38

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.33 out of 24.78

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.38 out of 26.06

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.59 out of 28.19

Confidence: medium

AbrC3

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

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.24 out of 26.06

Confidence: medium

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 26.71 out of 33.14

Confidence: medium

Additional weak hits (20):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.60 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.15 out of 26.06

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.38 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.04 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.39 out of 28.14

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.48 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.83 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.77 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 27.14 out of 31.73

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 21.00 out of 31.73

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.05 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.28 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.29 out of 28.14

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 23.80 out of 30.97

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.56 out of 36.53

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.49 out of 36.54

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.68 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.22 out of 26.06

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.22 out of 33.14

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.97 out of 30.98

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 12, location 2903118 - 2967574:

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

Polymer prediction:: (Ile - D-X) + (D-Ser) + (Thr - D-Phe)

Direct lookup in NORINE database: strict or relaxed

NRPS/PKS substrate predictions

BN2762_RS20305: Thr - Phe

Search NORINE for peptide: strict or relaxed

AMP-binding (468..866): Thr

nrpys: Thr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LNSHFDFSVWEGNQIFGGEINMYGITETTVHVTY
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1510..1896): Phe

nrpys: Phe

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LVSSFDASVWEMTLVTGGEINAYGPTEATVCSTL
Nearest Stachelhaus code(s):: Phe DAWTVAAVCK (74% 8Å match)
Stachelhaus code match:: 90% (moderate)

BN2762_RS20310: Dab - X - Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (261..671): Dab

nrpys: Dab

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: Orn and hydroxy-Orn specific (Orn, OH-Orn)
Single AA prediction:: orn (Orn)

Stachelhaus prediction details:

Stachelhaus sequence:: TGYAFDVFVGDRESITSSDINSYGVTEAAIDSSL
Nearest Stachelhaus code(s):: Dab DVGEISSIDK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (792..1011): 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:: SALDMDASCQELHLTTNSRSVLYGAAGALIHAYY
Nearest Stachelhaus code(s):: Thr DAYNTGLIHK (32% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1580..1982): 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:: RWMTFDVSVWEMHFFTSGEYNLYGPTEATIDVSY
Nearest Stachelhaus code(s):: Ser DVWHFSLIDK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

BN2762_RS20320: Ile - X

Search NORINE for peptide: strict or relaxed

AMP-binding (252..648): Ile

nrpys: Ile

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:: ile (Ile)

Stachelhaus prediction details:

Stachelhaus sequence:: TNCSFDGSTFDGFILFGGEIHVYGPTETTVFATY
Nearest Stachelhaus code(s):: Ile DGFFLGVVFK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1291..1674): X

nrpys: Phe, Trp, Ph-Gly, Tyr, bOH-Tyr

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FIAAFDASVCEHILVTAGEVNGYGPTEATVGATL
Nearest Stachelhaus code(s):: Tyr DASTVAGVCK (56% 8Å match)
Stachelhaus code match:: 70% (weak)

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
FuR variant 1	Ferric Uptake Regulator
LexA variant 2	Repressor of DNA damage response
MogR	Repressor of flagellar motility genes
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor
ZuR variant 2	Zinc-responsive repressor

NZ_LN884299.1 - Region 10 - terpene-precursor