GCF_000017145.1 - 12 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_009636.1 (Sinorhizobium medicae WSM419 (Ensifer medicae WSM419))

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	T1PKS	197,291	244,793
Region 1.2	terpene	1,244,252	1,265,094
Region 1.3	hserlactone	1,644,170	1,664,814
Region 1.4	arylpolyene	1,799,350	1,840,552
Region 1.5	thioamitides	2,029,871	2,051,884
Region 1.6	azole-containing-RiPP	2,280,220	2,307,339
Region 1.7	2dos	2,638,242	2,672,640
Region 1.8	terpene-precursor	3,260,606	3,281,520	Low	polyhydroxyalkanoate	other:other

NC_009620.1 (Sinorhizobium medicae WSM419 (Ensifer medicae WSM419))

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	redox-cofactor	356,981	379,168

NC_009621.1 (Sinorhizobium medicae WSM419 (Ensifer medicae WSM419))

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	hserlactone	331,930	352,550
Region 3.2	lanthipeptide-class-ii,thioamitides	1,013,923	1,051,872

NC_009622.1 (Sinorhizobium medicae WSM419 (Ensifer medicae WSM419))

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 4.1	NRPS,hserlactone	98,254	191,847

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	T1PKS	197,291	244,793
Region 1.2	terpene	1,244,252	1,265,094
Region 1.3	hserlactone	1,644,170	1,664,814
Region 1.4	arylpolyene	1,799,350	1,840,552
Region 1.5	thioamitides	2,029,871	2,051,884
Region 1.6	azole-containing-RiPP	2,280,220	2,307,339
Region 1.7	2dos	2,638,242	2,672,640
Region 1.8	terpene-precursor	3,260,606	3,281,520	Low	polyhydroxyalkanoate	other:other
Region 2.1	redox-cofactor	356,981	379,168
Region 3.1	hserlactone	331,930	352,550
Region 3.2	lanthipeptide-class-ii,thioamitides	1,013,923	1,051,872
Region 4.1	NRPS,hserlactone	98,254	191,847

Compact view

NC_009636.1 - Region 1 - T1PKS

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Location: 197,291 - 244,793 nt. (total: 47,503 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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 oxidoreductase

SMED_RS00955: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

SMED_RS00980: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

SMED_RS00990: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Hydrolases: hydrolase

SMED_RS00930: alpha/beta hydrolase domain-containing protein

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

Ligases: synthase

SMED_RS00985: 8-amino-7-oxononanoate synthase

smcogs: SMCOG1109: 8-amino-7-oxononanoate synthase

Translocases: transporter

SMED_RS00935: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001273.3	0.66	PKS	asperlactone	Aspergillus ochraceus
BGC0002191.2	0.62	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000107.3	0.60	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002154.2	0.60	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.59	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0000037.4	0.59	PKS	cichorine	Aspergillus nidulans FGSC A4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001275.3	0.66	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001273.3	0.66	PKS	asperlactone	Aspergillus ochraceus
BGC0002191.2	0.62	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0002192.3	0.61	PKS	FR901512	fungal sp. No.14919
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000107.3	0.60	PKS	naphthopyrone	Aspergillus nidulans FGSC A4
BGC0002154.2	0.60	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.59	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0000037.4	0.59	PKS	cichorine	Aspergillus nidulans FGSC A4

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.79 out of 21.84

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

Additional weak hits (7):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.57 out of 20.97

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.10 out of 28.14

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.79 out of 26.85

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 18.48 out of 28.14

Confidence: weak

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.03 out of 30.12

Confidence: weak

SypG

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.67 out of 28.19

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 197290 - 244793:

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

Polymer prediction:: (redmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

SMED_RS00990: mal

PKS_AT (527..824): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; Propionyl-CoA: 62.5%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 87.3
Methoxymalonyl-CoA: 80.0
Methylmalonyl-CoA: 79.7
Ethylmalonyl-CoA: 47.4
Propionyl-CoA: 37.1
trans-1,2-CPDA: 35.1
3-Methylbutyryl-CoA: 29.0
inactive: 25.9
Isobutyryl-CoA: 21.1
2-Methylbutyryl-CoA: 19.4
fatty_acid: 18.6
CHC-CoA: 12.9
Acetyl-CoA: 7.5
Benzoyl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
MexT	Global virulence regulator

NC_009636.1 - Region 2 - terpene

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Location: 1,244,252 - 1,265,094 nt. (total: 20,843 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	terpene	Similarity score	Type	Compound(s)	Organism
BGC0002120.3		0.25	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000698.5		0.18	saccharide	hygromycin A	Streptomyces hygroscopicus

Reference	Aggregated	Similarity score	Type	Compound(s)	Organism
BGC0002120.3		0.25	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000698.5		0.18	saccharide	hygromycin A	Streptomyces hygroscopicus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene		PSPP	C30	acyclic	PP
triterpene		squalene	C30	acyclic	none
triterpene	C30 carotenoid	diapophytoene	C30	acyclic	none
tetraterpene	C40 carotenoid	phytoene	C40	acyclic	none
triterpene		hydroxysqualene	C30	acyclic	OH

Genes with terpene domains:

SMED_RS05875: PT_phytoene_like

Domain 1 (12 - 277): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

Binding sites found:

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.52 out of 27.55

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.74 out of 25.88

Confidence: medium

Additional weak hits (1):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 19.70 out of 31.73

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
PP	Diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
GnfM	Regulator of nitrogen-fixation genes
PsrA	Oleic acid responsive regulator

NC_009636.1 - Region 3 - hserlactone

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Location: 1,644,170 - 1,664,814 nt. (total: 20,645 nt) Show pHMM detection rules used

hserlactone: Autoind_synth

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

Oxidoreductases: dehydrogenase

SMED_RS07845: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Lyases: hydratase

SMED_RS07860: Nitrilase/cyanide hydratase and apolipoprotein

smcogs: SMCOG1294: Nitrilase/cyanide hydratase and apolipoprotein

Isomerases: racemase

SMED_RS07805: mandelate racemase/muconate lactonizing enzyme

smcogs: SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001555.4	0.41	ribosomal	colicin V	Escherichia coli chi7122
BGC0000584.5	0.40	ribosomal	colicin V	Escherichia coli
BGC0001660.3	0.40	ribosomal	mathermycin	Marinactinospora thermotolerans
BGC0000589.5	0.39	ribosomal	microcin M	Escherichia coli Nissle 1917
BGC0000588.5	0.39	ribosomal	microcin L	Escherichia coli
BGC0000561.5	0.39	ribosomal	thermophilin 1277	Streptococcus thermophilus
BGC0000587.5	0.39	ribosomal	microcin H47	Escherichia coli
BGC0000498.5	0.38	ribosomal	bovicin HJ50	Streptococcus equinus
BGC0001684.3	0.38	other (other)	N-acyloxyacyl glutamine	Klebsiella variicola
BGC0000188.5	0.38	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001555.4	0.41	ribosomal	colicin V	Escherichia coli chi7122
BGC0000584.5	0.40	ribosomal	colicin V	Escherichia coli
BGC0001660.3	0.40	ribosomal	mathermycin	Marinactinospora thermotolerans
BGC0000589.5	0.39	ribosomal	microcin M	Escherichia coli Nissle 1917
BGC0000588.5	0.39	ribosomal	microcin L	Escherichia coli
BGC0000561.5	0.39	ribosomal	thermophilin 1277	Streptococcus thermophilus
BGC0000587.5	0.39	ribosomal	microcin H47	Escherichia coli
BGC0000498.5	0.38	ribosomal	bovicin HJ50	Streptococcus equinus
BGC0001684.3	0.38	other (other)	N-acyloxyacyl glutamine	Klebsiella variicola
BGC0000188.5	0.38	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AbrC3

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

Confidence: strong

AfsR

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

Confidence: strong

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.07 out of 18.16

Confidence: strong

Additional weak hits (10):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.55 out of 27.78

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.46 out of 32.74

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.58 out of 30.22

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.27 out of 32.74

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.52 out of 18.57

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 18.75 out of 26.12

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 21.27 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.00 out of 27.78

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.81 out of 32.93

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.76 out of 32.93

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
AfsR	Pleiotropic regulatory for antibiotic production

NC_009636.1 - Region 4 - arylpolyene

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Location: 1,799,350 - 1,840,552 nt. (total: 41,203 nt) Show pHMM detection rules used

arylpolyene: (APE_KS1 or APE_KS2)

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 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

SMED_RS08600: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

SMED_RS08605: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

SMED_RS08655: 3-hydroxyisobutyrate dehydrogenase

smcogs: SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

SMED_RS08680: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: aminotransferase

SMED_RS08715: aminotransferase

smcogs: SMCOG1019: aminotransferase

Ligases: synthase

SMED_RS08685: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

SMED_RS08690: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transporter

SMED_RS08635: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002000.4	0.44	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0002487.3	0.44	other (other)	staphylopine	Staphylococcus aureus subsp. aureus Mu50
BGC0001987.2	0.44	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002488.3	0.44	other (other)	bacillopaline	Paenibacillus mucilaginosus KNP414
BGC0002656.2	0.44	PKS	oryzanaphthopyran A, oryzanaphthopyran B, oryzanaphthopyran C, oryzanthrone A, oryzanthrone B, chlororyzanthrone A, chlororyzanthrone B	Streptacidiphilus oryzae TH49
BGC0000196.4	0.44	PKS	AQ-256, AQ-270a, AQ-284a	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002711.2	0.43	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0000254.5	0.43	PKS	oxytetracycline	Streptomyces rimosus
BGC0000264.5	0.43	PKS	resistomycin, resistoflavine	Streptomyces resistomycificus
BGC0002510.2	0.43	PKS	youssoufene A1, youssoufene B1, youssoufene B2, youssoufene B3, youssoufene B4	Streptomyces sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002000.4	0.44	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0002487.3	0.44	other (other)	staphylopine	Staphylococcus aureus subsp. aureus Mu50
BGC0001987.2	0.44	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002488.3	0.44	other (other)	bacillopaline	Paenibacillus mucilaginosus KNP414
BGC0002656.2	0.44	PKS	oryzanaphthopyran A, oryzanaphthopyran B, oryzanaphthopyran C, oryzanthrone A, oryzanthrone B, chlororyzanthrone A, chlororyzanthrone B	Streptacidiphilus oryzae TH49
BGC0000196.4	0.44	PKS	AQ-256, AQ-270a, AQ-284a	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002711.2	0.43	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0000254.5	0.43	PKS	oxytetracycline	Streptomyces rimosus
BGC0000264.5	0.43	PKS	resistomycin, resistoflavine	Streptomyces resistomycificus
BGC0002510.2	0.43	PKS	youssoufene A1, youssoufene B1, youssoufene B2, youssoufene B3, youssoufene B4	Streptomyces sp.

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.71 out of 20.47

Confidence: medium

RpoN

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

Confidence: strong

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 23.22 out of 27.55

Confidence: medium

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 24.74 out of 26.33

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.54 out of 28.19

Confidence: medium

Additional weak hits (9):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 17.13 out of 26.06

Confidence: weak

HipB

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

Confidence: weak

MexT

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

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.90 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.55 out of 30.25

Confidence: weak

CopR

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

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.25 out of 36.53

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.70 out of 32.93

Confidence: weak

MexT

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

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
GnfM	Regulator of nitrogen-fixation genes
RpoN	Regulator of nitrogen assimilation and virulence
VqsM	Regulator of quorum-sensing signalling systems
ZuR variant 1	Zinc-responsive repressor

NC_009636.1 - Region 5 - thioamitides

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Location: 2,029,871 - 2,051,884 nt. (total: 22,014 nt) Show pHMM detection rules used

thioamitides: ((YcaO or TIGR03604) and TfuA)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

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Gene overview

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Gene/CDS overview

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

Tailoring functions

Transferases: acyltransferase

SMED_RS09885: acyltransferase 3

smcogs: SMCOG1088: acyltransferase 3

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001849.4	0.45	ribosomal	thiovarsolin A, thiovarsolin B, thiovarsolin C, thiovarsolin D	Streptomyces varsoviensis
BGC0002560.3	0.45	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4
BGC0000625.5	0.41	ribosomal	thioviridamide	Streptomyces olivoviridis
BGC0001802.5	0.40	ribosomal	thioholgamide A, thioholgamide B	Streptomyces malaysiense
BGC0001696.5	0.40	ribosomal	neothioviridamide	Streptomyces sp.
BGC0002669.2	0.38	ribosomal	TVA-YJ-2	Streptomyces sp. NRRL S-87
BGC0002120.3	0.31	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000544.4	0.31	ribosomal	planosporicin	Planomonospora alba
BGC0001510.5	0.28	other (other)	anisomycin	Streptomyces hygrospinosus
BGC0001797.3	0.27	ribosomal	telomestatin	Streptomyces anulatus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001849.4	0.45	ribosomal	thiovarsolin A, thiovarsolin B, thiovarsolin C, thiovarsolin D	Streptomyces varsoviensis
BGC0002560.3	0.45	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4
BGC0000625.5	0.41	ribosomal	thioviridamide	Streptomyces olivoviridis
BGC0001802.5	0.40	ribosomal	thioholgamide A, thioholgamide B	Streptomyces malaysiense
BGC0001696.5	0.40	ribosomal	neothioviridamide	Streptomyces sp.
BGC0002669.2	0.38	ribosomal	TVA-YJ-2	Streptomyces sp. NRRL S-87
BGC0002120.3	0.31	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000544.4	0.31	ribosomal	planosporicin	Planomonospora alba
BGC0001510.5	0.28	other (other)	anisomycin	Streptomyces hygrospinosus
BGC0001797.3	0.27	ribosomal	telomestatin	Streptomyces anulatus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 19.02 out of 21.84

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.02 out of 25.31

Confidence: medium

Additional weak hits (7):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.89 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.33 out of 26.06

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.70 out of 20.97

Confidence: weak

NuR

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

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.27 out of 18.57

Confidence: weak

NuR

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

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.67 out of 35.63

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
MexT	Global virulence regulator

NC_009636.1 - Region 6 - azole-containing-RiPP

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Location: 2,280,220 - 2,307,339 nt. (total: 27,120 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Azole RiPPs

Gene/CDS overview

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

Tailoring functions

Oxidoreductases: dehydrogenase

SMED_RS11105: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

Transferases: sulfhydrylase

SMED_RS10985: O-succinylhomoserine sulfhydrylase

smcogs: SMCOG1168: O-succinylhomoserine sulfhydrylase

Lyases: hydratase

SMED_RS11005: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

Ligases: synthase

SMED_RS11110: 8-amino-7-oxononanoate synthase

smcogs: SMCOG1109: 8-amino-7-oxononanoate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000948.5	0.53	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0000706.3	0.42	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0001909.3	0.39	PKS	strobilurin A	Strobilurus tenacellus
BGC0000483.5	0.38	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0000477.3	0.38	ribosomal	patellin 2, patellin 3	uncultured Prochloron sp. 06037A
BGC0000904.5	0.38	other (other)	FR-900098	Streptomyces rubellomurinus
BGC0001215.5	0.38	NRPS	conglobatin	Streptomyces conglobatus
BGC0002246.3	0.37	terpene	naematolin	Hypholoma sublateritium FD-334 SS-4
BGC0000783.3	0.37	saccharide	O-antigen	Xanthomonas oryzae pv. oryzae
BGC0002560.3	0.36	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000948.5	0.53	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0000706.3	0.42	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0001909.3	0.39	PKS	strobilurin A	Strobilurus tenacellus
BGC0000483.5	0.38	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0000477.3	0.38	ribosomal	patellin 2, patellin 3	uncultured Prochloron sp. 06037A
BGC0000904.5	0.38	other (other)	FR-900098	Streptomyces rubellomurinus
BGC0001215.5	0.38	NRPS	conglobatin	Streptomyces conglobatus
BGC0002246.3	0.37	terpene	naematolin	Hypholoma sublateritium FD-334 SS-4
BGC0000783.3	0.37	saccharide	O-antigen	Xanthomonas oryzae pv. oryzae
BGC0002560.3	0.36	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (10):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 18.32 out of 26.12

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 18.91 out of 31.73

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.49 out of 39.62

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.34 out of 27.78

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.78 out of 20.01

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.12 out of 27.55

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.43 out of 30.25

Confidence: weak

HipB

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.28 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.66 out of 29.65

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

TFBS Finder

Azole RiPPs

TFBS definitions

Regulator	Description

Core peptide predictions

No core peptides found.

NC_009636.1 - Region 7 - 2dos

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Location: 2,638,242 - 2,672,640 nt. (total: 34,399 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Transferases: acyltransferase aminotransferase transferase

SMED_RS12750: acyltransferase

smcogs: SMCOG1141: acyltransferase

SMED_RS12770: aminotransferase

smcogs: SMCOG1019: aminotransferase

SMED_RS12855: acetyl-CoA carboxylase, carboxyl transferase,

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

Hydrolases: hydrolase

SMED_RS12780: metallo-beta-lactamase family protein

smcogs: SMCOG1170: metallo-beta-lactamase family protein

SMED_RS12880: amidohydrolase

smcogs: SMCOG1244: amidohydrolase

Ligases: synthase

SMED_RS12840: 3-dehydroquinate synthase

smcogs: SMCOG1183: 3-dehydroquinate synthase

SMED_RS12870: cobalamin synthesis protein/P47K family protein

smcogs: SMCOG1178: cobalamin synthesis protein/P47K family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002584.2	0.43	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0002306.2	0.43	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001206.5	0.42	other (other)	indolmycin	Streptomyces griseus subsp. griseus
BGC0001485.4	0.42	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0002116.3	0.42	ribosomal	darobactin A	Photorhabdus khanii HGB 1456
BGC0001534.3	0.41	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001267.3	0.41	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis
BGC0001229.4	0.41	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000925.5	0.41	other (other)	quinolobactin	Pseudomonas fluorescens

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002584.2	0.43	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0002306.2	0.43	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001206.5	0.42	other (other)	indolmycin	Streptomyces griseus subsp. griseus
BGC0001485.4	0.42	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0002116.3	0.42	ribosomal	darobactin A	Photorhabdus khanii HGB 1456
BGC0001534.3	0.41	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001267.3	0.41	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis
BGC0001229.4	0.41	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000925.5	0.41	other (other)	quinolobactin	Pseudomonas fluorescens

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.41 out of 27.55

Confidence: medium

VqsM

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

Confidence: medium

ToxT

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

Confidence: medium

MexT

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

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.29 out of 25.31

Confidence: medium

Additional weak hits (6):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.46 out of 21.55

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.79 out of 20.01

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.48 out of 32.74

Confidence: weak

ArgR

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

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 18.66 out of 29.25

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.90 out of 24.78

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
GnfM	Regulator of nitrogen-fixation genes
MexT	Global virulence regulator
ToxT	Regulator of MSHA biosynthesis
VqsM	Regulator of quorum-sensing signalling systems

NC_009636.1 - Region 8 - terpene-precursor

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Location: 3,260,606 - 3,281,520 nt. (total: 20,915 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

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resistance

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Tailoring

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Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

SMED_RS15640: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

SMED_RS15680: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase aminotransferase kinase sulfotransferase transketolase

SMED_RS15645: acetyl-CoA acetyltransferase

smcogs: SMCOG1124: acetyl-CoA acetyltransferase

SMED_RS15660: glutathione S-transferase

smcogs: SMCOG1193: glutathione S-transferase

SMED_RS15675: aminotransferase

smcogs: SMCOG1019: aminotransferase

SMED_RS15700: transketolase

smcogs: SMCOG1204: transketolase

SMED_RS15710: glycerol kinase

smcogs: SMCOG1210: glycerol kinase

Ligases: synthase synthetase

SMED_RS15670: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

SMED_RS15705: 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
BGC0000866.5	0.58	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0002276.2	0.55	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000867.3	0.50	other (other)	polyhydroxyalkanoic acids	Ectothiorhodospira shaposhnikovii
BGC0001361.3	0.48	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002283.2	0.48	terpene	sodorifen	Serratia plymuthica
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0001184.4	0.45	other (other)	bacilysin	Bacillus velezensis FZB42
BGC0000894.4	0.45	other (other)	citrinin	Monascus aurantiacus
BGC0000888.5	0.44	other (other)	bacilysin	Bacillus sp. CS93
BGC0001605.3	0.44	terpene	gibberellin	Sinorhizobium fredii NGR234

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000866.5	0.58	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0002276.2	0.55	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000867.3	0.50	other (other)	polyhydroxyalkanoic acids	Ectothiorhodospira shaposhnikovii
BGC0001361.3	0.48	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002283.2	0.48	terpene	sodorifen	Serratia plymuthica
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0001184.4	0.45	other (other)	bacilysin	Bacillus velezensis FZB42
BGC0000894.4	0.45	other (other)	citrinin	Monascus aurantiacus
BGC0000888.5	0.44	other (other)	bacilysin	Bacillus sp. CS93
BGC0001605.3	0.44	terpene	gibberellin	Sinorhizobium fredii NGR234

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:

SMED_RS15670: PT_FPPS_like

Domain 1 (42 - 303): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:: IPP, DMAPP → FPP

Transcription Factor Binding Sites

Binding sites found:

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 25.77 out of 29.72

Confidence: strong

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 23.11 out of 27.18

Confidence: medium

Additional weak hits (10):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.24 out of 28.14

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.74 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.62 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.74 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.88 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.49 out of 30.25

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.40 out of 26.12

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.76 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.27 out of 29.38

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.42 out of 35.63

Confidence: weak

Terpene

TFBS Finder

Glossary

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

TFBS definitions

Regulator	Description
NrdR	Represses ribonucleotide reductase encoding genes
NtrC	Nitrogen regulatory protein C

NC_009620.1 - Region 1 - redox-cofactor

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Location: 356,981 - 379,168 nt. (total: 22,188 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

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

SMED_RS19620: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: transketolase

SMED_RS19670: transketolase

smcogs: SMCOG1204: transketolase

Hydrolases: hydrolase

SMED_RS19605: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002571.2	0.43	NRPS	pyoverdine DC3000	Pseudomonas syringae pv. tomato str. DC3000
BGC0002404.2	0.41	other (other)	falcarindiol	Solanum lycopersicum
BGC0002575.2	0.41	ribosomal	cochonodin I	Streptococcus suis
BGC0000043.5	0.39	PKS	curacin A	Moorea producens 19L
BGC0002514.3	0.38	PKS	julichrome Q6.6	Streptomyces sampsonii
BGC0002012.4	0.37	PKS	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0002181.3	0.37	terpene	pleuromutilin	Rhodocybe pseudopiperita
BGC0000252.5	0.37	PKS	nonactin	Streptomyces griseus subsp. griseus
BGC0001605.3	0.37	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002000.4	0.37	PKS	setomimycin	Streptomyces aurantiacus JA 4570

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002571.2	0.43	NRPS	pyoverdine DC3000	Pseudomonas syringae pv. tomato str. DC3000
BGC0002404.2	0.41	other (other)	falcarindiol	Solanum lycopersicum
BGC0002575.2	0.41	ribosomal	cochonodin I	Streptococcus suis
BGC0000043.5	0.39	PKS	curacin A	Moorea producens 19L
BGC0002514.3	0.38	PKS	julichrome Q6.6	Streptomyces sampsonii
BGC0002012.4	0.37	PKS	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0002181.3	0.37	terpene	pleuromutilin	Rhodocybe pseudopiperita
BGC0000252.5	0.37	PKS	nonactin	Streptomyces griseus subsp. griseus
BGC0001605.3	0.37	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002000.4	0.37	PKS	setomimycin	Streptomyces aurantiacus JA 4570

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

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

Confidence: strong

Additional weak hits (4):

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.53 out of 23.43

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.10 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.98 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 19.38 out of 31.73

Confidence: weak

RREFinder

TFBS Finder

RRE predictions

: RRE type: PqqD_RRE; Location: 7 - 95; Score: 93.9; RRE type: Thurincin_rSAM_RRE; Location: 34 - 89; Score: 27.1

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NC_009621.1 - Region 1 - hserlactone

Download region GenBank file

Download region SVG

Location: 331,930 - 352,550 nt. (total: 20,621 nt) Show pHMM detection rules used

hserlactone: Autoind_synth

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

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001992.3	0.35	other (other)	thioguanine	Erwinia amylovora CFBP1430
BGC0002713.2	0.23	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii
BGC0000495.5	0.22	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000446.5	0.20	NRPS	tilivalline, 9-deoxy tilivalline, dihydroxy tilivalline, dehydro tilivalline, dihydroxy-dehydro tilivalline	Klebsiella oxytoca
BGC0000344.5	0.20	NRPS	entolysin	Pseudomonas entomophila L48
BGC0002336.2	0.18	NRPS	bolagladin A, bolagladin B	Burkholderia gladioli

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001992.3	0.35	other (other)	thioguanine	Erwinia amylovora CFBP1430
BGC0002713.2	0.23	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii
BGC0000495.5	0.22	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000446.5	0.20	NRPS	tilivalline, 9-deoxy tilivalline, dihydroxy tilivalline, dehydro tilivalline, dihydroxy-dehydro tilivalline	Klebsiella oxytoca
BGC0000344.5	0.20	NRPS	entolysin	Pseudomonas entomophila L48
BGC0002336.2	0.18	NRPS	bolagladin A, bolagladin B	Burkholderia gladioli

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: 17.65 out of 18.46

Confidence: strong

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.13 out of 20.97

Confidence: medium

Additional weak hits (5):

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.37 out of 29.25

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.62 out of 30.22

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.02 out of 32.93

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.31 out of 29.65

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.68 out of 27.18

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
RpoN	Regulator of nitrogen assimilation and virulence

NC_009621.1 - Region 2 - lanthipeptide-class-ii,thioamitides

Download region GenBank file

Download region SVG

Location: 1,013,923 - 1,051,872 nt. (total: 37,950 nt) Show pHMM detection rules used

lanthipeptide-class-ii: cds(LANC_like and DUF4135)
thioamitides: ((YcaO or TIGR03604) and TfuA)

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

Transferases: methyltransferase

SMED_RS30005: methyltransferase

smcogs: SMCOG1089: methyltransferase

Lyases: cyclase

SMED_RS29965: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000917.3	0.36	other (other)	molybdenum cofactor	Rhodobacter capsulatus
BGC0001687.3	0.24	other (other)	N-tetradecanoyl tyrosine	uncultured bacterium CSL12
BGC0002560.3	0.23	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4
BGC0000925.5	0.20	other (other)	quinolobactin	Pseudomonas fluorescens
BGC0000297.5	0.16	NRPS, PKS, saccharide	aeruginoside 126B, aeruginoside 126A	Planktothrix agardhii NIVA-CYA 126
BGC0000320.5	0.16	NRPS	cereulide	Bacillus cereus
BGC0000651.5	0.15	terpene	KS-505a	Streptomyces argenteolus
BGC0001802.5	0.15	ribosomal	thioholgamide A, thioholgamide B	Streptomyces malaysiense
BGC0001696.5	0.15	ribosomal	neothioviridamide	Streptomyces sp.
BGC0001212.4	0.14	NRPS, PKS	nannocystin a	Nannocystis sp. MB1016

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002560.3	0.50	ribosomal	thiostreptamide S4	Streptomyces sp. NRRL S-4
BGC0000917.3	0.49	other (other)	molybdenum cofactor	Rhodobacter capsulatus
BGC0001867.2	0.47	ribosomal	prochlorosins	Prochlorococcus marinus str. MIT 9313
BGC0001802.5	0.47	ribosomal	thioholgamide A, thioholgamide B	Streptomyces malaysiense
BGC0001696.5	0.47	ribosomal	neothioviridamide	Streptomyces sp.
BGC0000625.5	0.43	ribosomal	thioviridamide	Streptomyces olivoviridis
BGC0000554.4	0.42	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000772.5	0.42	saccharide	lipopolysaccharide	Brucella melitensis
BGC0002699.2	0.41	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102
BGC0002120.3	0.41	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for SMED_RS29965

allorf_1014954_1015118

Leader:

MRSHRSRGEHPGIRSRERGA

Core:

ARCPGCSSDAPKMRRSGRFMCWLQAWESRPVFRG

Core with dehydrations:

ARCysPGCysDhaDhaDAPKMRRDhaGRFMCysWLQAWEDhaRPVFRG

antiSMASH-DB 4.0 matches for allorf_1014954_1015118

100.0%

NC_009621.1and 2 others:

NZ_CP088111.1 Lanthipeptides: allorf_0781198_0781362_lanthipeptideNZ_VITA01000039.1 Lanthipeptides: allorf_12218_12382_lanthipeptide

Lanthipeptides: allorf_1014954_1015118_lanthipeptide

1

ARCPGCSSDAPKMRRSGRFMCWLQAWESRPVFRG

34

ARCPGCSSDAPKMRRSGRFMCWLQAWESRPVFRG

1

ARCPGCSSDAPKMRRSGRFMCWLQAWESRPVFRG

34

20.6%

NZ_CP119804.1:

Lanthipeptides: allorf_1910563_1910769_lanthipeptide

5

GCSSDAPKMRRSGRFMCWLQAW

26

GC SD P++ R + L +

6

GCESDPPRIYEIVRKIITLMLY

27

20.6%

NZ_JPLW01000002.1and 1 other:

NZ_LIWC01000001.1 Lanthipeptides: allorf_1205972_1206109_lanthipeptide

Lanthipeptides: allorf_1074773_1074940_lanthipeptide

21

CWLQAWESRP

30

C LQ+ ESRP

4

CGLQSRESRP

13

with 4 more sequence matches

20.5%

NZ_CP035758.1:

Lanthipeptides: allorf_03482707_03482883_lanthipeptide

6

CSSDAPKMRRSGRFMCWLQAWE

27

CS+++ K+RR +C++ WE

21

CSAESHKIRRQ---ICFVTRWE

39

17.6%

NZ_NUFU01000017.1and 1 other:

NZ_VEAZ01000013.1 Lanthipeptides: allorf_70472_70657_lanthipeptide

Lanthipeptides: allorf_1190_1375_lanthipeptide

11

PKMRRSGRFMCW

22

P M S F CW

1

PAMSTSSAFACW

12

14.7%

NZ_CP063989.1:

Lanthipeptides: allorf_0180638_0180811_lanthipeptide

2

RCPGCSS

8

RCPGC +

2

RCPGCDT

8

11.8%

NZ_AKXV01000031.1and 1 other:

NZ_LMEI01000006.1 Lanthipeptides: ASC82_RS06200_lanthipeptide

Lanthipeptides: Y19_RS0109830_lanthipeptide

21

CWLQAWESRP

30

CW+ W+ +P

8

CWVNGWQEKP

17

allorf_1015605_1015727

Leader:

MSRDDRFATILAS

Core:

ASHSCERRRGFMLSKVERRRIFCLKPS

Core with dehydrations:

ADhaHDhaCysERRRGFMLDhaKVERRRIFCysLKPDha

antiSMASH-DB 4.0 matches for allorf_1015605_1015727

100.0%

NC_009621.1and 2 others:

NZ_CP088111.1 Lanthipeptides: allorf_0781849_0781971_lanthipeptideNZ_VITA01000039.1 Lanthipeptides: allorf_11609_11731_lanthipeptide

Lanthipeptides: allorf_1015605_1015727_lanthipeptide

1

ASHSCERRRGFMLSKVERRRIFCLKPS

27

ASHSCERRRGFMLSKVERRRIFCLKPS

1

ASHSCERRRGFMLSKVERRRIFCLKPS

27

22.2%

NZ_CP059997.1:

Lanthipeptides: allorf_02572182_02572382_lanthipeptide

1

ASHSCERRRGFMLSK

15

A C RR GF+ +

8

AYSPCARRPGFLTGQ

22

22.2%

NZ_QGTL01000006.1:

Lanthipeptides: allorf_313739_313885_lanthipeptide

1

ASHSCERRRG

10

A+ +C RRRG

12

AAQACARRRG

21

with 1 more sequence matches

12.3%

NZ_CP059318.1:

Lanthipeptides: allorf_0101772_0101999_lanthipeptide

4

SCERRRGFMLSKVERRR

20

S + RGF+ +V RR+

19

SADGSRGFLPVRVGRRQ

35

MIBiG 4.0 matches for allorf_1015605_1015727

18.5%

BGC0001155.5 (AGY49587.1):

Thiopeptide: GE2270

4

SCERRRGFMLS

14

SC GF S

1

SCNCVCGFCCS

11

allorf_1016269_1016397

Leader:

MRRRLSTRSAA

Core:

DPGQLQARRGLLRRCFRGSADECFKRCHAEG

Core with dehydrations:

DPGQLQARRGLLRRCysFRGDhaADECysFKRCysHAEG

antiSMASH-DB 4.0 matches for allorf_1016269_1016397

100.0%

NC_009621.1:

Lanthipeptides: allorf_1016269_1016397_lanthipeptide

1

DPGQLQARRGLLRRCFRGSADECFKRCHAEG

31

DPGQLQARRGLLRRCFRGSADECFKRCHAEG

1

DPGQLQARRGLLRRCFRGSADECFKRCHAEG

31

19.4%

NZ_LNZF01000002.1:

Lanthipeptides: allorf_0849351_0849530_lanthipeptide

16

FRGSADECFKRC

27

F S CF RC

3

FSSSHSTCFHRC

14

MIBiG 4.0 matches for allorf_1016269_1016397

8.1%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

21

DECFKRC

27

+C RC

31

TKCTSRC

37

allorf_1016557_1016634

Leader:

MGICLTRPHRGQIAAT

Core:

ELALSCEEC

Core with dehydrations:

ELALDhaCysEECys

antiSMASH-DB 4.0 matches for allorf_1016557_1016634

100.0%

NC_009621.1and 1 other:

NZ_CP088111.1 Lanthipeptides: allorf_0782801_0782878_lanthipeptide

Lanthipeptides: allorf_1016557_1016634_lanthipeptide

1

ELALSCEEC

9

ELALSCEEC

1

ELALSCEEC

9

allorf_1019318_1019422

Leader:

MRYMYEATYARLCPSSSTISKIYLKQITGS

Core:

NCTI

Core with dehydrations:

NCysDhbI

allorf_1019406_1019552

Leader:

MQPTSLGG

Core:

PRPLHFILVDCAPVANPTYVEADLRATMKHDQFMCFAIHV

Core with dehydrations:

PRPLHFILVDCysAPVANPDhbYVEADLRADhbMKHDQFMCysFAIHV

antiSMASH-DB 4.0 matches for allorf_1019406_1019552

100.0%

NC_009621.1and 4 others:

NZ_CP088111.1 Lanthipeptides: allorf_0785650_0785796_lanthipeptideNZ_NBUK01000063.1 Lanthipeptides: allorf_7824_7970_lanthipeptideNZ_VISX01000063.1 Lanthipeptides: allorf_0786_0932_lanthipeptideNZ_VITA01000039.1 Lanthipeptides: allorf_07780_07926_lanthipeptide

Lanthipeptides: allorf_1019406_1019552_lanthipeptide

1

PRPLHFILVDCAPVANPTYVEADLRATMKHDQFMCFAIHV

40

PRPLHFILVDCAPVANPTYVEADLRATMKHDQFMCFAIHV

1

PRPLHFILVDCAPVANPTYVEADLRATMKHDQFMCFAIHV

40

97.5%

NC_017327.1and 1 other:

NZ_CP021217.1 Lanthipeptides: allorf_1159245_1159391_lanthipeptide

Lanthipeptides: allorf_0124716_0124862_lanthipeptide

1

PRPLHFILVDCAPVANPTYVEADLRATMKHDQFMCFAIHV

40

PRPLHFILVDCAPVANPTYV+ADLRATMKHDQFMCFAIHV

1

PRPLHFILVDCAPVANPTYVDADLRATMKHDQFMCFAIHV

40

20.0%

NZ_CP015591.1and 15 others:

NZ_CP078085.1 Lanthipeptides: KU891_RS29355_lanthipeptideNZ_CP078085.1 Lanthipeptides: KU891_RS29350_lanthipeptideNZ_CP078085.1 Lanthipeptides: KU891_RS29345_lanthipeptideNZ_CP078085.1 Lanthipeptides: KU891_RS29340_lanthipeptideNZ_CP078085.1 Lanthipeptides: KU891_RS29335_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29930_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29925_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29920_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29910_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29930_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29925_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29920_lanthipeptideNZ_CP085411.1 Lanthipeptides: LIT28_RS29910_lanthipeptideNZ_QNUC01000031.1 Lanthipeptides: DN396_RS23050_lanthipeptideNZ_QNUC01000031.1 Lanthipeptides: DN396_RS23050_lanthipeptide

Lanthipeptides: A7A70_RS27550_lanthipeptide

15

ANPTYVEADLRATMK

29

A PT VEA + AT+

10

ATPTIVEATIAATVS

24

with 4 more sequence matches

20.0%

NZ_CP059734.1:

Lanthipeptides: allorf_0384683_0384871_lanthipeptide

4

LHFILVDCAPVANP

17

LH + C PVANP

1

LHIYFLTCQPVANP

14

17.5%

NZ_CP012109.1:

Lanthipeptides: allorf_7979331_7979543_lanthipeptide

1

PRPLHFILVDCAP

13

PRP +L DC P

14

PRPARALLRDCRP

26

17.5%

NZ_FONG01000023.1:

Lanthipeptides: allorf_088862_088996_lanthipeptide

10

DCAPVANPTYVEADLRA

26

D AP PT +LR

7

DAAPPTQPTRRRPELRG

23

12.5%

NZ_VIKW01000003.1:

Lanthipeptides: FJR04_RS03310_lanthipeptide

3

PLHFILVDCAPVA

15

P H + V C P+

7

PFHTLWVGCKPIG

19

allorf_1019555_1019737

Leader:

MLNCAQRAFSKAPLPTGVIWRCSVIPTLRVVGTIPGA

Core:

PSAAATASIPVDTWPFSTKDSDC

Core with dehydrations:

PDhaAAADhbADhaIPVDDhbWPFDhaDhbKDDhaDCys

antiSMASH-DB 4.0 matches for allorf_1019555_1019737

100.0%

NC_009621.1and 3 others:

NZ_CP088111.1 Lanthipeptides: allorf_0785799_0785981_lanthipeptideNZ_NBUK01000063.1 Lanthipeptides: allorf_7639_7821_lanthipeptideNZ_VISX01000063.1 Lanthipeptides: allorf_0935_1117_lanthipeptide

Lanthipeptides: allorf_1019555_1019737_lanthipeptide

1

PSAAATASIPVDTWPFSTKDSDC

23

PSAAATASIPVDTWPFSTKDSDC

1

PSAAATASIPVDTWPFSTKDSDC

23

22.6%

NZ_QLLX01000002.1and 1 other:

NZ_QLLX01000002.1 Lanthipeptides: allorf_335035_335211_lanthipeptide

Lanthipeptides: allorf_335035_335211_lanthipeptide

2

SAAATASIPVDTWPF

16

+AAA S+P T P+

10

TAAAHRSVPTRTCPY

24

17.9%

NZ_NTWJ01000043.1and 1 other:

NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS29340_lanthipeptide

Lanthipeptides: CN427_RS29340_lanthipeptide

5

ATASIPVDTWPFSTKDSDC

23

A ++ V TW F T + C

12

AGLTVAVGTWVFQTSEKTC

30

with 1 more sequence matches

17.9%

NZ_NTWJ01000043.1and 1 other:

NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS31525_lanthipeptide

Lanthipeptides: CN427_RS31525_lanthipeptide

8

SIPVDTWPFSTKDSDC

23

++ V TW F T D C

15

TVAVGTWVFQTSDKTC

30

allorf_1019980_1020051

Leader:

MVASAGG

Core:

FPAPARSAEPADVHNC

Core with dehydrations:

FPAPARDhaAEPADVHNCys

antiSMASH-DB 4.0 matches for allorf_1019980_1020051

100.0%

NC_009621.1and 6 others:

NC_017327.1 Lanthipeptides: allorf_0124171_0124311_lanthipeptideNZ_CP021217.1 Lanthipeptides: allorf_1159796_1159936_lanthipeptideNZ_CP088111.1 Lanthipeptides: allorf_0786224_0786295_lanthipeptideNZ_NBUK01000063.1 Lanthipeptides: allorf_7325_7396_lanthipeptideNZ_VISX01000063.1 Lanthipeptides: allorf_1360_1431_lanthipeptideNZ_VITA01000039.1 Lanthipeptides: allorf_07280_07351_lanthipeptide

Lanthipeptides: allorf_1019980_1020051_lanthipeptide

1

FPAPARSAEPADVHNC

16

FPAPARSAEPADVHNC

1

FPAPARSAEPADVHNC

16

43.8%

NZ_CP077072.1:

Lanthipeptides: allorf_2549811_2549951_lanthipeptide

3

APARSAEPAD

12

AP R AEP D

6

APPRHAEPHD

15

allorf_1020482_1020715

Leader:

MMVVYLRASPSAAYQRINSCQPIRDNESAIS

Core:

YLSEVAERLNKQLIKVQGENMVTKSLIKRLMMLVCPPSRRVPPGLG

Core with dehydrations:

YLDhaEVAERLNKQLIKVQGENMVDhbKDhaLIKRLMMLVCysPPDhaRRVPPGLG

antiSMASH-DB 4.0 matches for allorf_1020482_1020715

100.0%

NC_009621.1and 4 others:

NZ_CP088111.1 Lanthipeptides: allorf_0786726_0786959_lanthipeptideNZ_NBUK01000063.1 Lanthipeptides: allorf_6661_6894_lanthipeptideNZ_VISX01000063.1 Lanthipeptides: allorf_1862_2095_lanthipeptideNZ_VITA01000039.1 Lanthipeptides: allorf_06616_06849_lanthipeptide

Lanthipeptides: allorf_1020482_1020715_lanthipeptide

1

YLSEVAERLNKQLIKVQGENMVTKSLIKRLMMLVCPPSRRVPPGLG

46

YLSEVAERLNKQLIKVQGENMVTKSLIKRLMMLVCPPSRRVPPGLG

1

YLSEVAERLNKQLIKVQGENMVTKSLIKRLMMLVCPPSRRVPPGLG

46

19.6%

NZ_FMHJ01000003.1:

Lanthipeptides: allorf_516193_516348_lanthipeptide

23

TKSLIKRLMMLVCP--PSRRVPPG

44

++ KRL +C P RR P G

5

SRGRGKRLRNALCGGWPGRRAPQG

28

17.4%

NZ_BLIS01000009.1and 5 others:

NZ_BLIS01000009.1 Lanthipeptides: GVO03_RS04860_lanthipeptideNZ_QRWZ01000002.1 Lanthipeptides: DWX18_RS02665_lanthipeptideNZ_QRWZ01000002.1 Lanthipeptides: DWX18_RS02665_lanthipeptideNZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01890_lanthipeptideNZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01890_lanthipeptide

Lanthipeptides: GVO03_RS04860_lanthipeptide

17

QGENMVTKSLIKRLMMLVC

35

+GEN+ T L+K + L C

10

KGENVTTDILLKICIALDC

28

with 1 more sequence matches

12.5%

NZ_CP086102.1and 1 other:

NZ_KZ195572.1 Lanthipeptides: allorf_6138327_6138542_lanthipeptide

Lanthipeptides: allorf_6127439_6127654_lanthipeptide

27

IKRLMMLVCPPSR

39

+RL M +CP R

21

ARRLFMCLCPHCR

33

allorf_1031644_1031781

Leader:

MSRTQAFTRNCRNQAPDAKGEAQAEQTA

Core:

RREYRCRRLGRTDPYER

Core with dehydrations:

RREYRCysRRLGRDhbDPYER

antiSMASH-DB 4.0 matches for allorf_1031644_1031781

100.0%

NC_009621.1:

Lanthipeptides: allorf_1031644_1031781_lanthipeptide

1

RREYRCRRLGRTDPYER

17

RREYRCRRLGRTDPYER

1

RREYRCRRLGRTDPYER

17

11.1%

NZ_CP008953.1:

Lanthipeptides: allorf_3865033_3865224_lanthipeptide

5

RCRRLGRTDPYE

16

RC R+G PY

21

RCPRMGAGTPYS

32

allorf_1031905_1032045

Leader:

MALRDRLSGA

Core:

GLKPVRAAAVKSRGGERRMKSSDEIRAGACPKDERK

Core with dehydrations:

GLKPVRAAAVKDhaRGGERRMKDhaDhaDEIRAGACysPKDERK

antiSMASH-DB 4.0 matches for allorf_1031905_1032045

100.0%

NC_009621.1:

Lanthipeptides: allorf_1031905_1032045_lanthipeptide

1

GLKPVRAAAVKSRGGERRMKSSDEIRAGACPKDERK

36

GLKPVRAAAVKSRGGERRMKSSDEIRAGACPKDERK

1

GLKPVRAAAVKSRGGERRMKSSDEIRAGACPKDERK

36

27.0%

NZ_PNGD01000001.1and 1 other:

NZ_PNGD01000001.1 Lanthipeptides: CJ239_RS00165_lanthipeptide

Lanthipeptides: CJ239_RS00165_lanthipeptide

2

LKPVRAAAVKSRGGERRMKSSDEIRAGACPKD

33

+ P AA S G + + + AGACP

1

ITPTIIAATISFAG---VTFTVTLNAGACPTS

29

19.4%

NZ_CP045920.1and 1 other:

NZ_WHMT01000001.1 Lassopeptides: GCG21_RS00575_lassopeptide

Lassopeptides: GCE65_RS02520_lassopeptide

14

GGERRMKSSDEIR

26

GG SDEIR

1

GGHNLQDWSDEIR

13

allorf_1033917_1034090

Leader:

MARAPNPRCGGELGTSAQS

Core:

IRHPVIAFELSDGCTGKCCLAACRRAPQAIIAKFSPKR

Core with dehydrations:

IRHPVIAFELDhaDGCysDhbGKCysCysLAACysRRAPQAIIAKFDhaPKR

antiSMASH-DB 4.0 matches for allorf_1033917_1034090

100.0%

NC_009621.1and 1 other:

NZ_CP088111.1 Lanthipeptides: allorf_0798277_0798450_lanthipeptide

Lanthipeptides: allorf_1033917_1034090_lanthipeptide

1

IRHPVIAFELSDGCTGKCCLAACRRAPQAIIAKFSPKR

38

IRHPVIAFELSDGCTGKCCLAACRRAPQAIIAKFSPKR

1

IRHPVIAFELSDGCTGKCCLAACRRAPQAIIAKFSPKR

38

26.3%

NC_007777.1and 1 other:

NC_007777.1 Lanthipeptides: FRANCCI3_RS24210_lanthipeptide

Lanthipeptides: FRANCCI3_RS24210_lanthipeptide

4

PVIAFELSDGCTGKCCLAACRRAPQ

28

P + SD C GK C +AC Q

2

PELLRSTSDNC-GKTCSSACTSCKQ

25

23.7%

NZ_CP058322.1and 3 others:

NZ_CP058322.1 Lanthipeptides: HXZ27_RS15425_lanthipeptideNZ_FMCW01000048.1 Lanthipeptides: GA0070558_RS30485_lanthipeptideNZ_FMCW01000048.1 Lanthipeptides: GA0070558_RS30485_lanthipeptide

Lanthipeptides: HXZ27_RS15425_lanthipeptide

5

VIAFELSDGCTGKCCLAACRRA

26

V+A SDGC C +AC +

2

VMACSTSDGCGSTCSTSACNTS

23

with 17 more sequence matches

Only the first 10 are displayed here.

21.1%

NC_014391.1and 1 other:

NC_014391.1 Lanthipeptides: MICAU_RS30575_lanthipeptide

Lanthipeptides: MICAU_RS30575_lanthipeptide

5

VIAFELSDGCTGKCCLAACRRA

26

++A SDGC C +AC +

2

IMACSTSDGCGSTCNTSACATS

23

21.1%

NZ_CP022752.1and 3 others:

NZ_CP022752.1 Lanthipeptides: CDG81_RS17720_lanthipeptideNZ_FOMZ01000022.1 Lanthipeptides: BM150_RS23220_lanthipeptideNZ_FOMZ01000022.1 Lanthipeptides: BM150_RS23220_lanthipeptide

Lanthipeptides: CDG81_RS17720_lanthipeptide

6

IAFELSDGCTGKCCLAACRR

25

++ + SDGC G C +AC

1

MSCDTSDGCGGTTCGSACTS

20

21.1%

NZ_KB895870.1and 1 other:

NZ_KB895870.1 Lanthipeptides: C569_RS0127950_lanthipeptide

Lanthipeptides: C569_RS0127950_lanthipeptide

5

VIAFELSDGCTGKCCLAACRR

25

V+ SDGC C +AC

2

VMMCSTSDGCGSSCSTSACTT

22

21.1%

NZ_SNXZ01000002.1and 1 other:

NZ_SNXZ01000002.1 Lanthipeptides: EV186_RS12145_lanthipeptide

Lanthipeptides: EV186_RS12145_lanthipeptide

6

IAFELSDGCTGKCCLAACRR

25

+A SD C G C +AC

1

MACSTSDNCGGSTCGSACTS

20

21.1%

NZ_VEHK01000015.1and 1 other:

NZ_VEHK01000015.1 Lanthipeptides: FS984_RS32600_lanthipeptide

Lanthipeptides: FS984_RS32600_lanthipeptide

9

ELSDGCTGKCCLAACRRAP

27

+ SDGCT C +AC +

3

DTSDGCTST-CQSACSNST

20

21.1%

NZ_VLLL01000010.1and 1 other:

NZ_VLLL01000010.1 Lanthipeptides: LX16_RS23985_lanthipeptide

Lanthipeptides: LX16_RS23985_lanthipeptide

9

ELSDGCTGKCCLAACRRAPQ

28

+ SDGC C +AC A

4

DTSDGCGSTCATSACNSATN

23

20.0%

NZ_LT607413.1and 1 other:

NZ_LT607413.1 Lanthipeptides: GA0070618_RS10945_lanthipeptide

Lanthipeptides: GA0070618_RS10945_lanthipeptide

6

IAFELSDGCTGKCCLAACRRA

26

+ + +DGC GK C +AC

18

LIYMTNDGC-GKTCQSACSTT

37

18.4%

NZ_ATYW01000025.1and 1 other:

NZ_ATYW01000025.1 Lanthipeptides: YWW_RS32370_lanthipeptide

Lanthipeptides: YWW_RS32370_lanthipeptide

9

ELSDGCTGKCCLAAC

23

+ SDGC C +AC

4

DTSDGCGNTCQTSAC

18

18.4%

NZ_BCBX01000066.1and 1 other:

NZ_BCBX01000066.1 Lanthipeptides: AP234_RS33370_lanthipeptide

Lanthipeptides: AP234_RS33370_lanthipeptide

5

VIAFELSDGCTGKCCLAACRRAPQ

28

++ + SDGC C +AC +

2

IMMCDTSDGCGNSCSTSACATSSN

25

18.4%

NZ_CM001439.1and 5 others:

NZ_CM001439.1 Lanthipeptides: SACMADRAFT_RS20585_lanthipeptideNZ_CP059997.1 Lanthipeptides: HUW46_RS22770_lanthipeptideNZ_CP059997.1 Lanthipeptides: HUW46_RS22770_lanthipeptideNZ_CP090063.1 Lanthipeptides: LWP59_RS37700_lanthipeptideNZ_CP090063.1 Lanthipeptides: LWP59_RS37700_lanthipeptide

Lanthipeptides: SACMADRAFT_RS20585_lanthipeptide

6

IAFELSDGCTGKCCLAACRR

25

++ + SD C G C +AC

1

MSCDTSDNCGGTTCGSACTS

20

MIBiG 4.0 matches for allorf_1033917_1034090

13.2%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

7

AFELSDGCTGKC

18

AF + CT +C

26

AFCPTTKCTSRC

37

10.5%

BGC0002110.3 (QKV49894.1):

Lanthipeptide: birimositide

14

CTGKC

18

CT KC

22

CTSKC

26

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

AbrC3

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

Confidence: strong

CatR

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

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.77 out of 28.19

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.77 out of 28.19

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 19.64 out of 25.31

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.72 out of 23.79

Confidence: medium

Additional weak hits (6):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.88 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.25 out of 26.06

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.72 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.18 out of 29.25

Confidence: weak

SypG

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

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.29 out of 35.63

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

allorf_1014954_1015118 - Class II

Cleavage pHMM score: -5.70

RODEO score: 0

Monoisotopic mass: 3855.9 Da

Molecular weight: 3858.5 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 3876.5 Da N = 1

allorf_1015605_1015727 - Class II

Cleavage pHMM score: -5.70

RODEO score: 0

Monoisotopic mass: 3176.7 Da

Molecular weight: 3178.7 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3196.8 Da N = 1; 3214.8 Da N = 2

allorf_1016269_1016397 - Class II

Cleavage pHMM score: -7.00

RODEO score: 0

Monoisotopic mass: 3513.7 Da

Molecular weight: 3516.0 Da

Number of bridges: 1

allorf_1016557_1016634 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 977.4 Da

Molecular weight: 978.1 Da

Number of bridges: 1

allorf_1019318_1019422 - Class II

Cleavage pHMM score: -4.20

RODEO score: 0

Monoisotopic mass: 431.2 Da

Molecular weight: 431.5 Da

Number of bridges: 1

allorf_1019406_1019552 - Class II

Cleavage pHMM score: -5.30

RODEO score: 0

Monoisotopic mass: 4529.3 Da

Molecular weight: 4532.3 Da

Number of bridges: 2

allorf_1019555_1019737 - Class II

Cleavage pHMM score: -4.20

RODEO score: 0

Monoisotopic mass: 2240.1 Da

Molecular weight: 2241.4 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 2259.4 Da N = 1; 2277.4 Da N = 2; 2295.5 Da N = 3; 2313.5 Da N = 4; 2331.5 Da N = 5; 2349.5 Da N = 6

allorf_1019980_1020051 - Class II

Cleavage pHMM score: -5.40

RODEO score: 0

Monoisotopic mass: 1662.8 Da

Molecular weight: 1663.8 Da

Number of bridges: 1

allorf_1020482_1020715 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 5118.9 Da

Molecular weight: 5122.2 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 5140.2 Da N = 1; 5158.2 Da N = 2; 5176.2 Da N = 3

allorf_1031644_1031781 - Class II

Cleavage pHMM score: -5.90

RODEO score: 0

Monoisotopic mass: 2263.2 Da

Molecular weight: 2264.5 Da

Number of bridges: 1

allorf_1031905_1032045 - Class II

Cleavage pHMM score: -6.00

RODEO score: 0

Monoisotopic mass: 3855.1 Da

Molecular weight: 3857.4 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 3875.4 Da N = 1; 3893.5 Da N = 2

allorf_1033917_1034090 - Class II

Cleavage pHMM score: -5.00

RODEO score: 0

Monoisotopic mass: 4072.2 Da

Molecular weight: 4074.9 Da

Number of bridges: 3

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
CatR	H2O2-responsive repressor
IolR	Regulator of the inositol catabolism
ZuR variant 1	Zinc-responsive repressor

NC_009622.1 - Region 1 - NRPS,hserlactone

Download region GenBank file

Download region SVG

Location: 98,254 - 191,847 nt. (total: 93,594 nt) Show pHMM detection rules used

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

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

Transferases: PPTase acyltransferase

SMED_RS31685: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

SMED_RS31710: polyketide synthase associated protein papA3

smcogs: SMCOG1209: polyketide synthase associated protein papA3

Ligases: ligase

SMED_RS33235: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001758.4	0.49	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.48	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.47	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.46	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002071.2	0.46	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0002135.2	0.46	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.46	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001135.5	0.45	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.45	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.40	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001758.4	0.78	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.77	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.77	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.76	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002071.2	0.76	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0002135.2	0.76	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.76	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001135.5	0.76	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.75	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.23 out of 19.52

Confidence: medium

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84

Confidence: medium

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.16 out of 20.01

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.74 out of 26.85

Confidence: medium

Additional weak hits (27):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.66 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.39 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.23 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.02 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.88 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 17.39 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.67 out of 31.73

Confidence: weak

MexT

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

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.00 out of 27.78

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.89 out of 33.73

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.94 out of 29.25

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.94 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.07 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.10 out of 21.55

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.41 out of 39.62

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.07 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.16 out of 21.55

Confidence: weak

FuR variant 1

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

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.71 out of 27.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.72 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.07 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.13 out of 24.78

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 19.17 out of 33.14

Confidence: weak

BldD

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

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.50 out of 35.63

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 18.69 out of 33.14

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.22 out of 24.78

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 98253 - 191847:

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

Polymer prediction:: (Asn - Asn - Asn - X - Ala - Ala - Gly - Ala) + (Ala - Asn - Thr - Asn - Asn - Asn - Leu - Gly)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 98253 - 191742:

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

Polymer prediction:: (Asn - Asn - Asn - X - Ala - Ala - Gly - Ala) + (Ala - Asn - Thr - Asn - Asn - Asn - Leu - Gly)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

SMED_RS31710: Ala - Asn - Thr - Asn - Asn - Asn - Leu - Gly

Search NORINE for peptide: strict or relaxed

AMP-binding (509..905): Ala

nrpys: Ala

SVM prediction details:

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

Stachelhaus prediction details:

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

AMP-binding (1573..1976): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (2644..3054): 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:: LATHFDFSVWEGNQIFGGEINMYGITETTVHVTY
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (3722..4125): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATITSAKIVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: Asn DATKVGEVGK (85% 8Å match); OH-Asn or Asn DATKVGEVGK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (4793..5196): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (5864..6267): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (6956..7353): 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:: LWHAFDASAWESFLLIGGDINNYGPTEVTVVATS
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (8042..8443): Gly

nrpys: Gly

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: VALTFDIAGLELQALCGGERNLYGPTETTIWATT
Nearest Stachelhaus code(s):: Gly DILQLGLIWK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

SMED_RS33235: Asn - Asn - Asn - X - Ala - Ala - Gly - Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (682..1085): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (1774..2177): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (2866..3269): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDATVNSANVVIGGEVNEYGPTEAVVGCAF
Nearest Stachelhaus code(s):: OH-Asn or Asn DATKVGEVGK (76% 8Å match); Asn DATKVGEVGK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (3958..4364): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWSHFDGIVTTGKVMVGGEINHFGPTEATVGCAA
Nearest Stachelhaus code(s):: Asp DATKMGHVGK (68% 8Å match); CysA DATKMGHVGK (65% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (5053..5449): Ala

nrpys: Ala

SVM prediction details:

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

Stachelhaus prediction details:

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

AMP-binding (6138..6534): Ala

nrpys: Ala

SVM prediction details:

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

Stachelhaus prediction details:

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

AMP-binding (7223..7624): Gly

nrpys: Gly

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: VALTFDIAGLELQALCGGERNLYGPTETTIWATT
Nearest Stachelhaus code(s):: Gly DILQLGLIWK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (8313..8709): Ala

nrpys: Ala

SVM prediction details:

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

Stachelhaus prediction details:

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

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
ArgR	Regulator of arginine biosynthesis genes
MexT	Global virulence regulator
RutR	Regulator of the pyrimidine and purine metabolism