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Overview
1.1
1.2
1.3
1.4
1.5
2.1

### Identified secondary metabolite regions using strictness 'relaxed'

NZ_ALVU02000001.1 (Synechocystis sp. PCC 7509)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 328,976 | 349,902 |  |
Region 1.2 | terpene-precursor | 1,039,331 | 1,060,257 |
Region 1.3 | NRPS-like | 1,895,371 | 1,939,828 |  |
Region 1.4 | NRP-metallophore,NRPS,T1PKS | 2,050,177 | 2,131,464 | Low | anachelin | NRPS:Type I+PKS
Region 1.5 | NRPS | 3,666,325 | 3,718,032 | Low | desmamide A/desmamide B/desmamide C | NRPS:Type I+PKS

NZ_ALVU02000002.1 (Synechocystis sp. PCC 7509)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | lanthipeptide-class-ii | 56,886 | 86,090 |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 328,976 | 349,902 |  |
Region 1.2 | terpene-precursor | 1,039,331 | 1,060,257 |
Region 1.3 | NRPS-like | 1,895,371 | 1,939,828 |  |
Region 1.4 | NRP-metallophore,NRPS,T1PKS | 2,050,177 | 2,131,464 | Low | anachelin | NRPS:Type I+PKS
Region 1.5 | NRPS | 3,666,325 | 3,718,032 | Low | desmamide A/desmamide B/desmamide C | NRPS:Type I+PKS
Region 2.1 | lanthipeptide-class-ii | 56,886 | 86,090 |

No secondary metabolite regions were found in these records:
  NZ_KI966369.1 (Synechocystis sp. PCC 7509)
  NZ_KI966370.1 (Synechocystis sp. PCC 7509)

Compact view
NZ_ALVU02000001.1 - Region 1 - terpene
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 328,976 - 349,902 nt. (total: 20,927 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
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
SYN7509_RS0201790: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

Transferases: glycosyltransferase
SYN7509_RS0201815: sugar transferase

smcogs
  SMCOG1146: sugar transferase

SYN7509_RS0201820: glycosyl transferase group 1

smcogs
  SMCOG1045: glycosyl transferase group 1

Lyases: dehydratase
SYN7509_RS0201805: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

SYN7509_RS0201810: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

SYN7509_RS0201825: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000772.5 |  | 0.50 | saccharide | lipopolysaccharide | Brucella melitensis
BGC0000742.3 |  | 0.48 | saccharide | capsular polysaccharide | Streptococcus agalactiae
BGC0000743.3 |  | 0.48 | saccharide | capsular polysaccharide | Streptococcus agalactiae
BGC0000732.3 |  | 0.47 | saccharide | capsular polysaccharide | Raoultella planticola
BGC0000733.3 |  | 0.46 | saccharide | capsular polysaccharide | Klebsiella pneumoniae
BGC0000656.5 |  | 0.46 | terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0000787.3 |  | 0.46 | saccharide | O-antigen | Escherichia coli
BGC0000645.3 |  | 0.45 | terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000769.3 |  | 0.44 | saccharide | glycopeptidolipid | Mycobacterium avium subsp. hominissuis A5

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000772.5 |  | 0.50 | saccharide | lipopolysaccharide | Brucella melitensis
BGC0000742.3 |  | 0.48 | saccharide | capsular polysaccharide | Streptococcus agalactiae
BGC0000743.3 |  | 0.48 | saccharide | capsular polysaccharide | Streptococcus agalactiae
BGC0000732.3 |  | 0.47 | saccharide | capsular polysaccharide | Raoultella planticola
BGC0000733.3 |  | 0.46 | saccharide | capsular polysaccharide | Klebsiella pneumoniae
BGC0000656.5 |  | 0.46 | terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0000787.3 |  | 0.46 | saccharide | O-antigen | Escherichia coli
BGC0000645.3 |  | 0.45 | terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000769.3 |  | 0.44 | saccharide | glycopeptidolipid | Mycobacterium avium subsp. hominissuis A5

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

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

Genes with terpene domains:
SYN7509_RS0201785: PT_phytoene_like
Domain 1 (17 - 306): Prenyltransferase; Phytoene synthase like
Subtype: unknown

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

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 25.47 out of 26.06
Confidence: strong
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.35 out of 27.55
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.54 out of 26.06
Confidence: medium
Additional weak hits (1):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.56 out of 26.06
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

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

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
GnfM | Regulator of nitrogen-fixation genes
MogR | Repressor of flagellar motility genes

NZ_ALVU02000001.1 - Region 2 - terpene-precursor
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,039,331 - 1,060,257 nt. (total: 20,927 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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: reductase
SYN7509_RS0205355: alkyl hydroperoxide reductase/ Thiol specific

smcogs
  SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

SYN7509_RS0205405: alkyl hydroperoxide reductase/ Thiol specific

smcogs
  SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

Ligases: synthetase
SYN7509_RS0205415: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002397.2 |  | 0.48 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.45 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0002698.2 |  | 0.40 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0000641.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0001684.3 |  | 0.37 | other (other) | N-acyloxyacyl glutamine | Klebsiella variicola
BGC0000640.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000497.3 |  | 0.37 | ribosomal | BHT-Aα, BHT-Aβ | Streptococcus ratti

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002397.2 |  | 0.48 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.45 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0002698.2 |  | 0.40 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0000641.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0001684.3 |  | 0.37 | other (other) | N-acyloxyacyl glutamine | Klebsiella variicola
BGC0000640.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000497.3 |  | 0.37 | ribosomal | BHT-Aα, BHT-Aβ | Streptococcus ratti

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:
No product predictions
Genes with terpene domains:
SYN7509_RS0205415: PT_FPPS_like
Domain 1 (44 - 308): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial or Geranylgeranyl diphosphate synthase or geranylfarnesyl diphosphate synthase, bacterial
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.73 out of 26.06
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.85 out of 28.19
Confidence: medium
Additional weak hits (2):
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 23.92 out of 31.73
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.47 out of 28.14
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.
No acronyms to display
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
MogR | Repressor of flagellar motility genes
ZuR variant 1 | Zinc-responsive repressor

NZ_ALVU02000001.1 - Region 3 - NRPS-like
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,895,371 - 1,939,828 nt. (total: 44,458 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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
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
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: oxidoreductase
SYN7509_RS0209840: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: kinase
SYN7509_RS0209810: glycerol kinase

smcogs
  SMCOG1210: glycerol kinase

Lyases: dehydratase
SYN7509_RS0209820: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Translocases: permease
SYN7509_RS25555: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.62 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  | 0.62 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002164.2 |  | 0.61 | NRPS | peramine | Epichloe festucae
BGC0001758.4 |  | 0.61 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0002276.2 |  | 0.61 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0000357.5 |  | 0.61 | 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
BGC0002286.3 |  | 0.60 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4 |  | 0.60 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.60 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001132.4 |  | 0.60 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.62 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  | 0.62 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002164.2 |  | 0.61 | NRPS | peramine | Epichloe festucae
BGC0001758.4 |  | 0.61 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0002276.2 |  | 0.61 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0000357.5 |  | 0.61 | 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
BGC0002286.3 |  | 0.60 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4 |  | 0.60 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.60 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001132.4 |  | 0.60 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
CatR
Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 21.07 out of 25.31
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 16.31 out of 18.16
Confidence: strong
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.12 out of 32.93
Confidence: medium
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84
Confidence: medium
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 26.69 out of 35.63
Confidence: medium
Additional weak hits (6):
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.14 out of 39.62
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.57 out of 32.74
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.13 out of 30.25
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 24.90 out of 35.63
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.05 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.61 out of 30.11
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 3, location 1895370 - 1939828:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (NMe-Gly)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SYN7509_RS0209820: Gly
Search NORINE for peptide: strict or relaxed
AMP-binding (57..458): 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:
    LSVTFDIAAPDLQAICTGEWNMYGPTETTVWSTV
  Nearest Stachelhaus code(s):
    Gly DILQIGMVWK (76% 8Å match)
  Stachelhaus code match:
    80% (moderate)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CatR | H2O2-responsive repressor
LexA variant 3 | Repressor of DNA damage response
MexT | Global virulence regulator
NrtR | NAD synthesis repressor

NZ_ALVU02000001.1 - Region 4 - NRP-metallophore,NRPS,T1PKS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 2,050,177 - 2,131,464 nt. (total: 81,288 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)
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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
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
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: oxygenase
SYN7509_RS0210650: Dioxygenase TauD/TfdA

smcogs
  SMCOG1046: Dioxygenase TauD/TfdA

Transferases: aminotransferase
SYN7509_RS0210675: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

Ligases: ligase synthase
SYN7509_RS0210625: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS0210635: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS0210640: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

SYN7509_RS0210645: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

SYN7509_RS0210655: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

SYN7509_RS0210670: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS27600: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

SYN7509_RS27605: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

SYN7509_RS27610: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRP-metallophore | NRPS | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | ---
BGC0002135.2 |  |  |  | 1.28 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0000342.4 |  |  |  | 1.21 | NRPS | enniatin | Fusarium equiseti
BGC0001135.5 |  |  |  | 1.19 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001261.3 |  |  |  | 1.16 | NRPS | AM-toxin | Alternaria alternata
BGC0001132.4 |  |  |  | 1.14 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  |  |  | 1.13 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001166.5 |  |  |  | 1.11 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001128.4 |  |  |  | 1.11 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  |  |  | 1.10 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  |  |  | 1.10 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.75 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  | 0.72 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0000342.4 |  | 0.72 | NRPS | enniatin | Fusarium equiseti
BGC0001261.3 |  | 0.72 | NRPS | AM-toxin | Alternaria alternata
BGC0001050.5 |  | 0.71 | NRPS, PKS | thalassospiramide A | Tistrella bauzanensis
BGC0001132.4 |  | 0.71 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.71 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001166.5 |  | 0.71 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.00 out of 20.47
Confidence: strong
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.52 out of 29.72
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.45 out of 26.06
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.96 out of 26.06
Confidence: medium
Additional weak hits (13):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.32 out of 30.25
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.93 out of 24.78
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 21.02 out of 27.18
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.26 out of 29.65
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.42 out of 29.25
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.51 out of 23.43
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.34 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.66 out of 32.74
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.02 out of 32.74
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.85 out of 30.98
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.88 out of 30.98
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.42 out of 29.25
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.26 out of 29.65
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 4, location 2050176 - 2131464:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (NH2 - Ala) + (Me-ohmal) + (D-Asp) + (D-Ser) + (D-His) + (Orn) + (D-Gln) + (Val)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SYN7509_RS0210625: NH2 - Ala
Search NORINE for peptide: strict or relaxed
CAL_domain (53..497): NH2
minowa: NH2

Prediction, score:
  NH2: 169.8
  Acetyl-CoA: 48.9
  fatty_acid: 17.7
  AHBA: 9.3
  shikimic_acid: 1.2

AMP-binding (1156..1541): 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:
    LWATFDLSVFEVNTNLAGEFNLYGPSEDTTYSTF
  Nearest Stachelhaus code(s):
    Ala DLFNNALTYK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS27600: mal
PKS_AT (522..799): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 83.3%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 154.2
  inactive: 99.9
  Methoxymalonyl-CoA: 60.5
  Methylmalonyl-CoA: 60.1
  Propionyl-CoA: 45.1
  Ethylmalonyl-CoA: 42.2
  2-Methylbutyryl-CoA: 31.3
  Isobutyryl-CoA: 30.2
  Benzoyl-CoA: 30.2
  CHC-CoA: 27.2
  fatty_acid: 20.6
  Acetyl-CoA: 15.0
  trans-1,2-CPDA: 10.8
  3-Methylbutyryl-CoA: 8.9

SYN7509_RS0210640: Asp
Search NORINE for peptide: strict or relaxed
AMP-binding (439..835): 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:
    YGASADLGNTVAKIILGGELNHYGPTETTVGVLT
  Nearest Stachelhaus code(s):
    Asp DLTKIGHVGK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS0210645: Ser
Search NORINE for peptide: strict or relaxed
AMP-binding (464..862): 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:
    RWMTFDVSVWELHFFCSGEYNLYGPTEAAIDVTA
  Nearest Stachelhaus code(s):
    Ser DVWHFSLIDK (85% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS0210655: His
Search NORINE for peptide: strict or relaxed
AMP-binding (444..837): His
nrpys: His

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    SARSFDSSVAGWLTIVAGEYNEYGPTEGTVWSSA
  Nearest Stachelhaus code(s):
    His DSALIAEVWK (85% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS27605: Orn
Search NORINE for peptide: strict or relaxed
AMP-binding (467..870): 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:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    AGWAFDVFVGDREFICGSDINSYGLTETTIDSSY
  Nearest Stachelhaus code(s):
    Orn DVGEIGSIDK (82% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS27610: Gln
Search NORINE for peptide: strict or relaxed
AMP-binding (495..893): Gln
nrpys: Gln

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    HWMTFDASVWEAQLFCGGEYNLYGPTEATIDTTF
  Nearest Stachelhaus code(s):
    Gln DAWQFGLIDK (91% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS0210670: Val
Search NORINE for peptide: strict or relaxed
AMP-binding (453..850): 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:
    LATAFDAATFEGWLLAGGDINGYGPTENTTFSCC
  Nearest Stachelhaus code(s):
    Val DAFWLGGTFK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
MogR | Repressor of flagellar motility genes
NtrC | Nitrogen regulatory protein C
VqsM | Regulator of quorum-sensing signalling systems

NZ_ALVU02000001.1 - Region 5 - NRPS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 3,666,325 - 3,718,032 nt. (total: 51,708 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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
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
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: PPTase methyltransferase
SYN7509_RS0218465: methyltransferase

smcogs
  SMCOG1089: methyltransferase

SYN7509_RS0218475: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

Ligases: ligase
SYN7509_RS0218505: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS0218510: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS0218515: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

SYN7509_RS26390: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000342.4 |  | 0.74 | NRPS | enniatin | Fusarium equiseti
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  | 0.71 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.71 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.71 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.71 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  | 0.70 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0002286.3 |  | 0.69 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002135.2 |  | 0.69 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001133.4 |  | 0.68 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000342.4 |  | 0.74 | NRPS | enniatin | Fusarium equiseti
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  | 0.71 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.71 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.71 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.71 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  | 0.70 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0002286.3 |  | 0.69 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002135.2 |  | 0.69 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001133.4 |  | 0.68 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 18.25 out of 18.46
Confidence: strong
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.63 out of 27.55
Confidence: medium
Additional weak hits (4):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.69 out of 29.38
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.16 out of 30.25
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.05 out of 30.11
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 5, location 3666324 - 3718032:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Ile) + (NMe-Val) + (X)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SYN7509_RS0218505: X
AMP-binding (474..862): X
nrpys: (unknown)

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    VAQAFDASIFEMTLILAGEFNAYGLTETSIWSTI
  Nearest Stachelhaus code(s):
    Ph-Ser or Phe DAFTVAAIWK (68% 8Å match)
  Stachelhaus code match:
    90% (moderate)

SYN7509_RS0218510: Val
Search NORINE for peptide: strict or relaxed
AMP-binding (530..916): 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:
    VGQSFDASIFELIIIAGGEFNAYGLTETTIWATT
  Nearest Stachelhaus code(s):
    Leu DAWIIGAIVK (50% 8Å match)
  Stachelhaus code match:
    80% (moderate)

SYN7509_RS0218515: Ile
Search NORINE for peptide: strict or relaxed
AMP-binding (494..887): 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:
    LSNAFDAATFEGFLLFGGELHVYGPTENTTFTTW
  Nearest Stachelhaus code(s):
    Ile DAFFLGVTFK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

SYN7509_RS26390: Gly
Search NORINE for peptide: strict or relaxed
AMP-binding (49..447): 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:
    FSMTFNIASLELQALCGGEWNMYGAPETTSWSTI
  Nearest Stachelhaus code(s):
    Gly DILQLGMIWK (82% 8Å match)
  Stachelhaus code match:
    80% (moderate)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
GnfM | Regulator of nitrogen-fixation genes
RpoN | Regulator of nitrogen assimilation and virulence

NZ_ALVU02000002.1 - Region 1 - lanthipeptide-class-ii
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 56,886 - 86,090 nt. (total: 29,205 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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Lyases: cyclase
SYN7509_RS0221490: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

SYN7509_RS0221525: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | lanthipeptide-class-ii | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000554.4 |  | 0.58 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.5 |  | 0.53 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0002110.3 |  | 0.52 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0001391.3 |  | 0.52 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni
BGC0000525.5 |  | 0.51 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0001229.4 |  | 0.51 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0000516.4 |  | 0.50 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0001576.3 |  | 0.49 | ribosomal | divamide A | Prochloron didemni
BGC0002703.2 |  | 0.49 | ribosomal | archalan α | Halorussus salinus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000554.4 |  | 0.58 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.5 |  | 0.53 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0002110.3 |  | 0.52 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0001391.3 |  | 0.52 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni
BGC0000525.5 |  | 0.51 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0001229.4 |  | 0.51 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0000516.4 |  | 0.50 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0001576.3 |  | 0.49 | ribosomal | divamide A | Prochloron didemni
BGC0002703.2 |  | 0.49 | ribosomal | archalan α | Halorussus salinus

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.

#### Lanthipeptide(s) for SYN7509_RS0221490

SYN7509_RS31455
Leader:
MEEISAFSAHYNNIAALGNILFG
Core:
C V G T M F A A Q N K Y S T I T P
Core with dehydrations:
Cys V G Dhb M F A A Q N K Y Dha Dhb I Dhb P

#### antiSMASH-DB 4.0 matches for SYN7509_RS31455

100.0%
NZ_ALVU02000002.1:
Lanthipeptides: SYN7509_RS31455_lanthipeptide
1
C V G T M F A A Q N K Y S T I T P
17
C V G T M F A A Q N K Y S T I T P
1
C V G T M F A A Q N K Y S T I T P
17
SYN7509_RS27840
Leader:
MSHENIIRAWKDADFRNRLSEKERALLPKNPVGLVELTDAELGFAAGG
Core:
R Y N N T G D G G C S Q S P H C I
Core with dehydrations:
R Y N N Dhb G D G G Cys Dha Q Dha P H Cys I

#### antiSMASH-DB 4.0 matches for SYN7509_RS27840

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS27840_lanthipeptide
Lanthipeptides: SYN7509_RS27840_lanthipeptide
1
R Y N N T G D G G C S Q S P H C I
17
R Y N N T G D G G C S Q S P H C I
1
R Y N N T G D G G C S Q S P H C I
17
41.2%
NZ_CP094681.1 and 3 others:
NZ_JADNBM010000025.1 Lanthipeptides: allorf_12785_12913_lanthipeptide NZ_JAQDZW010000013.1 Lanthipeptides: allorf_048148_048276_lanthipeptide NZ_QVMC01000003.1 Lanthipeptides: allorf_247675_247803_lanthipeptide
Lanthipeptides: allorf_1123528_1123656_lanthipeptide
2
Y N N T G D G G
9
Y N N T G G G
5
Y N N T G K G G
12
22.2%
NC_002570.2 and 1 other:
NZ_CP040441.1 Lanthipeptides: allorf_0521154_0521291_lanthipeptide
Lanthipeptides: allorf_0482149_0482286_lanthipeptide
6
G D G G C S Q S P H C I
17
G D C S P C+
11
G D T N C S A R P S C L
22
SYN7509_RS26680
Leader:
MSHENIVRAWKDTEFCNSLSEKERLLLPENPVGLVQLTDAELGAVVGR
Core:
I A A V T D K T C P A L R R Y C
Core with dehydrations:
I A A V Dhb D K Dhb Cys P A L R R Y Cys

#### antiSMASH-DB 4.0 matches for SYN7509_RS26680

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS26680_lanthipeptide
Lanthipeptides: SYN7509_RS26680_lanthipeptide
1
I A A V T D K T C P A L R R Y C
16
I A A V T D K T C P A L R R Y C
1
I A A V T D K T C P A L R R Y C
16
21.9%
NZ_CACZYW010000004.1 and 3 others:
NZ_CACZYW010000004.1 Lanthipeptides: HUF10_RS02820_lanthipeptide NZ_FNHR01000005.1 Lanthipeptides: BLQ37_RS05585_lanthipeptide NZ_FNHR01000005.1 Lanthipeptides: BLQ37_RS05585_lanthipeptide
Lanthipeptides: HUF10_RS02820_lanthipeptide
2
A A V T D K T C P
10
A V+D K T C P
16
A Y V S D K T C P
24
21.4%
NZ_KV802313.1 and 1 other:
NZ_KV817389.1 Lanthipeptides: allorf_50141_50287_lanthipeptide
Lanthipeptides: allorf_165895_166041_lanthipeptide
8
T C P A L R R Y C
16
T P A R Y C
14
T S P A S E R Y C
22
with 4 more sequence matches
17.6%
NZ_JALANL010000003.1 and 3 others:
NZ_MUEI01000003.1 Lanthipeptides: BV582_RS23575_lanthipeptide NZ_NIJN01000002.1 Lanthipeptides: CHCC5027_RS22460_lanthipeptide NZ_NIMF01000037.1 Lanthipeptides: CHCC14814_RS22115_lanthipeptide
Lanthipeptides: MOC63_RS03255_lanthipeptide
1
I A A V T D K T C P A L R R Y C
16
I + K C P+ +R C
17
I C K W S I K Y C P S F K R K C
32
16.1%
NZ_AP026714.1 and 21 others:
NZ_AP026714.1 Lanthipeptides: PO853_RS06520_lanthipeptide NZ_CP028724.1 Lanthipeptides: C7I31_RS11270_lanthipeptide NZ_CP028724.1 Lanthipeptides: C7I31_RS11270_lanthipeptide NZ_CP092907.1 Lanthipeptides: MK744_RS03990_lanthipeptide NZ_CP092907.1 Lanthipeptides: MK744_RS03990_lanthipeptide NZ_KB944759.1 Lanthipeptides: WOA_RS09815_lanthipeptide NZ_KB944759.1 Lanthipeptides: WOA_RS09815_lanthipeptide NZ_KZ845892.1 Lanthipeptides: EB42_RS00090_lanthipeptide NZ_KZ845892.1 Lanthipeptides: EB42_RS00090_lanthipeptide NZ_KZ845958.1 Lanthipeptides: EB53_RS07695_lanthipeptide NZ_KZ845958.1 Lanthipeptides: EB53_RS07695_lanthipeptide NZ_LR607361.1 Lanthipeptides: FN738_RS03740_lanthipeptide NZ_LR607361.1 Lanthipeptides: FN738_RS03740_lanthipeptide NZ_LR607378.1 Lanthipeptides: FN751_RS00125_lanthipeptide NZ_LR607378.1 Lanthipeptides: FN751_RS00125_lanthipeptide NZ_LSFS01000007.1 Lanthipeptides: AW733_RS07745_lanthipeptide NZ_LSFS01000007.1 Lanthipeptides: AW733_RS07745_lanthipeptide NZ_NGMP01000002.1 Lanthipeptides: A5830_RS04680_lanthipeptide NZ_NGMP01000002.1 Lanthipeptides: A5830_RS04680_lanthipeptide NZ_NGMV01000001.1 Lanthipeptides: A5824_RS07985_lanthipeptide NZ_NGMV01000001.1 Lanthipeptides: A5824_RS07985_lanthipeptide
Lanthipeptides: PO853_RS06520_lanthipeptide
4
V T D K T C P
10
++D K T C P
17
I S D K T C P
23
15.4%
NZ_NTWJ01000043.1 and 1 other:
NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS31525_lanthipeptide
Lanthipeptides: CN427_RS31525_lanthipeptide
5
T D K T C P A L
12
+D K T C P L
26
S D K T C P T L
33
14.7%
NZ_CP023481.1 and 3 others:
NZ_FOHE01000009.1 Lanthipeptides: BMX40_RS20255_lanthipeptide NZ_JALARN010000006.1 Lanthipeptides: MOE03_RS17410_lanthipeptide NZ_JAQCPU010000013.1 Lanthipeptides: PG077_RS20425_lanthipeptide
Lanthipeptides: COP00_RS24795_lanthipeptide
7
K T C P A L R R Y C
16
K C P+ +R C
23
K Y C P S F K R K C
32
SYN7509_RS26685
Leader:
MSHENIIRAWKDEEFRNSLSEKERALLPENPVGLVELTNNELGNVSGG
Core:
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
Core with dehydrations:
R R N D D Dhb L G G Dha Y D Cys Dhb Y I Cys Cys V Dhb V K R Q D P L

#### antiSMASH-DB 4.0 matches for SYN7509_RS26685

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS26685_lanthipeptide
Lanthipeptides: SYN7509_RS26685_lanthipeptide
1
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
27
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
1
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
27
25.9%
NZ_FONG01000023.1 and 4 others:
NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide
Lanthipeptides: BM076_RS29665_lanthipeptide
7
L G G S Y D C T Y I C C V T V K R Q D
25
+G G S+ ++ C C T D
2
I G G S W Q W S F S C C D T T L C S D
20
21.1%
NZ_KQ236748.1:
Lanthipeptides: HMPREF0980_RS19040_lanthipeptide
6
T L G G S Y D C T Y I C C
18
T L S C T I C C
25
T L A C S Q F C T I I C C
37
with 2 more sequence matches
15.4%
NZ_CP045142.1:
Lanthipeptides: allorf_1407493_1407663_lanthipeptide
14
T Y I C C V T V K R Q D P
26
T + C V + R D P
16
T I V N C V V I L R S D P
28
11.9%
NZ_KB903838.1:
Lanthipeptides: A3G1_RS0131055_lanthipeptide
10
S Y D C T Y I C C
18
S+ C T+ C C
32
S F A C T W P C C
40

#### MIBiG 4.0 matches for SYN7509_RS26685

7.8%
BGC0002120.3 (NQE92413.1):
Lanthipeptide: nocathioamide A
1
R R N D D T L G G S Y D
12
+R N++ Y D
5
K R N E E V A E S G Y D
16
SYN7509_RS28800
Leader:
MSHENIIRAWKDENYRQSLTPEEQSLLPANPAGMLELTDTQLENAAGG
Core:
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
Core with dehydrations:
R K F Dhb Y G G D E Dha Cys N Dha G I I A Cys Dhb L P L I Cys G V E K

#### antiSMASH-DB 4.0 matches for SYN7509_RS28800

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS28800_lanthipeptide
Lanthipeptides: SYN7509_RS28800_lanthipeptide
1
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
28
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
1
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
28
30.0%
NZ_CYXV01000003.1:
Lanthipeptides: ARB75_RS04585_lanthipeptide
12
N S G I I A C T L P L I C G V
26
N S G I A C T L C +
6
N S G G I A C T L T G E C N I
20
25.0%
NZ_JH992901.1 and 1 other:
NZ_JH992901.1 Lanthipeptides: allorf_3864187_3864270_lanthipeptide
Lanthipeptides: allorf_3866459_3866542_lanthipeptide
16
I A C T L P L I C G V E K
28
+ C T L I C V K
2
V L C T Q E L I C K V R K
14
with 5 more sequence matches
24.1%
NZ_JAGFVL010000062.1:
Lanthipeptides: J5J03_RS19425_lanthipeptide
4
T Y G G D E S C N S G I I A C T L P L I C
24
++ G D +C++G I C+ C
9
S F T G D C T C D N G I T V C S W S G C C
29
19.4%
NZ_FOMK01000014.1:
Lanthipeptides: allorf_183755_183922_lanthipeptide
7
G D E S C N S G I I
16
G D S C N+G +
20
G D A S C N T G N V
29
18.2%
NZ_CP031598.1:
Lanthipeptides: allorf_1758445_1758579_lanthipeptide
8
D E S C N S G I I A
17
++S C N+ I I A
15
N Q S C N A R I I A
24
17.3%
NZ_CZAY01000009.1 and 12 others:
NZ_CZBA01000009.1 Lanthipeptides: ARA06_RS08755_lanthipeptide NZ_CZBB01000003.1 Lanthipeptides: ARA29_RS04330_lanthipeptide NZ_JADPDU010000003.1 Lanthipeptides: I4V06_RS02990_lanthipeptide NZ_JAOQJU010000001.1 Lanthipeptides: OCV99_RS00835_lanthipeptide NZ_JAQCSY010000025.1 Lanthipeptides: PGZ10_RS13865_lanthipeptide NZ_JAQEDC010000020.1 Lanthipeptides: PHA23_RS12680_lanthipeptide NZ_QRZZ01000001.1 Lanthipeptides: DWV87_RS01465_lanthipeptide NZ_QSUB01000001.1 Lanthipeptides: DXB81_RS03120_lanthipeptide NZ_QUCI01000019.1 Lanthipeptides: DW648_RS14740_lanthipeptide NZ_QULD01000003.1 Lanthipeptides: DXB83_RS07060_lanthipeptide NZ_QULI01000007.1 Lanthipeptides: DXB71_RS08970_lanthipeptide NZ_SLZV01000043.1 Lanthipeptides: EDD74_RS14380_lanthipeptide
Lanthipeptides: ARA07_RS06830_lanthipeptide
1
R K F T Y G G D E S C N S G I I A C T
19
K F G E+ N S G + C T
16
N K F V A G A G E T R N S G G V L C T
34
15.9%
NZ_CP031648.1 and 2 others:
NZ_CP048607.1 Lanthipeptides: allorf_4200694_4200858_lanthipeptide NZ_CP048810.1 Lanthipeptides: allorf_5142037_5142201_lanthipeptide
Lanthipeptides: allorf_4581527_4581691_lanthipeptide
3
F T Y G G D E S C N S G I I A C T L P L
22
+ G D C S G +P L
14
Y A L G R D A P C Q S G T G G A R M P L
33

#### MIBiG 4.0 matches for SYN7509_RS28800

9.8%
BGC0002120.3 (NQE92413.1):
Lanthipeptide: nocathioamide A
7
G D E S C N S G I I A C
18
D E S A C
29
D D E S S R P A A P A C
40
SYN7509_RS0221520
Leader:
MSNENIIRAWKDREFRNSLSKQESELLPTHPAGLVELIDEDLGAAAGGIRAEDTHYM
Core:
S K C I V C C
Core with dehydrations:
Dha K Cys I V Cys Cys

#### antiSMASH-DB 4.0 matches for SYN7509_RS0221520

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS0221520_lanthipeptide
Lanthipeptides: SYN7509_RS0221520_lanthipeptide
1
S K C I V C C
7
S K C I V C C
1
S K C I V C C
7
allorf_079353_079487
Leader:
MIVLKGLEAG
Core:
V K N L S C E A K Y Q E A V K K A R H F F L R L Q E Q L Q W R P K R
Core with dehydrations:
V K N L Dha Cys E A K Y Q E A V K K A R H F F L R L Q E Q L Q W R P K R

#### Lanthipeptide(s) for SYN7509_RS0221525

SYN7509_RS27840
Leader:
MSHENIIRAWKDADFRNRLSEKERALLPKNPVGLVELTDAELGFAAGG
Core:
R Y N N T G D G G C S Q S P H C I
Core with dehydrations:
R Y N N Dhb G D G G Cys Dha Q Dha P H Cys I

#### antiSMASH-DB 4.0 matches for SYN7509_RS27840

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS27840_lanthipeptide
Lanthipeptides: SYN7509_RS27840_lanthipeptide
1
R Y N N T G D G G C S Q S P H C I
17
R Y N N T G D G G C S Q S P H C I
1
R Y N N T G D G G C S Q S P H C I
17
41.2%
NZ_CP094681.1 and 3 others:
NZ_JADNBM010000025.1 Lanthipeptides: allorf_12785_12913_lanthipeptide NZ_JAQDZW010000013.1 Lanthipeptides: allorf_048148_048276_lanthipeptide NZ_QVMC01000003.1 Lanthipeptides: allorf_247675_247803_lanthipeptide
Lanthipeptides: allorf_1123528_1123656_lanthipeptide
2
Y N N T G D G G
9
Y N N T G G G
5
Y N N T G K G G
12
22.2%
NC_002570.2 and 1 other:
NZ_CP040441.1 Lanthipeptides: allorf_0521154_0521291_lanthipeptide
Lanthipeptides: allorf_0482149_0482286_lanthipeptide
6
G D G G C S Q S P H C I
17
G D C S P C+
11
G D T N C S A R P S C L
22
SYN7509_RS26680
Leader:
MSHENIVRAWKDTEFCNSLSEKERLLLPENPVGLVQLTDAELGAVVGR
Core:
I A A V T D K T C P A L R R Y C
Core with dehydrations:
I A A V Dhb D K Dhb Cys P A L R R Y Cys

#### antiSMASH-DB 4.0 matches for SYN7509_RS26680

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS26680_lanthipeptide
Lanthipeptides: SYN7509_RS26680_lanthipeptide
1
I A A V T D K T C P A L R R Y C
16
I A A V T D K T C P A L R R Y C
1
I A A V T D K T C P A L R R Y C
16
21.9%
NZ_CACZYW010000004.1 and 3 others:
NZ_CACZYW010000004.1 Lanthipeptides: HUF10_RS02820_lanthipeptide NZ_FNHR01000005.1 Lanthipeptides: BLQ37_RS05585_lanthipeptide NZ_FNHR01000005.1 Lanthipeptides: BLQ37_RS05585_lanthipeptide
Lanthipeptides: HUF10_RS02820_lanthipeptide
2
A A V T D K T C P
10
A V+D K T C P
16
A Y V S D K T C P
24
21.4%
NZ_KV802313.1 and 1 other:
NZ_KV817389.1 Lanthipeptides: allorf_50141_50287_lanthipeptide
Lanthipeptides: allorf_165895_166041_lanthipeptide
8
T C P A L R R Y C
16
T P A R Y C
14
T S P A S E R Y C
22
with 4 more sequence matches
17.6%
NZ_JALANL010000003.1 and 3 others:
NZ_MUEI01000003.1 Lanthipeptides: BV582_RS23575_lanthipeptide NZ_NIJN01000002.1 Lanthipeptides: CHCC5027_RS22460_lanthipeptide NZ_NIMF01000037.1 Lanthipeptides: CHCC14814_RS22115_lanthipeptide
Lanthipeptides: MOC63_RS03255_lanthipeptide
1
I A A V T D K T C P A L R R Y C
16
I + K C P+ +R C
17
I C K W S I K Y C P S F K R K C
32
16.1%
NZ_AP026714.1 and 21 others:
NZ_AP026714.1 Lanthipeptides: PO853_RS06520_lanthipeptide NZ_CP028724.1 Lanthipeptides: C7I31_RS11270_lanthipeptide NZ_CP028724.1 Lanthipeptides: C7I31_RS11270_lanthipeptide NZ_CP092907.1 Lanthipeptides: MK744_RS03990_lanthipeptide NZ_CP092907.1 Lanthipeptides: MK744_RS03990_lanthipeptide NZ_KB944759.1 Lanthipeptides: WOA_RS09815_lanthipeptide NZ_KB944759.1 Lanthipeptides: WOA_RS09815_lanthipeptide NZ_KZ845892.1 Lanthipeptides: EB42_RS00090_lanthipeptide NZ_KZ845892.1 Lanthipeptides: EB42_RS00090_lanthipeptide NZ_KZ845958.1 Lanthipeptides: EB53_RS07695_lanthipeptide NZ_KZ845958.1 Lanthipeptides: EB53_RS07695_lanthipeptide NZ_LR607361.1 Lanthipeptides: FN738_RS03740_lanthipeptide NZ_LR607361.1 Lanthipeptides: FN738_RS03740_lanthipeptide NZ_LR607378.1 Lanthipeptides: FN751_RS00125_lanthipeptide NZ_LR607378.1 Lanthipeptides: FN751_RS00125_lanthipeptide NZ_LSFS01000007.1 Lanthipeptides: AW733_RS07745_lanthipeptide NZ_LSFS01000007.1 Lanthipeptides: AW733_RS07745_lanthipeptide NZ_NGMP01000002.1 Lanthipeptides: A5830_RS04680_lanthipeptide NZ_NGMP01000002.1 Lanthipeptides: A5830_RS04680_lanthipeptide NZ_NGMV01000001.1 Lanthipeptides: A5824_RS07985_lanthipeptide NZ_NGMV01000001.1 Lanthipeptides: A5824_RS07985_lanthipeptide
Lanthipeptides: PO853_RS06520_lanthipeptide
4
V T D K T C P
10
++D K T C P
17
I S D K T C P
23
15.4%
NZ_NTWJ01000043.1 and 1 other:
NZ_NTWJ01000043.1 Lanthipeptides: CN427_RS31525_lanthipeptide
Lanthipeptides: CN427_RS31525_lanthipeptide
5
T D K T C P A L
12
+D K T C P L
26
S D K T C P T L
33
14.7%
NZ_CP023481.1 and 3 others:
NZ_FOHE01000009.1 Lanthipeptides: BMX40_RS20255_lanthipeptide NZ_JALARN010000006.1 Lanthipeptides: MOE03_RS17410_lanthipeptide NZ_JAQCPU010000013.1 Lanthipeptides: PG077_RS20425_lanthipeptide
Lanthipeptides: COP00_RS24795_lanthipeptide
7
K T C P A L R R Y C
16
K C P+ +R C
23
K Y C P S F K R K C
32
SYN7509_RS26685
Leader:
MSHENIIRAWKDEEFRNSLSEKERALLPENPVGLVELTNNELGNVSGG
Core:
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
Core with dehydrations:
R R N D D Dhb L G G Dha Y D Cys Dhb Y I Cys Cys V Dhb V K R Q D P L

#### antiSMASH-DB 4.0 matches for SYN7509_RS26685

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS26685_lanthipeptide
Lanthipeptides: SYN7509_RS26685_lanthipeptide
1
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
27
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
1
R R N D D T L G G S Y D C T Y I C C V T V K R Q D P L
27
25.9%
NZ_FONG01000023.1 and 4 others:
NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide
Lanthipeptides: BM076_RS29665_lanthipeptide
7
L G G S Y D C T Y I C C V T V K R Q D
25
+G G S+ ++ C C T D
2
I G G S W Q W S F S C C D T T L C S D
20
21.1%
NZ_KQ236748.1:
Lanthipeptides: HMPREF0980_RS19040_lanthipeptide
6
T L G G S Y D C T Y I C C
18
T L S C T I C C
25
T L A C S Q F C T I I C C
37
with 2 more sequence matches
15.4%
NZ_CP045142.1:
Lanthipeptides: allorf_1407493_1407663_lanthipeptide
14
T Y I C C V T V K R Q D P
26
T + C V + R D P
16
T I V N C V V I L R S D P
28
11.9%
NZ_KB903838.1:
Lanthipeptides: A3G1_RS0131055_lanthipeptide
10
S Y D C T Y I C C
18
S+ C T+ C C
32
S F A C T W P C C
40

#### MIBiG 4.0 matches for SYN7509_RS26685

7.8%
BGC0002120.3 (NQE92413.1):
Lanthipeptide: nocathioamide A
1
R R N D D T L G G S Y D
12
+R N++ Y D
5
K R N E E V A E S G Y D
16
SYN7509_RS28800
Leader:
MSHENIIRAWKDENYRQSLTPEEQSLLPANPAGMLELTDTQLENAAGG
Core:
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
Core with dehydrations:
R K F Dhb Y G G D E Dha Cys N Dha G I I A Cys Dhb L P L I Cys G V E K

#### antiSMASH-DB 4.0 matches for SYN7509_RS28800

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS28800_lanthipeptide
Lanthipeptides: SYN7509_RS28800_lanthipeptide
1
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
28
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
1
R K F T Y G G D E S C N S G I I A C T L P L I C G V E K
28
30.0%
NZ_CYXV01000003.1:
Lanthipeptides: ARB75_RS04585_lanthipeptide
12
N S G I I A C T L P L I C G V
26
N S G I A C T L C +
6
N S G G I A C T L T G E C N I
20
25.0%
NZ_JH992901.1 and 1 other:
NZ_JH992901.1 Lanthipeptides: allorf_3864187_3864270_lanthipeptide
Lanthipeptides: allorf_3866459_3866542_lanthipeptide
16
I A C T L P L I C G V E K
28
+ C T L I C V K
2
V L C T Q E L I C K V R K
14
with 5 more sequence matches
24.1%
NZ_JAGFVL010000062.1:
Lanthipeptides: J5J03_RS19425_lanthipeptide
4
T Y G G D E S C N S G I I A C T L P L I C
24
++ G D +C++G I C+ C
9
S F T G D C T C D N G I T V C S W S G C C
29
19.4%
NZ_FOMK01000014.1:
Lanthipeptides: allorf_183755_183922_lanthipeptide
7
G D E S C N S G I I
16
G D S C N+G +
20
G D A S C N T G N V
29
18.2%
NZ_CP031598.1:
Lanthipeptides: allorf_1758445_1758579_lanthipeptide
8
D E S C N S G I I A
17
++S C N+ I I A
15
N Q S C N A R I I A
24
17.3%
NZ_CZAY01000009.1 and 12 others:
NZ_CZBA01000009.1 Lanthipeptides: ARA06_RS08755_lanthipeptide NZ_CZBB01000003.1 Lanthipeptides: ARA29_RS04330_lanthipeptide NZ_JADPDU010000003.1 Lanthipeptides: I4V06_RS02990_lanthipeptide NZ_JAOQJU010000001.1 Lanthipeptides: OCV99_RS00835_lanthipeptide NZ_JAQCSY010000025.1 Lanthipeptides: PGZ10_RS13865_lanthipeptide NZ_JAQEDC010000020.1 Lanthipeptides: PHA23_RS12680_lanthipeptide NZ_QRZZ01000001.1 Lanthipeptides: DWV87_RS01465_lanthipeptide NZ_QSUB01000001.1 Lanthipeptides: DXB81_RS03120_lanthipeptide NZ_QUCI01000019.1 Lanthipeptides: DW648_RS14740_lanthipeptide NZ_QULD01000003.1 Lanthipeptides: DXB83_RS07060_lanthipeptide NZ_QULI01000007.1 Lanthipeptides: DXB71_RS08970_lanthipeptide NZ_SLZV01000043.1 Lanthipeptides: EDD74_RS14380_lanthipeptide
Lanthipeptides: ARA07_RS06830_lanthipeptide
1
R K F T Y G G D E S C N S G I I A C T
19
K F G E+ N S G + C T
16
N K F V A G A G E T R N S G G V L C T
34
15.9%
NZ_CP031648.1 and 2 others:
NZ_CP048607.1 Lanthipeptides: allorf_4200694_4200858_lanthipeptide NZ_CP048810.1 Lanthipeptides: allorf_5142037_5142201_lanthipeptide
Lanthipeptides: allorf_4581527_4581691_lanthipeptide
3
F T Y G G D E S C N S G I I A C T L P L
22
+ G D C S G +P L
14
Y A L G R D A P C Q S G T G G A R M P L
33

#### MIBiG 4.0 matches for SYN7509_RS28800

9.8%
BGC0002120.3 (NQE92413.1):
Lanthipeptide: nocathioamide A
7
G D E S C N S G I I A C
18
D E S A C
29
D D E S S R P A A P A C
40
SYN7509_RS0221520
Leader:
MSNENIIRAWKDREFRNSLSKQESELLPTHPAGLVELIDEDLGAAAGGIRAEDTHYM
Core:
S K C I V C C
Core with dehydrations:
Dha K Cys I V Cys Cys

#### antiSMASH-DB 4.0 matches for SYN7509_RS0221520

100.0%
NZ_ALVU02000002.1 and 1 other:
NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS0221520_lanthipeptide
Lanthipeptides: SYN7509_RS0221520_lanthipeptide
1
S K C I V C C
7
S K C I V C C
1
S K C I V C C
7
allorf_079353_079487
Leader:
MIVLKGLEAG
Core:
V K N L S C E A K Y Q E A V K K A R H F F L R L Q E Q L Q W R P K R
Core with dehydrations:
V K N L Dha Cys E A K Y Q E A V K K A R H F F L R L Q E Q L Q W R P K R
allorf_084117_084311
Leader:
MRTFQPMDVFWMSYFLILFWKKSFADKRREGDNAQPHFRYSRKSRAYA
Core:
K T S N I L L S L D C S V L T F
Core with dehydrations:
K Dhb Dha N I L L Dha L D Cys Dha V L Dhb F

#### antiSMASH-DB 4.0 matches for allorf_084117_084311

100.0%
NZ_ALVU02000002.1:
Lanthipeptides: allorf_084117_084311_lanthipeptide
1
K T S N I L L S L D C S V L T F
16
K T S N I L L S L D C S V L T F
1
K T S N I L L S L D C S V L T F
16

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.64 out of 27.78
Confidence: medium
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.76 out of 29.25
Confidence: medium
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 23.33 out of 29.72
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.70 out of 28.19
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.25 out of 32.93
Confidence: medium
Additional weak hits (3):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.19 out of 29.38
Confidence: weak
RicR
Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 21.62 out of 32.93
Confidence: weak
CsoR
Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 23.18 out of 32.38
Confidence: weak
Lanthipeptides
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

SYN7509_RS31455 - Class II
  Cleavage pHMM score: -2.70
  RODEO score: 0
  Monoisotopic mass: 1758.9 Da
  Molecular weight: 1760.0 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1778.0 Da N = 1
    1796.1 Da N = 2
    1814.1 Da N = 3
SYN7509_RS27840 - Class II
  Cleavage pHMM score: -3.40
  RODEO score: 0
  Monoisotopic mass: 1753.7 Da
  Molecular weight: 1754.8 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1772.9 Da N = 1
SYN7509_RS26680 - Class II
  Cleavage pHMM score: -4.10
  RODEO score: 0
  Monoisotopic mass: 1743.9 Da
  Molecular weight: 1745.1 Da
  Number of bridges: 2
SYN7509_RS26685 - Class II
  Cleavage pHMM score: 1.20
  RODEO score: 0
  Monoisotopic mass: 3018.4 Da
  Molecular weight: 3020.4 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3038.4 Da N = 1
SYN7509_RS28800 - Class II
  Cleavage pHMM score: -1.30
  RODEO score: 0
  Monoisotopic mass: 2901.4 Da
  Molecular weight: 2903.3 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2921.4 Da N = 1
SYN7509_RS0221520 - Class II
  Cleavage pHMM score: -2.80
  RODEO score: 0
  Monoisotopic mass: 736.3 Da
  Molecular weight: 737.0 Da
  Number of bridges: 1
allorf_079353_079487 - Class II
  Cleavage pHMM score: -6.30
  RODEO score: 0
  Monoisotopic mass: 4209.3 Da
  Molecular weight: 4211.9 Da
  Number of bridges: 1
SYN7509_RS27840 - Class II
  Cleavage pHMM score: -3.40
  RODEO score: 0
  Monoisotopic mass: 1753.7 Da
  Molecular weight: 1754.8 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1772.9 Da N = 1
SYN7509_RS26680 - Class II
  Cleavage pHMM score: -4.10
  RODEO score: 0
  Monoisotopic mass: 1743.9 Da
  Molecular weight: 1745.1 Da
  Number of bridges: 2
SYN7509_RS26685 - Class II
  Cleavage pHMM score: 1.20
  RODEO score: 0
  Monoisotopic mass: 3018.4 Da
  Molecular weight: 3020.4 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3038.4 Da N = 1
SYN7509_RS28800 - Class II
  Cleavage pHMM score: -1.30
  RODEO score: 0
  Monoisotopic mass: 2901.4 Da
  Molecular weight: 2903.3 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2921.4 Da N = 1
SYN7509_RS0221520 - Class II
  Cleavage pHMM score: -2.80
  RODEO score: 0
  Monoisotopic mass: 736.3 Da
  Molecular weight: 737.0 Da
  Number of bridges: 1
allorf_079353_079487 - Class II
  Cleavage pHMM score: -6.30
  RODEO score: 0
  Monoisotopic mass: 4209.3 Da
  Molecular weight: 4211.9 Da
  Number of bridges: 1
allorf_084117_084311 - Class II
  Cleavage pHMM score: -6.80
  RODEO score: 0
  Monoisotopic mass: 1662.9 Da
  Molecular weight: 1664.0 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1682.0 Da N = 1
    1700.0 Da N = 2
    1718.0 Da N = 3
    1736.0 Da N = 4

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 3 | Repressor of DNA damage response
MexT | Global virulence regulator
NtrC | Nitrogen regulatory protein C
SypG | Regulator of biofilm formation and host colonization
ZuR variant 1 | Zinc-responsive repressor