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Overview
1.1
1.2
1.3

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

NC_015600.1 (Streptococcus pasteurianus ATCC 43144)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1 | terpene-precursor | 509,829 | 530,698 |
Region 2 | lanthipeptide-class-i | 1,131,829 | 1,157,862 | High | suicin 90-1330 | ribosomal:RiPP
Region 3 | T3PKS | 1,194,075 | 1,235,253 |

NC_015600.1 - Region 1 - 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: 509,829 - 530,698 nt. (total: 20,870 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
Transferases: carbamoyltransferase
SGPB_RS02730: ornithine carbamoyltransferase

smcogs
  SMCOG1114: ornithine carbamoyltransferase

Ligases: synthetase
SGPB_RS02785: 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 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002635.2 |  | 0.38 | ribosomal | daspyromycin A, daspyromycin B | Actinokineospora diospyrosa
BGC0000542.3 |  | 0.37 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000541.5 |  | 0.37 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000555.3 |  | 0.37 | ribosomal | staphylococcin C55 α, staphylococcin C55 β | Staphylococcus aureus
BGC0001407.5 |  | 0.37 | ribosomal | bicereucin | Bacillus cereus SJ1
BGC0000488.4 |  | 0.37 | ribosomal | circularin A | Clostridium beijerinckii
BGC0000552.3 |  | 0.36 | ribosomal | SmbA, SmbB | Streptococcus mutans

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002635.2 |  | 0.38 | ribosomal | daspyromycin A, daspyromycin B | Actinokineospora diospyrosa
BGC0000542.3 |  | 0.37 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000541.5 |  | 0.37 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000555.3 |  | 0.37 | ribosomal | staphylococcin C55 α, staphylococcin C55 β | Staphylococcus aureus
BGC0001407.5 |  | 0.37 | ribosomal | bicereucin | Bacillus cereus SJ1
BGC0000488.4 |  | 0.37 | ribosomal | circularin A | Clostridium beijerinckii
BGC0000552.3 |  | 0.36 | ribosomal | SmbA, SmbB | Streptococcus mutans

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:

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

Genes with terpene domains:
SGPB_RS02785: PT_FPPS_like
Domain 1 (25 - 273): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:
  IPP, DMAPP → FPP

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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.38 out of 25.88
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.06 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.88 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.35 out of 26.06
Confidence: medium
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 22.86 out of 26.12
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 26.74 out of 27.78
Confidence: strong
Additional weak hits (4):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.05 out of 32.74
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 23.25 out of 30.98
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.54 out of 28.14
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.

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

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LuxO | Repressor of luminescence
MogR | Repressor of flagellar motility genes
PsrA | Oleic acid responsive regulator
ToxT | Regulator of MSHA biosynthesis

NC_015600.1 - Region 2 - lanthipeptide-class-i
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: 1,131,829 - 1,157,862 nt. (total: 26,034 nt) Show pHMM detection rules used
lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))

#### 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
Hydrolases: protease
SGPB_RS05775: alkaline serine protease, subtilase family

smcogs
  SMCOG1075: alkaline serine protease, subtilase family

Lyases: cyclase dehydratase
SGPB_RS05735: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

SGPB_RS05745: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase domain 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-i | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001789.3 |  | 0.94 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000537.3 |  | 0.85 | ribosomal | nisin U | Streptococcus uberis
BGC0000538.3 |  | 0.73 | ribosomal | nisin Z | Lactococcus lactis
BGC0000536.3 |  | 0.71 | ribosomal | nisin Q | Lactococcus lactis
BGC0000535.4 |  | 0.71 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000506.4 |  | 0.56 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii
BGC0000556.5 |  | 0.55 | ribosomal | streptin | Streptococcus pyogenes
BGC0000549.3 |  | 0.55 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0000559.4 |  | 0.55 | ribosomal | subtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0000541.5 |  | 0.53 | ribosomal | paenicidin A | Paenibacillus polymyxa

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001789.3 |  | 0.94 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000537.3 |  | 0.85 | ribosomal | nisin U | Streptococcus uberis
BGC0000538.3 |  | 0.73 | ribosomal | nisin Z | Lactococcus lactis
BGC0000536.3 |  | 0.71 | ribosomal | nisin Q | Lactococcus lactis
BGC0000535.4 |  | 0.71 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000506.4 |  | 0.56 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii
BGC0000556.5 |  | 0.55 | ribosomal | streptin | Streptococcus pyogenes
BGC0000549.3 |  | 0.55 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0000559.4 |  | 0.55 | ribosomal | subtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0000541.5 |  | 0.53 | ribosomal | paenicidin A | Paenibacillus polymyxa

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.

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 SGPB_RS05745

SGPB_RS10680
Leader:
MNNEDFNLDLVTISKENNSGASPR
Core:
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
Core with dehydrations:
V Dhb Dha K Dha L Cys Dhb P G Cys K Dhb G I L M Dhb Cys A I K Dhb A Dhb Cys G Cys H F G

#### antiSMASH-DB 4.0 matches for SGPB_RS10680

100.0%
NC_015600.1 and 14 others:
NZ_AP020310.1 Lanthipeptides: SAGCMC97051_RS07300_lanthipeptide NZ_ATVP01000001.1 Lanthipeptides: G574_RS11150_lanthipeptide NZ_BCFB01000042.1 Lanthipeptides: GOZ36_RS07980_lanthipeptide NZ_CP068708.1 Lanthipeptides: JM964_RS04040_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_FIKS01000005.1 Lanthipeptides: A0525_RS10015_lanthipeptide NZ_GL636070.1 Lanthipeptides: HMPREF9171_RS106200_lanthipeptide NZ_JADPLU010000018.1 Lanthipeptides: I4V82_RS09545_lanthipeptide NZ_JAKVIE010000017.1 Lanthipeptides: MK857_RS08340_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_LR594050.1 Lanthipeptides: FGL20_RS03485_lanthipeptide NZ_SSXN01000004.1 Lanthipeptides: FAJ36_RS04715_lanthipeptide
Lanthipeptides: SGPB_RS10680_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
31
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
31
96.9%
NZ_JAMDIB010000004.1:
Lanthipeptides: M5P35_RS04030_lanthipeptide
1
V T S K S L C T P-G C K T G I L M T C A I K T A T C G C H F G
31
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
1
V T S K S L C T P P G C K T G I L M T C A I K T A T C G C H F G
32
93.5%
NZ_CP024974.1 and 1 other:
NZ_JAIMDQ010000006.1 Lanthipeptides: K6V44_RS04045_lanthipeptide
Lanthipeptides: CVO91_RS06555_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
V T S S L C T P G C K T G I L M T C A I K T A T C G C H F
1
V T S I S L C T P G C K T G I L M T C A I K T A T C G C H F
30
with 99 more sequence matches
Only the first 10 are displayed here.
87.5%
NZ_CP059471.1 and 3 others:
NZ_FNZW01000001.1 Lanthipeptides: BMZ61_RS02110_lanthipeptide NZ_FOYC01000001.1 Lanthipeptides: BMZ88_RS03370_lanthipeptide NZ_KE384124.1 Lanthipeptides: G597_RS0106700_lanthipeptide
Lanthipeptides: H1R75_RS06635_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
31
+T S K S L C T P G C K T G L M T C I K T A T C G C H F G
1
I T S K S L C T P G C K T G A L M T C P I K T A T C G C H F G
31
77.8%
NZ_NHVL01000013.1 and 1 other:
NZ_NHVL01000013.1 Lanthipeptides: CEU70_RS16830_lanthipeptide
Lanthipeptides: CEU70_RS16825_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C--H F G
31
V T S K S L C T P G C K T G I L T C A I K+A T C G C H G
3
V T S K S L C T P G C K T G I L Q T C A I K S A T C G C S I H I G
35
69.7%
NZ_CP015405.2 and 7 others:
NZ_CP015405.2 Lanthipeptides: A4V09_RS08295_lanthipeptide NZ_CP015405.2 Lanthipeptides: A4V09_RS08290_lanthipeptide NZ_CP015405.2 Lanthipeptides: A4V09_RS08285_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06240_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06235_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06230_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06225_lanthipeptide
Lanthipeptides: A4V09_RS08300_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
+T S K S L C T P G C T G I L M T C ++T A T C G C
1
I T S K S L C T P G C V T G I L M T C P V Q T A T C G C Q I
30
69.7%
NZ_JADNJR010000016.1 and 2 others:
NZ_JADNJR010000016.1 Lanthipeptides: I2E58_RS10875_lanthipeptide NZ_QSHK01000002.1 Lanthipeptides: DW860_RS04740_lanthipeptide
Lanthipeptides: I2E58_RS10880_lanthipeptide
3
S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
S K S C T P G C T G I L M T C +K T A T C G C H
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
69.7%
NZ_QSHK01000002.1 and 1 other:
NZ_QSHK01000002.1 Lanthipeptides: DW860_RS04730_lanthipeptide
Lanthipeptides: DW860_RS04735_lanthipeptide
3
S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
S K S+C T P G C T G I L M T C +K T A T C G C H
3
S K S V C T P G C P T G I L M T C P L K T A T C G C H I
30
66.7%
NZ_FNDP01000013.1 and 1 other:
NZ_FNDP01000013.1 Lanthipeptides: BLP54_RS11220_lanthipeptide
Lanthipeptides: BLP54_RS11225_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C--H F G
31
+T S K S L C T P G C T G+L M C A +A T C C H G
1
I T S K S L C T P G C V T G L L M G C A G S S A T C N C S V H V G
33
65.7%
NZ_FNDP01000013.1:
Lanthipeptides: BLP54_RS11230_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C--H F G
31
+T S K S L C T P G C T G+L M C K T A T C C H G
3
I T S K S L C T P G C V T G V L M G C N N K T A T C N C S V H V G
35
64.7%
NZ_CP090412.1 and 3 others:
NZ_QSTB01000004.1 Lanthipeptides: DXC22_RS03785_lanthipeptide NZ_VSTZ01000009.1 Lanthipeptides: FYK98_RS07445_lanthipeptide NZ_VSTZ01000009.1 Lanthipeptides: FYK98_RS07445_lanthipeptide
Lanthipeptides: LZF92_RS09890_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
+T S S L C T P G C K T G L M C +K T A+C G C H
1
I T S Y S L C T P G C K T G A L M G C T M K T A S C G C H V
30
64.7%
NZ_FBTD01000003.1:
Lanthipeptides: PB1E_RS03075_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
+T S S L C T P G C K T G L M C +K T A+C G C H
1
I T S V S L C T P G C K T G A L M G C N M K T A S C G C H V
30
62.9%
NZ_CP013655.1 and 2 others:
NZ_CP013655.1 Lanthipeptides: ATZ35_RS03635_lanthipeptide NZ_CP013655.1 Lanthipeptides: ATZ35_RS03630_lanthipeptide
Lanthipeptides: ATZ35_RS03640_lanthipeptide
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
31
+T S K S L C T P G C T G+L M C A+K T T C C G
1
I T S K S L C T P G C V T G V L M G C A L K T I T C N C S V G
31

#### MIBiG 4.0 matches for SGPB_RS10680

61.8%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C
28
+T S S L C T P G C K T G L M C +K T A T C C
1
I T S I S L C T P G C K T G A L M G C N M K T A T C H C
28

#### 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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.52 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.95 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.54 out of 27.78
Confidence: strong
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.82 out of 29.25
Confidence: medium
Additional weak hits (4):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.54 out of 30.25
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.44 out of 29.65
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.31 out of 27.18
Confidence: weak
Lanthipeptides
RREFinder
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.

SGPB_RS10680 - Class I
  Cleavage pHMM score: 27.40
  RODEO score: 28
  Monoisotopic mass: 2987.5 Da
  Molecular weight: 2989.6 Da
  Number of bridges: 5
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3007.6 Da N = 1
    3025.7 Da N = 2
    3043.7 Da N = 3

RRE predictions
RREfinder results sidepanel.

lanthipeptide-class-i protocluster (1131828...1157862)
SGPB_RS05745
  RRE type: Lanthipeptide_LanB_RRE
  Location: 144 - 226
  Score: 27.0

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
MogR | Repressor of flagellar motility genes
SypG | Regulator of biofilm formation and host colonization

NC_015600.1 - Region 3 - T3PKS
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
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Location: 1,194,075 - 1,235,253 nt. (total: 41,179 nt) Show pHMM detection rules used
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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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
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 reductase
SGPB_RS06080: hydroxymethylglutaryl-CoA reductase

smcogs
  SMCOG1187: hydroxymethylglutaryl-CoA reductase

SGPB_RS06145: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

Ligases: synthase
SGPB_RS06075: hydroxymethylglutaryl-CoA synthase

smcogs
  SMCOG1043: hydroxymethylglutaryl-CoA synthase

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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002561.3 |  | 0.45 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0002707.2 |  | 0.41 | terpene | (+)-δ-cadinol | Coniophora puteana RWD-64-598 SS2
BGC0000513.3 |  | 0.41 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000515.4 |  | 0.41 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0000286.3 |  | 0.40 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0001210.5 |  | 0.40 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000501.3 |  | 0.40 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0002260.3 |  | 0.40 | terpene | trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D | Annulohypoxylon truncatum
BGC0002674.2 |  | 0.40 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0002699.2 |  | 0.40 | ribosomal | nostolysamide A, nostolysamide B | Nostoc punctiforme PCC 73102

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002561.3 |  | 0.45 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0002707.2 |  | 0.41 | terpene | (+)-δ-cadinol | Coniophora puteana RWD-64-598 SS2
BGC0000513.3 |  | 0.41 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000515.4 |  | 0.41 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0000286.3 |  | 0.40 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0001210.5 |  | 0.40 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000501.3 |  | 0.40 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0002260.3 |  | 0.40 | terpene | trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D | Annulohypoxylon truncatum
BGC0002674.2 |  | 0.40 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0002699.2 |  | 0.40 | ribosomal | nostolysamide A, nostolysamide B | Nostoc punctiforme PCC 73102

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.

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: 23.95 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.78 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.73 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.19 out of 26.06
Confidence: medium
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.93 out of 30.25
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.70 out of 28.19
Confidence: medium
CatR
Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 22.47 out of 25.31
Confidence: strong
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.59 out of 23.05
Confidence: medium
Additional weak hits (6):
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.25 out of 30.22
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.23 out of 30.25
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.55 out of 29.38
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.96 out of 30.22
Confidence: weak
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 20.57 out of 29.72
Confidence: weak
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.55 out of 26.85
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
CatR | H2O2-responsive repressor
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ColR | Phenol-responsive regulator
MogR | Repressor of flagellar motility genes
ZuR variant 1 | Zinc-responsive repressor