Select genomic region:
Overview
1.1
2.1
2.2
3.1
5.1
6.1
6.2
7.1
9.1
10.1
11.1
11.2
12.1
13.1
17.1
19.1
21.1
22.1
23.1
23.2
27.1
28.1
28.2
28.3
29.1
29.2
30.1
32.1

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

NZ_JAASAG010000001.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | lanthipeptide-class-ii,other | 343,539 | 407,660 | Medium | birimositide | ribosomal:RiPP:Lanthipeptide

NZ_JAASAG010000010.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | aminopolycarboxylic-acid | 225,068 | 238,623 | High | Ethylenediaminesuccinic acid hydroxyarginine | other:other
Region 2.2 | terpene | 253,730 | 274,833 |

NZ_JAASAG010000011.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 3.1 | terpene | 92,627 | 114,684 |  |

NZ_JAASAG010000013.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 5.1 | NRPS-like | 62,893 | 106,024 | Low | lipstatin | NRPS:Type I

NZ_JAASAG010000014.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 6.1 | NRPS,T1PKS | 1 | 34,406 |  |
Region 6.2 | linaridin | 49,384 | 70,073 | Low | TVA-YJ-2 | ribosomal:RiPP

NZ_JAASAG010000015.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 7.1 | NI-siderophore | 1 | 17,553 | High | legonoxamine A/desferrioxamine B/legonoxamine B | other:other

NZ_JAASAG010000017.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 9.1 | T1PKS | 1 | 90,364 | Low | natamycin | PKS

NZ_JAASAG010000018.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 10.1 | T1PKS | 1 | 53,477 | Low | sceliphrolactam | PKS

NZ_JAASAG010000019.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 11.1 | NRPS-like,T1PKS | 1 | 25,500 | Medium | nystatin A1 | PKS:Type I+saccharide:hybrid/tailoring
Region 11.2 | butyrolactone | 38,094 | 49,209 |  |

NZ_JAASAG010000002.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 12.1 | butyrolactone | 180,776 | 191,783 |

NZ_JAASAG010000020.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 13.1 | T1PKS | 32,359 | 60,958 | Low | nystatin-like Pseudonocardia polyene A1 | PKS

NZ_JAASAG010000024.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 17.1 | T1PKS | 1 | 17,331 | Low | gargantulide B/gargantulide C | PKS

NZ_JAASAG010000026.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 19.1 | T1PKS | 1 | 7,375 |

NZ_JAASAG010000028.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 21.1 | T1PKS | 1 | 3,090 |

NZ_JAASAG010000029.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 22.1 | T1PKS | 1 | 2,809 |

NZ_JAASAG010000003.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 23.1 | terpene | 469,191 | 495,798 | Medium | hopene | terpene
Region 23.2 | T1PKS | 787,239 | 821,818 | Low | pentamycin | PKS

NZ_JAASAG010000004.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 27.1 | t3nrps-iterative,NRP-metallophore,NI-siderophore,NRPS,terpene-precursor | 71,195 | 208,400 | Low | peucechelin | NRPS:Type I

NZ_JAASAG010000005.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 28.1 | NI-siderophore | 49,656 | 82,987 |  |
Region 28.2 | hglE-KS | 196,834 | 249,138 |  |
Region 28.3 | RiPP-like | 450,679 | 462,094 |  |

NZ_JAASAG010000006.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 29.1 | RiPP-like,terpene,NRPS-like,T2PKS | 255,370 | 351,898 | High | kinanthraquinone B/kinanthraquinone | PKS
Region 29.2 | NRPS-like,T1PKS | 390,658 | 437,033 | Medium | amipurimycin | PKS+NRPS:Type I+saccharide

NZ_JAASAG010000007.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 30.1 | ectoine | 367,885 | 378,289 | High | ectoine | other:ectoine

NZ_JAASAG010000009.1 (Streptomyces sp. HNM0575)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 32.1 | RiPP-like | 277,620 | 288,426 |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | lanthipeptide-class-ii,other | 343,539 | 407,660 | Medium | birimositide | ribosomal:RiPP:Lanthipeptide
Region 2.1 | aminopolycarboxylic-acid | 225,068 | 238,623 | High | Ethylenediaminesuccinic acid hydroxyarginine | other:other
Region 2.2 | terpene | 253,730 | 274,833 |
Region 3.1 | terpene | 92,627 | 114,684 |  |
Region 5.1 | NRPS-like | 62,893 | 106,024 | Low | lipstatin | NRPS:Type I
Region 6.1 | NRPS,T1PKS | 1 | 34,406 |  |
Region 6.2 | linaridin | 49,384 | 70,073 | Low | TVA-YJ-2 | ribosomal:RiPP
Region 7.1 | NI-siderophore | 1 | 17,553 | High | legonoxamine A/desferrioxamine B/legonoxamine B | other:other
Region 9.1 | T1PKS | 1 | 90,364 | Low | natamycin | PKS
Region 10.1 | T1PKS | 1 | 53,477 | Low | sceliphrolactam | PKS
Region 11.1 | NRPS-like,T1PKS | 1 | 25,500 | Medium | nystatin A1 | PKS:Type I+saccharide:hybrid/tailoring
Region 11.2 | butyrolactone | 38,094 | 49,209 |  |
Region 12.1 | butyrolactone | 180,776 | 191,783 |
Region 13.1 | T1PKS | 32,359 | 60,958 | Low | nystatin-like Pseudonocardia polyene A1 | PKS
Region 17.1 | T1PKS | 1 | 17,331 | Low | gargantulide B/gargantulide C | PKS
Region 19.1 | T1PKS | 1 | 7,375 |
Region 21.1 | T1PKS | 1 | 3,090 |
Region 22.1 | T1PKS | 1 | 2,809 |
Region 23.1 | terpene | 469,191 | 495,798 | Medium | hopene | terpene
Region 23.2 | T1PKS | 787,239 | 821,818 | Low | pentamycin | PKS
Region 27.1 | t3nrps-iterative,NRP-metallophore,NI-siderophore,NRPS,terpene-precursor | 71,195 | 208,400 | Low | peucechelin | NRPS:Type I
Region 28.1 | NI-siderophore | 49,656 | 82,987 |  |
Region 28.2 | hglE-KS | 196,834 | 249,138 |  |
Region 28.3 | RiPP-like | 450,679 | 462,094 |  |
Region 29.1 | RiPP-like,terpene,NRPS-like,T2PKS | 255,370 | 351,898 | High | kinanthraquinone B/kinanthraquinone | PKS
Region 29.2 | NRPS-like,T1PKS | 390,658 | 437,033 | Medium | amipurimycin | PKS+NRPS:Type I+saccharide
Region 30.1 | ectoine | 367,885 | 378,289 | High | ectoine | other:ectoine
Region 32.1 | RiPP-like | 277,620 | 288,426 |

No secondary metabolite regions were found in these records:
  NZ_JAASAG010000012.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000016.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000021.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000022.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000023.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000025.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000027.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000030.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000031.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000032.1 (Streptomyces sp. HNM0575)
  NZ_JAASAG010000008.1 (Streptomyces sp. HNM0575)

Compact view
NZ_JAASAG010000001.1 - Region 1 - lanthipeptide-class-ii,other
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: 343,539 - 407,660 nt. (total: 64,122 nt) Show pHMM detection rules used
lanthipeptide-class-ii: cds(LANC_like and DUF4135)
other: (Neocarzinostat or bcpB or frbD or mitE or prnB or CaiA or bacilysin or orf2_PTase)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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Gene details
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
Oxidoreductases: dehydrogenase oxidoreductase
HCC61_RS01490: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

HCC61_RS01630: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS01650: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

HCC61_RS01660: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

HCC61_RS01665: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Lyases: cyclase
HCC61_RS01470: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

HCC61_RS01480: 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 | other | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0002110.3 |  |  | 0.55 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0001229.4 |  |  | 0.53 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0000555.3 |  |  | 0.34 | ribosomal | staphylococcin C55 α, staphylococcin C55 β | Staphylococcus aureus
BGC0000520.5 |  |  | 0.29 | ribosomal | lacticin 3147 A1, lacticin 3147 A2 | Lactococcus lactis
BGC0001210.5 |  |  | 0.28 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0002346.3 |  |  | 0.28 | ribosomal | kyamicin | Saccharopolyspora sp.
BGC0002663.2 |  |  | 0.27 | ribosomal | amyloliquecidin GF610 | Bacillus amyloliquefaciens UMAF6639
BGC0001787.3 |  |  | 0.27 | ribosomal | suicin 3908 | Streptococcus suis
BGC0002573.2 |  |  | 0.26 | other (other) | phosphoramidon | Streptomyces mozunensis
BGC0000498.5 |  |  | 0.25 | ribosomal | bovicin HJ50 | Streptococcus equinus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001229.4 |  | 0.80 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0002110.3 |  | 0.76 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0000520.5 |  | 0.62 | ribosomal | lacticin 3147 A1, lacticin 3147 A2 | Lactococcus lactis
BGC0002573.2 |  | 0.59 | other (other) | phosphoramidon | Streptomyces mozunensis
BGC0000516.4 |  | 0.55 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000555.3 |  | 0.55 | ribosomal | staphylococcin C55 α, staphylococcin C55 β | Staphylococcus aureus
BGC0000623.3 |  | 0.53 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0002663.2 |  | 0.53 | ribosomal | amyloliquecidin GF610 | Bacillus amyloliquefaciens UMAF6639
BGC0000525.5 |  | 0.53 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0001311.5 |  | 0.52 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1

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 HCC61_RS01470

HCC61_RS30395
Leader:
MYKGDVSLVEEIAEQDFEGVAYGA
Core:
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
Core with dehydrations:
Cys Dhb Dhb N Dhb F Dha L Dha D A L Dhb N Dhb G G W Cys Dhb L Dhb V E Cys Q P N Cys N

#### antiSMASH-DB 4.0 matches for HCC61_RS30395

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: HCC61_RS30395_lanthipeptide
Lanthipeptides: HCC61_RS30395_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
96.7%
NZ_QLLX01000002.1 and 1 other:
NZ_QLLX01000002.1 Lanthipeptides: K378_RS05175_lanthipeptide
Lanthipeptides: K378_RS05175_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L T N G G W C T L T V E C Q P N C N
1
C T T N T F S L S D A L T N Q G G W C T L T V E C Q P N C N
30
93.3%
NZ_BMMP01000005.1 and 3 others:
NZ_BMMP01000005.1 Lanthipeptides: IEY56_RS28370_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS07545_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS07545_lanthipeptide
Lanthipeptides: IEY56_RS28370_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D L N T G G W C T L T V E C Q P N C N
1
C T T N T F S L S D V L G N T G G W C T L T V E C Q P N C N
30
with 98 more sequence matches
Only the first 10 are displayed here.
90.0%
NZ_BNBV01000031.1 and 1 other:
NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22995_lanthipeptide
Lanthipeptides: IE286_RS22995_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N+G G W C T L T E C Q P N C N
1
C T T N T F S L S D A L G N S G G W C T L T K E C Q P N C N
30
86.7%
NZ_BJTV01000004.1 and 1 other:
NZ_BJTV01000004.1 Lanthipeptides: TNCT1_RS10200_lanthipeptide
Lanthipeptides: TNCT1_RS10200_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N G G W C T L T E C Q N C N
1
C T T N T F S L S D A L G N H G G W C T L T K E C Q A N C N
30
86.7%
NZ_BNCA01000011.1 and 1 other:
NZ_BNCA01000011.1 Lanthipeptides: IE314_RS15865_lanthipeptide
Lanthipeptides: IE314_RS15865_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A+ N G G W C T L T E C Q P N C N
1
C T T N T F S L S D A V G N H G G W C T L T K E C Q P N C N
30
86.7%
NZ_CP016795.1 and 5 others:
NZ_CP016795.1 Lanthipeptides: BC342_RS18360_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18960_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18960_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01495_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01495_lanthipeptide
Lanthipeptides: BC342_RS18360_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N G G W C T L T E C Q P N C+
1
C T T N T F S L S D A L G N H G G W C T L T K E C Q P N C S
30
86.7%
NZ_CP107567.1 and 3 others:
NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide
Lanthipeptides: OGH68_RS19760_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D L N G G W C T L T E C Q P N C N
1
C T T N T F S L S D W L G N Q G G W C T L T K E C Q P N C N
30
83.3%
NZ_AKXV01000031.1 and 4 others:
NZ_AKXV01000031.1 Lanthipeptides: Y19_RS0109895_lanthipeptide NZ_JABBGE010000004.1 Lanthipeptides: HHL19_RS13545_lanthipeptide NZ_LMEI01000006.1 Lanthipeptides: ASC82_RS06140_lanthipeptide NZ_LMEI01000006.1 Lanthipeptides: ASC82_RS06140_lanthipeptide
Lanthipeptides: Y19_RS0109895_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C+T N T F S L S D L N G G W C T L T E C Q P N C N
1
C S T N T F S L S D F L G N Q G G W C T L T K E C Q P N C N
30
83.3%
NZ_CP043317.1 and 1 other:
NZ_CP043317.1 Lanthipeptides: FYC74_RS17680_lanthipeptide
Lanthipeptides: FYC74_RS17680_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D+L N G G W C T L T E C Q P N C+
1
C T T N T F S L S D S L G N H G G W C T L T K E C Q P N C S
30
80.0%
NZ_CP047419.1 and 3 others:
NZ_CP047419.1 Lanthipeptides: GTU71_RS12805_lanthipeptide NZ_PSTO01000045.1 Lanthipeptides: C5C10_RS15590_lanthipeptide NZ_PSTO01000045.1 Lanthipeptides: C5C10_RS15590_lanthipeptide
Lanthipeptides: GTU71_RS12805_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C
29
C T T N T F+L S+ L N G G W C T L T V E C Q P N C
1
C T T N T F T L S N V L G N Q G G W C T L T V E C Q P N C
29
76.7%
NZ_LT985747.1 and 1 other:
NZ_LT985747.1 Lanthipeptides: C8268_RS00165_lanthipeptide
Lanthipeptides: C8268_RS00165_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F+L S D L N G G W C T L T E C Q +C N
1
C T T N T F T L S D Y L G N K G G W C T L T K E C Q R S C N
30
73.3%
NZ_CP084530.1 and 1 other:
NZ_CP084530.1 Lanthipeptides: LDO05_RS02075_lanthipeptide
Lanthipeptides: LDO05_RS02075_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F+L S+ L N G G W C T L T E C Q +C N
1
C T T N T F T L S N Y L G N N G G W C T L T K E C Q R S C N
30

#### MIBiG 4.0 matches for HCC61_RS30395

86.7%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S+A L N G G W C T L T E C Q P N C N
1
C T T N T F S L S N A L G N N G G W C T L T K E C Q P N C N
30
46.7%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
6
F S L S D A L T N T G G W C T L T V E C Q P N C N
30
+++S L N G +C T L T V E C P+C N
4
Y N I S C R L G N K G A Y C T L T V E C M P S C N
28
25.6%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
19
C T L T V E C Q P N C N
30
C T L+ E C Q P N C N
28
C T L S K E C Q P N C N
39
HCC61_RS01465
Leader:
MSEDILGG
Core:
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
Core with dehydrations:
Y D E D E L V E L Dha D A D Dhb Y G G Dhb G P W Cys V A Dhb V Dhb L A Dhb A A I Cys P Dhb Dhb K Cys Dhb Dha Q Cys

#### antiSMASH-DB 4.0 matches for HCC61_RS01465

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: HCC61_RS01465_lanthipeptide
Lanthipeptides: HCC61_RS01465_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
95.3%
NZ_QLLX01000002.1 and 1 other:
NZ_QLLX01000002.1 Lanthipeptides: K378_RS30040_lanthipeptide
Lanthipeptides: K378_RS30040_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E L S D A D T Y G G T G P W C+A T V T L A T A A I C P T T K C T S Q C
1
Y D E A E L V E L S D A D T Y G G T G P W C I A T V T L A T A A I C P T T K C T S Q C
43
86.0%
NZ_BMMP01000005.1 and 3 others:
NZ_BMMP01000005.1 Lanthipeptides: IEY56_RS09415_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS29345_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS29345_lanthipeptide
Lanthipeptides: IEY56_RS09415_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E L S D A D Y G G T W A T V T L A T A A I C P T T K C T S Q C
1
Y D E A E L V E L S D A D A Y G G T A-W V C A T V T L A T A A I C P T T K C T S Q C
42
with 110 more sequence matches
Only the first 10 are displayed here.
76.7%
NZ_CP107567.1 and 3 others:
NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide
Lanthipeptides: OGH68_RS19755_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D T Y G G T W C+A T V T L +A A+C P T T K C T S C
1
Y D E A E L I E L S E A D T Y G G T A A W C I A T V T L V S A A M C P T T K C T S A C
43
76.7%
NZ_GG657757.1 and 1 other:
NZ_GG657757.1 Lanthipeptides: SSQG_RS41860_lanthipeptide
Lanthipeptides: SSQG_RS41860_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D +G G T G P W C+A T V T L T A +C P T T K C T S+C
1
Y D E A E L I E L S E A D N H G G T G P W C I A T V T L V T A T V C P T T K C T S K C
43
76.7%
NZ_KL997439.1 and 1 other:
NZ_KL997439.1 Lanthipeptides: IQ62_RS33140_lanthipeptide
Lanthipeptides: IQ62_RS33140_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D T+G G T G P W C+A T V T L +A C P T T K C T S C
1
Y D E A E L I E L S E A D T H G G T G P W C I A T V T L V S A V A C P T T K C T S S C
43
60.9%
NZ_AKXV01000031.1 and 1 other:
NZ_AKXV01000031.1 Lanthipeptides: Y19_RS44045_lanthipeptide
Lanthipeptides: Y19_RS44045_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V---A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E+ +A D Y G G T C A T L +A+ C P T T K C T S Q C
1
Y D E F E L V E M G E A D V Y G G T T W S C A I V T A V A T L V S A S A C P T T K C T S Q C
46
60.5%
NZ_BNBV01000031.1 and 3 others:
NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22985_lanthipeptide NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22990_lanthipeptide NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22985_lanthipeptide
Lanthipeptides: IE286_RS22990_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P +A A+A A C P T T K C T+ C
1
Y D E A E L I E L S E A D V T G G T T P V S I A V T V A A S A A F C P T T K C T N D C
43
60.5%
NZ_CP016795.1 and 7 others:
NZ_CP016795.1 Lanthipeptides: BC342_RS37680_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18955_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18955_lanthipeptide NZ_CP043317.1 Lanthipeptides: FYC74_RS17685_lanthipeptide NZ_CP043317.1 Lanthipeptides: FYC74_RS17685_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01490_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01490_lanthipeptide
Lanthipeptides: BC342_RS37680_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P V A A+ A C P T T K C T +C
1
Y D E A E L I E L S E A D V T G G T T P V S V A V S V A A S V A F C P T T K C T K E C
43
58.1%
NZ_BJTV01000004.1 and 1 other:
NZ_BJTV01000004.1 Lanthipeptides: TNCT1_RS35805_lanthipeptide
Lanthipeptides: TNCT1_RS35805_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P +A A+ A C P T K C T S C
1
Y D E A E L I E L S E A D V T G G T T P V S I A V T V A A S V A F C P T I K C T S A C
43
54.5%
NZ_BNCA01000011.1 and 1 other:
NZ_BNCA01000011.1 Lanthipeptides: IE314_RS15870_lanthipeptide
Lanthipeptides: IE314_RS15870_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T-G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L + +G G T P C+A T + A C P T T K C T S+C
1
Y D E L E L I E L G E D V A H G G T T S P V C I A T S V A V S T A F C P T T K C T S K C
44
47.8%
NZ_JAJAGO010000028.1 and 1 other:
NZ_JAJAGO010000028.1 Lanthipeptides: LHJ74_RS33595_lanthipeptide
Lanthipeptides: LHJ74_RS33595_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T---V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L+D++ +G G T P ++ +T A T +I C P T+ C+S+C
1
Y D E A E L I E L A D S E A F G G T S P A T T S S W T C I T A A T I S I C P T S A C S S K C
46
46.3%
NC_016582.1 and 1 other:
NC_016582.1 Lanthipeptides: SBI_RS34370_lanthipeptide
Lanthipeptides: SBI_RS34370_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V-----------T L A T A A I C P T T K C T S Q C
43
+D E E L V E L S+A D +G G T P + +A A C P T T K C T S+C
1
W D E A E L V E L S E A D V H G G T D P A V T G L I L G I V A I Q A G V A V G V S A A F C P T T K C T S R C
54

#### MIBiG 4.0 matches for HCC61_RS01465

41.9%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
18
T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
T G P C V A A+A A C P T T K C T S+C
1
T G P L C V A A S V A A S A A F C P T T K C T S K C
26
25.6%
BGC0001229.4 (SBI_06989):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
30
T A A I C P T T K C T S Q C
43
+A A C P T T K C T S+C
24
S A A F C P T T K C T S R C
37
allorf_344422_344553
Leader:
MRSVEPGDACAGRGPAASVTGS
Core:
A G G P V R K A G C Q R A G C K R I H T L
Core with dehydrations:
A G G P V R K A G Cys Q R A G Cys K R I H Dhb L

#### antiSMASH-DB 4.0 matches for allorf_344422_344553

100.0%
NZ_JAASAG010000001.1:
Lanthipeptides: allorf_344422_344553_lanthipeptide
1
A G G P V R K A G C Q R A G C K R I H T L
21
A G G P V R K A G C Q R A G C K R I H T L
1
A G G P V R K A G C Q R A G C K R I H T L
21
24.3%
NZ_CP021903.1 and 6 others:
NZ_CP023409.1 Lanthipeptides: Bateq7PJ16_RS09270_lanthipeptide NZ_CP028218.1 Lanthipeptides: C7M30_RS01850_lanthipeptide NZ_CP035167.1 Lanthipeptides: EQJ08_RS08875_lanthipeptide NZ_CP089148.1 Lanthipeptides: LRO88_RS09410_lanthipeptide NZ_JAMYDW010000001.1 Lanthipeptides: NHM07_RS00470_lanthipeptide NZ_JAQOXM010000003.1 Lanthipeptides: PO770_RS15540_lanthipeptide
Lanthipeptides: CD007_RS08815_lanthipeptide
1
A G G P V R K A G C Q R A G C K R I
18
+G G K A C R A C I
9
S G G V A S K A L C S R A M C D G I
26
24.3%
NZ_JAJQVT010000008.1:
Lanthipeptides: PAF28_RS14660_lanthipeptide
2
G G P V R K A G C Q R A G C K R I
18
G G K A C R A C I
10
G G V A S K A L C S R A M C D G I
26
with 1 more sequence matches
14.3%
NZ_KB900614.1:
Lanthipeptides: allorf_2973181_2973414_lanthipeptide
2
G G P V R K A G C Q R A G C K R I H
19
P R+A G G C+R+H
11
S A P A R R A G W I T E G C Q R V H
28
allorf_345810_345944
Leader:
MRSIPFRAGPCAARSPAA
Core:
R S P K S P T Q L A R V G A V F G H C A R G L A P L
Core with dehydrations:
R Dha P K Dha P Dhb Q L A R V G A V F G H Cys A R G L A P L

#### antiSMASH-DB 4.0 matches for allorf_345810_345944

100.0%
NZ_JAASAG010000001.1:
Lanthipeptides: allorf_345810_345944_lanthipeptide
1
R S P K S P T Q L A R V G A V F G H C A R G L A P L
26
R S P K S P T Q L A R V G A V F G H C A R G L A P L
1
R S P K S P T Q L A R V G A V F G H C A R G L A P L
26
18.2%
NZ_CP077652.1:
Lanthipeptides: allorf_2255880_2256005_lanthipeptide
1
R S P K S P T Q
8
R S P++P T Q
14
R S P R T P T Q
21
11.7%
NZ_PVTF01000002.1:
Lanthipeptides: allorf_797510_797749_lanthipeptide
2
S P K S P T Q L A R V G A
14
S P K+P+Q+ R G
33
S P K T P S Q V G R T G G
45
allorf_346005_346232
Leader:
MVRGGIAQKEALLCGRVTGESGYGHRTCTARFRADNFPPNARSWARRTDSAPAA
Core:
D R A R A H H G T S E Q A C T S W G Y R K
Core with dehydrations:
D R A R A H H G Dhb Dha E Q A Cys Dhb Dha W G Y R K

#### antiSMASH-DB 4.0 matches for allorf_346005_346232

100.0%
NZ_JAASAG010000001.1:
Lanthipeptides: allorf_346005_346232_lanthipeptide
1
D R A R A H H G T S E Q A C T S W G Y R K
21
D R A R A H H G T S E Q A C T S W G Y R K
1
D R A R A H H G T S E Q A C T S W G Y R K
21
41.4%
NZ_QLLX01000002.1:
Lanthipeptides: allorf_330819_330977_lanthipeptide
5
A H H G----T S E Q A C T S W G Y R K
21
A H+G T S E Q T S W G Y +
9
A H Y G L C V H T S E Q R R T S W G Y L Q
29
33.3%
NZ_CP064192.1:
Lanthipeptides: allorf_6233503_6233592_lanthipeptide
1
D R A R A H H G T S E
11
D R R H T S E
2
D R E R C H S E T S E
12
with 3 more sequence matches
29.0%
NZ_BMUQ01000012.1:
Lanthipeptides: allorf_024174_024338_lanthipeptide
4
R A H H G T S E Q A C T S W G
18
R A G T S C T S G
3
R A Q C G T S R P R C T S R G
17
23.8%
NZ_CM000756.1:
Lanthipeptides: BTHUR0011_RS33055_lanthipeptide
10
S E Q A C T S W G Y
19
S Q C+ +G Y
12
S S Q L C S C Y G Y
21
15.6%
NZ_CP070496.1:
Lanthipeptides: allorf_3783783_3783950_lanthipeptide
1
D R A R A H H G T S E Q A C T S
16
++R A H T E C S
12
Q Q S R A P H S T Q E S R C V S
27
allorf_346027_346167
Leader:
MQACSEVPWCARARSAAGA
Core:
E S V R R A Q E R A F G G K L S A R N L A V Q V R C P
Core with dehydrations:
E Dha V R R A Q E R A F G G K L Dha A R N L A V Q V R Cys P

#### antiSMASH-DB 4.0 matches for allorf_346027_346167

100.0%
NZ_JAASAG010000001.1:
Lanthipeptides: allorf_346027_346167_lanthipeptide
1
E S V R R A Q E R A F G G K L S A R N L A V Q V R C P
27
E S V R R A Q E R A F G G K L S A R N L A V Q V R C P
1
E S V R R A Q E R A F G G K L S A R N L A V Q V R C P
27
33.3%
NZ_BMMP01000005.1:
Lanthipeptides: allorf_157781_157972_lanthipeptide
14
K L S A R N L A V Q V R C P
27
K +A R N L A R C P
1
K S T A R N L A G N R R C P
14
23.1%
NZ_CP025249.1:
Lanthipeptides: allorf_0077306_0077500_lanthipeptide
8
E R A F G G K L S A R N
19
E R A F G G K+ A N
1
E R A F G G K V G A E N
12
with 1 more sequence matches
20.0%
NZ_LT607733.1:
Lanthipeptides: allorf_2263047_2263265_lanthipeptide
8
E R A F G G K L S A R N L A V Q V R C
26
+R G G K L A + + R C
21
Q R D I G G K L G A A H A C G R G R C
39
allorf_352495_352659
Leader:
MPITGAKDRMGG
Core:
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
Core with dehydrations:
K R I R K R G Cys G E D G V Dha A A V P R N V Dha P Dha A P F L R Dha G M L R Dha M L K A G L E

#### antiSMASH-DB 4.0 matches for allorf_352495_352659

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: allorf_352495_352659_lanthipeptide
Lanthipeptides: allorf_352495_352659_lanthipeptide
1
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
42
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
1
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
42
19.0%
NZ_BMLN01000009.1:
Lanthipeptides: allorf_125527_125676_lanthipeptide
19
R N V S P S A P F L R
29
R N S P S A P+ R
24
R N P S P S A P Y N R
34
14.5%
NZ_JANTYU010000003.1:
Lanthipeptides: allorf_281565_281777_lanthipeptide
7
G C G E D G V S A A V P R N
20
G C G D G + A P N
29
G C G S D G P A P A N P A N
42
with 1 more sequence matches
14.3%
NZ_CP023465.1:
Lanthipeptides: allorf_4127819_4127986_lanthipeptide
19
R N V S P S A P F L R S G M L R
34
+ + P P F + G+L R
6
K Q I P P G P P F S K G G I L R
21

#### Lanthipeptide(s) for HCC61_RS01480

HCC61_RS30395
Leader:
MYKGDVSLVEEIAEQDFEGVAYGA
Core:
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
Core with dehydrations:
Cys Dhb Dhb N Dhb F Dha L Dha D A L Dhb N Dhb G G W Cys Dhb L Dhb V E Cys Q P N Cys N

#### antiSMASH-DB 4.0 matches for HCC61_RS30395

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: HCC61_RS30395_lanthipeptide
Lanthipeptides: HCC61_RS30395_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
96.7%
NZ_QLLX01000002.1 and 1 other:
NZ_QLLX01000002.1 Lanthipeptides: K378_RS05175_lanthipeptide
Lanthipeptides: K378_RS05175_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L T N G G W C T L T V E C Q P N C N
1
C T T N T F S L S D A L T N Q G G W C T L T V E C Q P N C N
30
93.3%
NZ_BMMP01000005.1 and 3 others:
NZ_BMMP01000005.1 Lanthipeptides: IEY56_RS28370_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS07545_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS07545_lanthipeptide
Lanthipeptides: IEY56_RS28370_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D L N T G G W C T L T V E C Q P N C N
1
C T T N T F S L S D V L G N T G G W C T L T V E C Q P N C N
30
with 98 more sequence matches
Only the first 10 are displayed here.
90.0%
NZ_BNBV01000031.1 and 1 other:
NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22995_lanthipeptide
Lanthipeptides: IE286_RS22995_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N+G G W C T L T E C Q P N C N
1
C T T N T F S L S D A L G N S G G W C T L T K E C Q P N C N
30
86.7%
NZ_BJTV01000004.1 and 1 other:
NZ_BJTV01000004.1 Lanthipeptides: TNCT1_RS10200_lanthipeptide
Lanthipeptides: TNCT1_RS10200_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N G G W C T L T E C Q N C N
1
C T T N T F S L S D A L G N H G G W C T L T K E C Q A N C N
30
86.7%
NZ_BNCA01000011.1 and 1 other:
NZ_BNCA01000011.1 Lanthipeptides: IE314_RS15865_lanthipeptide
Lanthipeptides: IE314_RS15865_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A+ N G G W C T L T E C Q P N C N
1
C T T N T F S L S D A V G N H G G W C T L T K E C Q P N C N
30
86.7%
NZ_CP016795.1 and 5 others:
NZ_CP016795.1 Lanthipeptides: BC342_RS18360_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18960_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18960_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01495_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01495_lanthipeptide
Lanthipeptides: BC342_RS18360_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D A L N G G W C T L T E C Q P N C+
1
C T T N T F S L S D A L G N H G G W C T L T K E C Q P N C S
30
86.7%
NZ_CP107567.1 and 3 others:
NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19760_lanthipeptide
Lanthipeptides: OGH68_RS19760_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D L N G G W C T L T E C Q P N C N
1
C T T N T F S L S D W L G N Q G G W C T L T K E C Q P N C N
30
83.3%
NZ_AKXV01000031.1 and 4 others:
NZ_AKXV01000031.1 Lanthipeptides: Y19_RS0109895_lanthipeptide NZ_JABBGE010000004.1 Lanthipeptides: HHL19_RS13545_lanthipeptide NZ_LMEI01000006.1 Lanthipeptides: ASC82_RS06140_lanthipeptide NZ_LMEI01000006.1 Lanthipeptides: ASC82_RS06140_lanthipeptide
Lanthipeptides: Y19_RS0109895_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C+T N T F S L S D L N G G W C T L T E C Q P N C N
1
C S T N T F S L S D F L G N Q G G W C T L T K E C Q P N C N
30
83.3%
NZ_CP043317.1 and 1 other:
NZ_CP043317.1 Lanthipeptides: FYC74_RS17680_lanthipeptide
Lanthipeptides: FYC74_RS17680_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S D+L N G G W C T L T E C Q P N C+
1
C T T N T F S L S D S L G N H G G W C T L T K E C Q P N C S
30
80.0%
NZ_CP047419.1 and 3 others:
NZ_CP047419.1 Lanthipeptides: GTU71_RS12805_lanthipeptide NZ_PSTO01000045.1 Lanthipeptides: C5C10_RS15590_lanthipeptide NZ_PSTO01000045.1 Lanthipeptides: C5C10_RS15590_lanthipeptide
Lanthipeptides: GTU71_RS12805_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C
29
C T T N T F+L S+ L N G G W C T L T V E C Q P N C
1
C T T N T F T L S N V L G N Q G G W C T L T V E C Q P N C
29
76.7%
NZ_LT985747.1 and 1 other:
NZ_LT985747.1 Lanthipeptides: C8268_RS00165_lanthipeptide
Lanthipeptides: C8268_RS00165_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F+L S D L N G G W C T L T E C Q +C N
1
C T T N T F T L S D Y L G N K G G W C T L T K E C Q R S C N
30
73.3%
NZ_CP084530.1 and 1 other:
NZ_CP084530.1 Lanthipeptides: LDO05_RS02075_lanthipeptide
Lanthipeptides: LDO05_RS02075_lanthipeptide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F+L S+ L N G G W C T L T E C Q +C N
1
C T T N T F T L S N Y L G N N G G W C T L T K E C Q R S C N
30

#### MIBiG 4.0 matches for HCC61_RS30395

86.7%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
1
C T T N T F S L S D A L T N T G G W C T L T V E C Q P N C N
30
C T T N T F S L S+A L N G G W C T L T E C Q P N C N
1
C T T N T F S L S N A L G N N G G W C T L T K E C Q P N C N
30
46.7%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
6
F S L S D A L T N T G G W C T L T V E C Q P N C N
30
+++S L N G +C T L T V E C P+C N
4
Y N I S C R L G N K G A Y C T L T V E C M P S C N
28
25.6%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
19
C T L T V E C Q P N C N
30
C T L+ E C Q P N C N
28
C T L S K E C Q P N C N
39
HCC61_RS01465
Leader:
MSEDILGG
Core:
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
Core with dehydrations:
Y D E D E L V E L Dha D A D Dhb Y G G Dhb G P W Cys V A Dhb V Dhb L A Dhb A A I Cys P Dhb Dhb K Cys Dhb Dha Q Cys

#### antiSMASH-DB 4.0 matches for HCC61_RS01465

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: HCC61_RS01465_lanthipeptide
Lanthipeptides: HCC61_RS01465_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
95.3%
NZ_QLLX01000002.1 and 1 other:
NZ_QLLX01000002.1 Lanthipeptides: K378_RS30040_lanthipeptide
Lanthipeptides: K378_RS30040_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E L S D A D T Y G G T G P W C+A T V T L A T A A I C P T T K C T S Q C
1
Y D E A E L V E L S D A D T Y G G T G P W C I A T V T L A T A A I C P T T K C T S Q C
43
86.0%
NZ_BMMP01000005.1 and 3 others:
NZ_BMMP01000005.1 Lanthipeptides: IEY56_RS09415_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS29345_lanthipeptide NZ_FMHJ01000003.1 Lanthipeptides: H181DRAFT_RS29345_lanthipeptide
Lanthipeptides: IEY56_RS09415_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E L S D A D Y G G T W A T V T L A T A A I C P T T K C T S Q C
1
Y D E A E L V E L S D A D A Y G G T A-W V C A T V T L A T A A I C P T T K C T S Q C
42
with 110 more sequence matches
Only the first 10 are displayed here.
76.7%
NZ_CP107567.1 and 3 others:
NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide NZ_CP107567.1 Lanthipeptides: OGH68_RS19755_lanthipeptide
Lanthipeptides: OGH68_RS19755_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D T Y G G T W C+A T V T L +A A+C P T T K C T S C
1
Y D E A E L I E L S E A D T Y G G T A A W C I A T V T L V S A A M C P T T K C T S A C
43
76.7%
NZ_GG657757.1 and 1 other:
NZ_GG657757.1 Lanthipeptides: SSQG_RS41860_lanthipeptide
Lanthipeptides: SSQG_RS41860_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D +G G T G P W C+A T V T L T A +C P T T K C T S+C
1
Y D E A E L I E L S E A D N H G G T G P W C I A T V T L V T A T V C P T T K C T S K C
43
76.7%
NZ_KL997439.1 and 1 other:
NZ_KL997439.1 Lanthipeptides: IQ62_RS33140_lanthipeptide
Lanthipeptides: IQ62_RS33140_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D T+G G T G P W C+A T V T L +A C P T T K C T S C
1
Y D E A E L I E L S E A D T H G G T G P W C I A T V T L V S A V A C P T T K C T S S C
43
60.9%
NZ_AKXV01000031.1 and 1 other:
NZ_AKXV01000031.1 Lanthipeptides: Y19_RS44045_lanthipeptide
Lanthipeptides: Y19_RS44045_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V---A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L V E+ +A D Y G G T C A T L +A+ C P T T K C T S Q C
1
Y D E F E L V E M G E A D V Y G G T T W S C A I V T A V A T L V S A S A C P T T K C T S Q C
46
60.5%
NZ_BNBV01000031.1 and 3 others:
NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22985_lanthipeptide NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22990_lanthipeptide NZ_BNBV01000031.1 Lanthipeptides: IE286_RS22985_lanthipeptide
Lanthipeptides: IE286_RS22990_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P +A A+A A C P T T K C T+ C
1
Y D E A E L I E L S E A D V T G G T T P V S I A V T V A A S A A F C P T T K C T N D C
43
60.5%
NZ_CP016795.1 and 7 others:
NZ_CP016795.1 Lanthipeptides: BC342_RS37680_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18955_lanthipeptide NZ_CP036534.1 Lanthipeptides: EZV63_RS18955_lanthipeptide NZ_CP043317.1 Lanthipeptides: FYC74_RS17685_lanthipeptide NZ_CP043317.1 Lanthipeptides: FYC74_RS17685_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01490_lanthipeptide NZ_CP094676.1 Lanthipeptides: L6J92_RS01490_lanthipeptide
Lanthipeptides: BC342_RS37680_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P V A A+ A C P T T K C T +C
1
Y D E A E L I E L S E A D V T G G T T P V S V A V S V A A S V A F C P T T K C T K E C
43
58.1%
NZ_BJTV01000004.1 and 1 other:
NZ_BJTV01000004.1 Lanthipeptides: TNCT1_RS35805_lanthipeptide
Lanthipeptides: TNCT1_RS35805_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L S+A D G G T P +A A+ A C P T K C T S C
1
Y D E A E L I E L S E A D V T G G T T P V S I A V T V A A S V A F C P T I K C T S A C
43
54.5%
NZ_BNCA01000011.1 and 1 other:
NZ_BNCA01000011.1 Lanthipeptides: IE314_RS15870_lanthipeptide
Lanthipeptides: IE314_RS15870_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T-G P W C V A T V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L + +G G T P C+A T + A C P T T K C T S+C
1
Y D E L E L I E L G E D V A H G G T T S P V C I A T S V A V S T A F C P T T K C T S K C
44
47.8%
NZ_JAJAGO010000028.1 and 1 other:
NZ_JAJAGO010000028.1 Lanthipeptides: LHJ74_RS33595_lanthipeptide
Lanthipeptides: LHJ74_RS33595_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T---V T L A T A A I C P T T K C T S Q C
43
Y D E E L+E L+D++ +G G T P ++ +T A T +I C P T+ C+S+C
1
Y D E A E L I E L A D S E A F G G T S P A T T S S W T C I T A A T I S I C P T S A C S S K C
46
46.3%
NC_016582.1 and 1 other:
NC_016582.1 Lanthipeptides: SBI_RS34370_lanthipeptide
Lanthipeptides: SBI_RS34370_lanthipeptide
1
Y D E D E L V E L S D A D T Y G G T G P W C V A T V-----------T L A T A A I C P T T K C T S Q C
43
+D E E L V E L S+A D +G G T P + +A A C P T T K C T S+C
1
W D E A E L V E L S E A D V H G G T D P A V T G L I L G I V A I Q A G V A V G V S A A F C P T T K C T S R C
54

#### MIBiG 4.0 matches for HCC61_RS01465

41.9%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
18
T G P W C V A T V T L A T A A I C P T T K C T S Q C
43
T G P C V A A+A A C P T T K C T S+C
1
T G P L C V A A S V A A S A A F C P T T K C T S K C
26
25.6%
BGC0001229.4 (SBI_06989):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
30
T A A I C P T T K C T S Q C
43
+A A C P T T K C T S+C
24
S A A F C P T T K C T S R C
37
allorf_352495_352659
Leader:
MPITGAKDRMGG
Core:
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
Core with dehydrations:
K R I R K R G Cys G E D G V Dha A A V P R N V Dha P Dha A P F L R Dha G M L R Dha M L K A G L E

#### antiSMASH-DB 4.0 matches for allorf_352495_352659

100.0%
NZ_JAASAG010000001.1 and 1 other:
NZ_JAASAG010000001.1 Lanthipeptides: allorf_352495_352659_lanthipeptide
Lanthipeptides: allorf_352495_352659_lanthipeptide
1
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
42
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
1
K R I R K R G C G E D G V S A A V P R N V S P S A P F L R S G M L R S M L K A G L E
42
19.0%
NZ_BMLN01000009.1:
Lanthipeptides: allorf_125527_125676_lanthipeptide
19
R N V S P S A P F L R
29
R N S P S A P+ R
24
R N P S P S A P Y N R
34
14.5%
NZ_JANTYU010000003.1:
Lanthipeptides: allorf_281565_281777_lanthipeptide
7
G C G E D G V S A A V P R N
20
G C G D G + A P N
29
G C G S D G P A P A N P A N
42
with 1 more sequence matches
14.3%
NZ_CP023465.1:
Lanthipeptides: allorf_4127819_4127986_lanthipeptide
19
R N V S P S A P F L R S G M L R
34
+ + P P F + G+L R
6
K Q I P P G P P F S K G G I L R
21

#### 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:
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.39 out of 19.26
Confidence: strong
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.25 out of 23.79
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.36 out of 20.97
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26
Confidence: medium
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.53 out of 20.97
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.94 out of 20.97
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.53 out of 20.97
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 34.36 out of 36.53
Confidence: strong
Additional weak hits (26):
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.64 out of 21.84
Confidence: weak
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.01 out of 20.97
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.68 out of 30.25
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.68 out of 32.74
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.70 out of 21.55
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.49 out of 30.97
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.08 out of 30.22
Confidence: weak
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.32 out of 20.97
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.40 out of 21.55
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.43 out of 23.43
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.37 out of 39.62
Confidence: weak
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.91 out of 19.26
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.37 out of 30.98
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.82 out of 30.98
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.75 out of 29.65
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.39 out of 36.53
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.08 out of 27.18
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.58 out of 20.01
Confidence: weak
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.73 out of 26.85
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.93 out of 29.25
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.90 out of 33.73
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.15 out of 28.19
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.38 out of 23.43
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.29 out of 29.25
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.

HCC61_RS30395 - Class II
  Cleavage pHMM score: -5.40
  RODEO score: 0
  Monoisotopic mass: 3031.3 Da
  Molecular weight: 3033.3 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3051.3 Da N = 1
    3069.4 Da N = 2
    3087.4 Da N = 3
    3105.4 Da N = 4
    3123.4 Da N = 5
HCC61_RS01465 - Class II
  Cleavage pHMM score: -2.10
  RODEO score: 0
  Monoisotopic mass: 4318.0 Da
  Molecular weight: 4320.7 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4338.7 Da N = 1
    4356.8 Da N = 2
    4374.8 Da N = 3
    4392.8 Da N = 4
    4410.8 Da N = 5
    4428.8 Da N = 6
allorf_352495_352659 - Class II
  Cleavage pHMM score: -5.80
  RODEO score: 0
  Monoisotopic mass: 4406.4 Da
  Molecular weight: 4409.2 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4427.2 Da N = 1
    4445.2 Da N = 2
    4463.2 Da N = 3
    4481.2 Da N = 4
HCC61_RS30395 - Class II
  Cleavage pHMM score: -5.40
  RODEO score: 0
  Monoisotopic mass: 3031.3 Da
  Molecular weight: 3033.3 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3051.3 Da N = 1
    3069.4 Da N = 2
    3087.4 Da N = 3
    3105.4 Da N = 4
    3123.4 Da N = 5
HCC61_RS01465 - Class II
  Cleavage pHMM score: -2.10
  RODEO score: 0
  Monoisotopic mass: 4318.0 Da
  Molecular weight: 4320.7 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4338.7 Da N = 1
    4356.8 Da N = 2
    4374.8 Da N = 3
    4392.8 Da N = 4
    4410.8 Da N = 5
    4428.8 Da N = 6
allorf_344422_344553 - Class II
  Cleavage pHMM score: -6.00
  RODEO score: 0
  Monoisotopic mass: 2160.2 Da
  Molecular weight: 2161.6 Da
  Number of bridges: 1
allorf_345810_345944 - Class II
  Cleavage pHMM score: -7.30
  RODEO score: 0
  Monoisotopic mass: 2634.5 Da
  Molecular weight: 2636.1 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2654.1 Da N = 1
    2672.1 Da N = 2
allorf_346005_346232 - Class II
  Cleavage pHMM score: -6.00
  RODEO score: 0
  Monoisotopic mass: 2344.1 Da
  Molecular weight: 2345.5 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2363.5 Da N = 1
    2381.5 Da N = 2
    2399.6 Da N = 3
allorf_346027_346167 - Class II
  Cleavage pHMM score: -2.20
  RODEO score: 0
  Monoisotopic mass: 2961.6 Da
  Molecular weight: 2963.4 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2981.4 Da N = 1
allorf_352495_352659 - Class II
  Cleavage pHMM score: -5.80
  RODEO score: 0
  Monoisotopic mass: 4406.4 Da
  Molecular weight: 4409.2 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4427.2 Da N = 1
    4445.2 Da N = 2
    4463.2 Da N = 3
    4481.2 Da N = 4

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CRP | Cyclic AMP receptor protein
CcpA | Catabolite control protein A
DmdR1 | Iron(II)-dependent repressor
IolR | Regulator of the inositol catabolism
MexT | Global virulence regulator

NZ_JAASAG010000010.1 - Region 1 - aminopolycarboxylic-acid
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: 225,068 - 238,623 nt. (total: 13,556 nt) Show pHMM detection rules used
aminopolycarboxylic-acid: (AesA and AesB and AesC)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: reductase
HCC61_RS23440: alkyl hydroperoxide reductase/ Thiol specific

smcogs
  SMCOG1196: alkyl hydroperoxide reductase/ Thiol specific

Hydrolases: deaminase
HCC61_RS23460: ornithine cyclodeaminase

smcogs
  SMCOG1158: ornithine cyclodeaminase

Lyases: decarboxylase
HCC61_RS23455: diaminopimelate decarboxylase

smcogs
  SMCOG1264: diaminopimelate decarboxylase

Ligases: synthase
HCC61_RS23450: cysteine synthase

smcogs
  SMCOG1081: cysteine 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 | aminopolycarboxylic-acid | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001587.5 |  | 0.71 | other (other) | ethylenediaminesuccinic acid hydroxyarginine (EDHA) | Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2 |  | 0.69 | other (other) | Ethylenediaminesuccinic acid hydroxyarginine | Streptomyces scabiei 87.22
BGC0002567.2 |  | 0.58 | other (other) | EDHA | Streptomyces sp. MA5143a
BGC0000563.4 |  | 0.43 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0001229.4 |  | 0.41 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001634.3 |  | 0.41 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0001779.5 |  | 0.41 | ribosomal | siamycin | Streptomyces nodosus
BGC0001655.3 |  | 0.41 | ribosomal | LP2006 | Nocardiopsis alba DSM 43377
BGC0000575.5 |  | 0.41 | ribosomal | lariatin | Rhodococcus jostii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001587.5 |  | 0.71 | other (other) | ethylenediaminesuccinic acid hydroxyarginine (EDHA) | Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2 |  | 0.69 | other (other) | Ethylenediaminesuccinic acid hydroxyarginine | Streptomyces scabiei 87.22
BGC0002567.2 |  | 0.58 | other (other) | EDHA | Streptomyces sp. MA5143a
BGC0000563.4 |  | 0.43 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0001229.4 |  | 0.41 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001634.3 |  | 0.41 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0001779.5 |  | 0.41 | ribosomal | siamycin | Streptomyces nodosus
BGC0001655.3 |  | 0.41 | ribosomal | LP2006 | Nocardiopsis alba DSM 43377
BGC0000575.5 |  | 0.41 | ribosomal | lariatin | Rhodococcus jostii

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:
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 31.03 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.03 out of 36.53
Confidence: medium
Additional weak hits (1):
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.99 out of 36.53
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
DmdR1 | Iron(II)-dependent repressor

NZ_JAASAG010000010.1 - Region 2 - 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: 253,730 - 274,833 nt. (total: 21,104 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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: oxygenase
HCC61_RS23585: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS23595: cytochrome P450

smcogs
  SMCOG1034: cytochrome P450

Transferases: methyltransferase
HCC61_RS23600: methyltransferase

smcogs
  SMCOG1089: methyltransferase

Hydrolases: hydrolase
HCC61_RS23550: HAD-superfamily hydrolase, subfamily IA, variant

smcogs
  SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Lyases: cyclase
HCC61_RS23590: Terpene synthase/cyclase metal-binding domain protein

smcogs
  SMCOG1052: Terpene synthase/cyclase metal-binding 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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002043.3 |  | 0.54 | ribosomal | cittilin A, cittilin B | Myxococcus xanthus DK 1622
BGC0002173.2 |  | 0.48 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0001911.3 |  | 0.47 | terpene | raimonol | Streptomyces anulatus
BGC0001910.4 |  | 0.46 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0001483.4 |  | 0.46 | other (other) | 5-isoprenylindole-3-carboxylate β-D-glycosyl ester | Streptomyces sp. RM-5-8
BGC0000677.5 |  | 0.46 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0000902.4 |  | 0.45 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0002445.3 |  | 0.45 | terpene | armillyl orsellinate, 8α-hydroxy-6-protoilludene | Armillaria gallica
BGC0002643.2 |  | 0.43 | other (other) | aetokthonotoxin | Aetokthonos hydrillicola Thurmond2011
BGC0001197.5 |  | 0.43 | PKS | frankiamicin | Frankia sp. EAN1pec

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002043.3 |  | 0.54 | ribosomal | cittilin A, cittilin B | Myxococcus xanthus DK 1622
BGC0002173.2 |  | 0.48 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0001911.3 |  | 0.47 | terpene | raimonol | Streptomyces anulatus
BGC0001910.4 |  | 0.46 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0001483.4 |  | 0.46 | other (other) | 5-isoprenylindole-3-carboxylate β-D-glycosyl ester | Streptomyces sp. RM-5-8
BGC0000677.5 |  | 0.46 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0000902.4 |  | 0.45 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0002445.3 |  | 0.45 | terpene | armillyl orsellinate, 8α-hydroxy-6-protoilludene | Armillaria gallica
BGC0002643.2 |  | 0.43 | other (other) | aetokthonotoxin | Aetokthonos hydrillicola Thurmond2011
BGC0001197.5 |  | 0.43 | PKS | frankiamicin | Frankia sp. EAN1pec

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:
HCC61_RS23590: T1TS
Domain 1 (7 - 311): Type 1 terpene synthase
Subtype: unknown
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:
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 27.49 out of 30.12
Confidence: strong
Additional weak hits (10):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.10 out of 30.25
Confidence: weak
DosR
Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.61 out of 29.51
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.76 out of 29.65
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.45 out of 25.75
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.83 out of 33.14
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.21 out of 20.01
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.01 out of 23.43
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.25 out of 27.04
Confidence: weak
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.06 out of 27.55
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.33 out of 20.01
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
--- | ---
OsdR | Development and stress management regulator

NZ_JAASAG010000011.1 - 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: 92,627 - 114,684 nt. (total: 22,058 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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 oxygenase
HCC61_RS24400: dioxygenase, TauD/TfdA

smcogs
  SMCOG1121: dioxygenase, TauD/TfdA

HCC61_RS24440: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: aminotransferase sulfotransferase
HCC61_RS24395: Sulfotransferase domain

extras
  Sulfotransfer_3: Sulfotransferase domain

HCC61_RS24420: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Hydrolases: hydrolase
HCC61_RS24435: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold 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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002007.2 |  | 0.51 | terpene | atolypene A, atolypene B | Amycolatopsis tolypomycina
BGC0000632.5 |  | 0.47 | saccharide, terpene | brasilicardin A | Nocardia terpenica
BGC0001206.5 |  | 0.43 | other (other) | indolmycin | Streptomyces griseus subsp. griseus
BGC0002019.3 |  | 0.42 | terpene | tiancilactone A, tiancilactone B, tiancilactone C, tiancilactone D, tiancilactone E, tiancilactone F, tiancilactone G, tiancilactone H | Streptomyces sp. CB03234
BGC0002128.3 |  | 0.41 | other (other) | 5-dimethylallylindole-3-acetonitrile | Streptomyces coelicolor A3(2)
BGC0002554.2 |  | 0.41 | other (other) | carquinostatin A, carquinostatin B | Streptomyces exfoliatus
BGC0000815.4 |  | 0.41 | other (other) | loline, N-acetylnorloline, N-formylloline | Epichloe uncinata
BGC0002218.2 |  | 0.41 | terpene | (-)-Cyatha-3,12-diene | Dentipellis sp. KUC8613
BGC0001903.3 |  | 0.41 | other (other) | neocarazostatin A | Streptomyces sp. MA37
BGC0002584.2 |  | 0.40 | ribosomal | azolemycin B, azolemycin A, azolemycin D, azolemycin C | Streptomyces sp. FXJ1.264

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002007.2 |  | 0.51 | terpene | atolypene A, atolypene B | Amycolatopsis tolypomycina
BGC0000632.5 |  | 0.47 | saccharide, terpene | brasilicardin A | Nocardia terpenica
BGC0001206.5 |  | 0.43 | other (other) | indolmycin | Streptomyces griseus subsp. griseus
BGC0002019.3 |  | 0.42 | terpene | tiancilactone A, tiancilactone B, tiancilactone C, tiancilactone D, tiancilactone E, tiancilactone F, tiancilactone G, tiancilactone H | Streptomyces sp. CB03234
BGC0002128.3 |  | 0.41 | other (other) | 5-dimethylallylindole-3-acetonitrile | Streptomyces coelicolor A3(2)
BGC0002554.2 |  | 0.41 | other (other) | carquinostatin A, carquinostatin B | Streptomyces exfoliatus
BGC0000815.4 |  | 0.41 | other (other) | loline, N-acetylnorloline, N-formylloline | Epichloe uncinata
BGC0002218.2 |  | 0.41 | terpene | (-)-Cyatha-3,12-diene | Dentipellis sp. KUC8613
BGC0001903.3 |  | 0.41 | other (other) | neocarazostatin A | Streptomyces sp. MA37
BGC0002584.2 |  | 0.40 | ribosomal | azolemycin B, azolemycin A, azolemycin D, azolemycin C | Streptomyces sp. FXJ1.264

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:
No product predictions
Genes with terpene domains:
HCC61_RS24410: T2TS
Domain 1 (88 - 598): Type 2 terpene synthase
Subtype: unknown
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:
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05
Confidence: medium
Additional weak hits (3):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33
Confidence: weak
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.86 out of 19.52
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40
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
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production

NZ_JAASAG010000013.1 - Region 1 - 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: 62,893 - 106,024 nt. (total: 43,132 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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: dehydrogenase oxidoreductase
HCC61_RS26900: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

HCC61_RS26970: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

HCC61_RS26975: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

HCC61_RS26980: acyl-CoA dehydrogenase type 2

smcogs
  SMCOG1191: acyl-CoA dehydrogenase type 2

Transferases: acetyltransferase
HCC61_RS26880: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: protease
HCC61_RS26950: alkaline serine protease, subtilase family

smcogs
  SMCOG1075: alkaline serine protease, subtilase family

Lyases: dehydratase
HCC61_RS26925: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase
HCC61_RS26920: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS26930: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS26935: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs
  SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

HCC61_RS26940: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs
  SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

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
--- | --- | --- | --- | --- | ---
BGC0001249.5 |  | 0.70 | NRPS | dimethylcoprogen | Alternaria alternata
BGC0002286.3 |  | 0.62 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.61 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001240.4 |  | 0.61 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0002135.2 |  | 0.60 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0000357.5 |  | 0.60 | NRPS | cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val) | Penicillium rubens Wisconsin 54-1255
BGC0001833.4 |  | 0.60 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001251.4 |  | 0.59 | NRPS | epichloenin A | Epichloe festucae
BGC0001250.4 |  | 0.59 | NRPS | epichloenin A | Epichloe festucae
BGC0001825.4 |  | 0.59 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001249.5 |  | 0.70 | NRPS | dimethylcoprogen | Alternaria alternata
BGC0002286.3 |  | 0.62 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.61 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001240.4 |  | 0.61 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0002135.2 |  | 0.60 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0000357.5 |  | 0.60 | NRPS | cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val) | Penicillium rubens Wisconsin 54-1255
BGC0001833.4 |  | 0.60 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001251.4 |  | 0.59 | NRPS | epichloenin A | Epichloe festucae
BGC0001250.4 |  | 0.59 | NRPS | epichloenin A | Epichloe festucae
BGC0001825.4 |  | 0.59 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

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:
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.23 out of 29.72
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.11 out of 23.79
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.76 out of 23.79
Confidence: medium
Additional weak hits (12):
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.24 out of 26.12
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.43 out of 36.54
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.94 out of 33.73
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.50 out of 30.25
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.51 out of 30.98
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.81 out of 28.14
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.47 out of 35.63
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.57 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.41 out of 28.14
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.58 out of 28.19
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.20 out of 30.11
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.60 out of 30.98
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 1, location 62892 - 106024:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Asn)

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).
HCC61_RS26920: Asn
Search NORINE for peptide: strict or relaxed
AMP-binding (427..817): Asn
nrpys: Asn

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    YWATFDLTGTTLKLVVGGEVNEYGPTEAAIGCVV
  Nearest Stachelhaus code(s):
    Asn DLTKVGEVGK (82% 8Å match)
    OH-Asn or Asn DLTKVGEVGK (79% 8Å match)
    Asp DLTKVGHIGK (62% 8Å match)
  Stachelhaus code match:
    90% (moderate)

HCC61_RS26930: X
AMP-binding (18..457): X
nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    MGIL----LYGDFAVSGGAHTTYGATEALPITSI
  Nearest Stachelhaus code(s):
  Stachelhaus code match:
    0% (weak)

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

Regulator | Description
--- | ---
IolR | Regulator of the inositol catabolism
NtrC | Nitrogen regulatory protein C

NZ_JAASAG010000014.1 - Region 1 - 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: 1 - 34,406 nt. (total: 34,406 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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: aminotransferase
HCC61_RS27290: aminotransferase

smcogs
  SMCOG1019: aminotransferase

HCC61_RS27345: aminotransferase class V

smcogs
  SMCOG1139: aminotransferase class V

Ligases: ligase synthase
HCC61_RS27275: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS27280: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing 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 | NRPS | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001132.4 |  |  | 0.68 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  |  | 0.66 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3 |  |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  |  | 0.66 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002286.3 |  |  | 0.66 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002164.2 |  |  | 0.66 | NRPS | peramine | Epichloe festucae
BGC0001641.4 |  |  | 0.65 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  |  | 0.63 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001833.4 |  |  | 0.61 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0000307.4 |  |  | 0.61 | NRPS | AbT1 | Aureobasidium pullulans

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001132.4 |  | 0.67 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  | 0.66 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3 |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.66 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002286.3 |  | 0.66 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002164.2 |  | 0.66 | NRPS | peramine | Epichloe festucae
BGC0001641.4 |  | 0.66 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  | 0.65 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001833.4 |  | 0.64 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0000307.4 |  | 0.64 | NRPS | AbT1 | Aureobasidium pullulans

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:
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.79 out of 21.84
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05
Confidence: medium
Additional weak hits (6):
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.40 out of 18.57
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.73 out of 28.19
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.89 out of 23.43
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.45 out of 20.01
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.69 out of 29.38
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 1, location 0 - 34406:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Phe - 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).
HCC61_RS27275: mal
PKS_AT (1065..1353): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 70.8%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 89.0
  inactive: 41.0
  Methylmalonyl-CoA: 37.2
  Methoxymalonyl-CoA: 33.0
  2-Methylbutyryl-CoA: 19.3
  Propionyl-CoA: 18.0
  CHC-CoA: 18.0
  Benzoyl-CoA: 11.8
  Ethylmalonyl-CoA: 11.5
  Isobutyryl-CoA: 10.9
  trans-1,2-CPDA: 9.9
  fatty_acid: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0

HCC61_RS27280: Phe - X
Search NORINE for peptide: strict or relaxed
AMP-binding (29..504): Phe
nrpys: Phe

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LESAFDAAVLETYIIVAVEINGYGPTEAAVCVSM
  Nearest Stachelhaus code(s):
    Phe DAWTIAGVCK (59% 8Å match)
  Stachelhaus code match:
    80% (moderate)

AMP-binding (1236..1624): X
nrpys: Gly, Ala, Val, Leu, Ile, Abu, Ival

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LGAAFDLVTFDGDMIVGGEINAYGPTEATTYATY
  Nearest Stachelhaus code(s):
    Val DAFWIGATFK (59% 8Å match)
  Stachelhaus code match:
    70% (weak)

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

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

NZ_JAASAG010000014.1 - Region 2 - linaridin
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: 49,384 - 70,073 nt. (total: 20,690 nt) Show pHMM detection rules used
linaridin: (cypemycin or cypI)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: dehydrogenase
HCC61_RS27445: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

Transferases: methyltransferase
HCC61_RS27455: methyltransferase

smcogs
  SMCOG1248: methyltransferase

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 | linaridin | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001735.5 |  | 0.53 | other (other) | pentostatine, vidarabine | Streptomyces antibioticus
BGC0001188.3 |  | 0.49 | ribosomal | legonaridin | Streptomyces sp. CT34
BGC0001226.4 |  | 0.43 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0002669.2 |  | 0.42 | ribosomal | TVA-YJ-2 | Streptomyces sp. NRRL S-87
BGC0000501.3 |  | 0.41 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001579.4 |  | 0.41 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0001660.3 |  | 0.41 | ribosomal | mathermycin | Marinactinospora thermotolerans
BGC0000513.3 |  | 0.41 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000496.5 |  | 0.40 | ribosomal | AmfS | Streptomyces griseus subsp. griseus NBRC 13350

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001735.5 |  | 0.53 | other (other) | pentostatine, vidarabine | Streptomyces antibioticus
BGC0001188.3 |  | 0.49 | ribosomal | legonaridin | Streptomyces sp. CT34
BGC0001226.4 |  | 0.43 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0002669.2 |  | 0.42 | ribosomal | TVA-YJ-2 | Streptomyces sp. NRRL S-87
BGC0000501.3 |  | 0.41 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001579.4 |  | 0.41 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0001660.3 |  | 0.41 | ribosomal | mathermycin | Marinactinospora thermotolerans
BGC0000513.3 |  | 0.41 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000496.5 |  | 0.40 | ribosomal | AmfS | Streptomyces griseus subsp. griseus NBRC 13350

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: 16.82 out of 18.46
Confidence: medium
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.40 out of 27.55
Confidence: medium
Additional weak hits (5):
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.51 out of 31.73
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.91 out of 27.78
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.18 out of 29.25
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 30.25
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 16.96 out of 22.40
Confidence: weak
TFBS Finder
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_JAASAG010000015.1 - Region 1 - NI-siderophore
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 - 17,553 nt. (total: 17,553 nt) Show pHMM detection rules used
Region on contig edge.
NI-siderophore: IucA_IucC

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: oxygenase
HCC61_RS27860: lysine/ornithine N-monooxygenase

smcogs
  SMCOG1080: lysine/ornithine N-monooxygenase

Lyases: decarboxylase
HCC61_RS27865: Decarboxylase, pyridoxal-dependent

smcogs
  SMCOG1180: Decarboxylase, pyridoxal-dependent

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 | NI-siderophore | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001478.5 |  | 0.83 | other (other) | desferrioxamine E | Streptomyces sp. ID38640
BGC0002305.2 |  | 0.79 | other (other) | legonoxamine A, desferrioxamine B, legonoxamine B | Streptomyces sp.
BGC0000941.3 |  | 0.79 | other (other) | desferrioxamin B | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000940.5 |  | 0.71 | other (other) | desferrioxamin B, desferrioxamine E | Streptomyces coelicolor A3(2)
BGC0001453.5 |  | 0.71 | other (other) | desferrioxamine | Streptomyces argillaceus
BGC0001572.3 |  | 0.70 | other (other) | desferrioxamine E | Pantoea agglomerans
BGC0002464.3 |  | 0.61 | other (other) | alcaligin | Bordetella pertussis Tohama I
BGC0002073.3 |  | 0.59 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002690.2 |  | 0.57 | other (other) | FW0622 | Verrucosispora sp. FIM060022
BGC0002620.2 |  | 0.55 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001478.5 |  | 0.83 | other (other) | desferrioxamine E | Streptomyces sp. ID38640
BGC0002305.2 |  | 0.79 | other (other) | legonoxamine A, desferrioxamine B, legonoxamine B | Streptomyces sp.
BGC0000941.3 |  | 0.79 | other (other) | desferrioxamin B | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000940.5 |  | 0.71 | other (other) | desferrioxamin B, desferrioxamine E | Streptomyces coelicolor A3(2)
BGC0001453.5 |  | 0.71 | other (other) | desferrioxamine | Streptomyces argillaceus
BGC0001572.3 |  | 0.70 | other (other) | desferrioxamine E | Pantoea agglomerans
BGC0002464.3 |  | 0.61 | other (other) | alcaligin | Bordetella pertussis Tohama I
BGC0002073.3 |  | 0.59 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002690.2 |  | 0.57 | other (other) | FW0622 | Verrucosispora sp. FIM060022
BGC0002620.2 |  | 0.55 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina

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:
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.16 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.73 out of 36.53
Confidence: medium
Additional weak hits (6):
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.37 out of 36.54
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.78 out of 29.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.35 out of 26.06
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.82 out of 32.93
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.41 out of 36.53
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.92 out of 27.04
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
DmdR1 | Iron(II)-dependent repressor

NZ_JAASAG010000017.1 - Region 1 - 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: 1 - 90,364 nt. (total: 90,364 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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: dehydrogenase oxygenase
HCC61_RS28735: 3-hydroxybutyryl-CoA dehydrogenase

smcogs
  SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

HCC61_RS28760: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

HCC61_RS28765: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS28775: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Hydrolases: esterase
HCC61_RS28740: thioesterase

smcogs
  SMCOG1004: thioesterase

Lyases: dehydratase
HCC61_RS28745: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase
HCC61_RS28730: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS28770: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.73 | PKS | asperlactone | Aspergillus ochraceus
BGC0000041.3 |  | 0.58 | PKS | oronofacic acid | Pseudomonas syringae
BGC0000067.5 |  | 0.56 | PKS | geldanamycin | Streptomyces hygroscopicus subsp. duamyceticus
BGC0000016.4 |  | 0.53 | other (other) | amphotericin B | Streptomyces nodosus
BGC0000551.5 |  | 0.50 | ribosomal | SapB | Streptomyces coelicolor A3(2)
BGC0001310.5 |  | 0.50 | PKS | naringenin | Streptomyces clavuligerus ATCC 27064
BGC0000844.5 |  | 0.50 | other (other) | clavulanic acid | Streptomyces clavuligerus
BGC0000126.5 |  | 0.50 | PKS | pladienolide B | Streptomyces platensis
BGC0001012.3 |  | 0.50 | NRPS, PKS | meridamycin | Streptomyces violaceusniger
BGC0000353.5 |  | 0.50 | NRPS | tacrolimus | Streptomyces sp. MA6548

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.73 | PKS | asperlactone | Aspergillus ochraceus
BGC0000041.3 |  | 0.58 | PKS | oronofacic acid | Pseudomonas syringae
BGC0000067.5 |  | 0.56 | PKS | geldanamycin | Streptomyces hygroscopicus subsp. duamyceticus
BGC0000016.4 |  | 0.53 | other (other) | amphotericin B | Streptomyces nodosus
BGC0000551.5 |  | 0.50 | ribosomal | SapB | Streptomyces coelicolor A3(2)
BGC0001310.5 |  | 0.50 | PKS | naringenin | Streptomyces clavuligerus ATCC 27064
BGC0000844.5 |  | 0.50 | other (other) | clavulanic acid | Streptomyces clavuligerus
BGC0000126.5 |  | 0.50 | PKS | pladienolide B | Streptomyces platensis
BGC0001012.3 |  | 0.50 | NRPS, PKS | meridamycin | Streptomyces violaceusniger
BGC0000353.5 |  | 0.50 | NRPS | tacrolimus | Streptomyces sp. MA6548

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.
No hits above weak threshold.
Weak hits (2):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.45 out of 30.25
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 1, location 0 - 90364:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (ccmal - ccmal - ccmal - ccmal - ccmal - ccmal) + (ccmal - ohmal - Me-ohmal - ohmal - ohmal - ohmal) + (ccmal - ohmal - redmal)
Non-colinear ordering:
  HCC61_RS28730 + HCC61_RS28770 + HCC61_RS28775

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).
HCC61_RS28730: mal - mal - mal - mal - mal - mal
PKS_AT (553..841): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 227.1
  inactive: 104.2
  Methoxymalonyl-CoA: 58.7
  Methylmalonyl-CoA: 49.7
  Isobutyryl-CoA: 33.3
  Ethylmalonyl-CoA: 22.8
  Propionyl-CoA: 22.1
  Benzoyl-CoA: 19.2
  Acetyl-CoA: 15.6
  CHC-CoA: 10.4
  fatty_acid: 10.1
  trans-1,2-CPDA: 8.4
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

PKS_AT (2277..2554): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 223.0
  inactive: 102.1
  Methoxymalonyl-CoA: 64.2
  Methylmalonyl-CoA: 59.7
  Isobutyryl-CoA: 32.6
  Propionyl-CoA: 28.6
  Ethylmalonyl-CoA: 28.4
  Acetyl-CoA: 19.7
  Benzoyl-CoA: 15.9
  trans-1,2-CPDA: 13.9
  fatty_acid: 10.0
  2-Methylbutyryl-CoA: 9.3
  CHC-CoA: 7.4
  3-Methylbutyryl-CoA: 0.0

PKS_AT (3965..4242): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 215.6
  inactive: 102.4
  Methoxymalonyl-CoA: 64.6
  Methylmalonyl-CoA: 57.4
  Isobutyryl-CoA: 31.6
  Propionyl-CoA: 28.7
  Ethylmalonyl-CoA: 25.6
  Benzoyl-CoA: 20.9
  trans-1,2-CPDA: 18.6
  Acetyl-CoA: 17.7
  fatty_acid: 15.1
  CHC-CoA: 10.7
  2-Methylbutyryl-CoA: 7.4
  3-Methylbutyryl-CoA: 0.0

PKS_AT (5665..5942): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 220.5
  inactive: 102.8
  Methoxymalonyl-CoA: 65.3
  Methylmalonyl-CoA: 60.1
  Isobutyryl-CoA: 33.4
  Ethylmalonyl-CoA: 27.1
  Propionyl-CoA: 24.2
  Benzoyl-CoA: 22.7
  Acetyl-CoA: 19.5
  trans-1,2-CPDA: 15.7
  fatty_acid: 13.4
  CHC-CoA: 11.7
  2-Methylbutyryl-CoA: 6.5
  3-Methylbutyryl-CoA: 0.0

PKS_AT (7372..7649): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 217.8
  inactive: 103.8
  Methoxymalonyl-CoA: 65.5
  Methylmalonyl-CoA: 57.4
  Isobutyryl-CoA: 31.1
  Ethylmalonyl-CoA: 24.8
  Propionyl-CoA: 22.8
  Benzoyl-CoA: 21.7
  Acetyl-CoA: 19.1
  trans-1,2-CPDA: 17.1
  fatty_acid: 14.0
  CHC-CoA: 11.4
  2-Methylbutyryl-CoA: 6.1
  3-Methylbutyryl-CoA: 0.0

PKS_AT (9065..9342): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 216.1
  inactive: 102.9
  Methoxymalonyl-CoA: 69.3
  Methylmalonyl-CoA: 58.3
  Isobutyryl-CoA: 32.3
  Ethylmalonyl-CoA: 32.2
  Propionyl-CoA: 26.9
  Benzoyl-CoA: 23.9
  Acetyl-CoA: 17.9
  trans-1,2-CPDA: 16.5
  fatty_acid: 13.9
  CHC-CoA: 13.4
  2-Methylbutyryl-CoA: 1.5
  3-Methylbutyryl-CoA: 0.0

HCC61_RS28770: mal - mal - mmal - mal - mal - mal
PKS_AT (558..855): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 83.3%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 207.9
  inactive: 96.1
  Methoxymalonyl-CoA: 68.8
  Methylmalonyl-CoA: 51.6
  Isobutyryl-CoA: 33.8
  Ethylmalonyl-CoA: 29.9
  Benzoyl-CoA: 23.0
  Propionyl-CoA: 22.1
  Acetyl-CoA: 17.9
  CHC-CoA: 8.3
  fatty_acid: 4.6
  trans-1,2-CPDA: 4.1
  3-Methylbutyryl-CoA: 2.5
  2-Methylbutyryl-CoA: -1.4

PKS_AT (2306..2596): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 83.3%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 213.7
  inactive: 95.1
  Methoxymalonyl-CoA: 58.6
  Methylmalonyl-CoA: 47.9
  Propionyl-CoA: 22.1
  Acetyl-CoA: 20.1
  fatty_acid: 15.5
  Benzoyl-CoA: 12.6
  Isobutyryl-CoA: 11.7
  Ethylmalonyl-CoA: 11.3
  CHC-CoA: 10.4
  trans-1,2-CPDA: 8.5
  2-Methylbutyryl-CoA: 7.1
  3-Methylbutyryl-CoA: 0.0

PKS_AT (3906..4204): mmal
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 100.0%
  Methoxymalonyl-CoA: 95.8%
  Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 219.2
  Ethylmalonyl-CoA: 208.8
  Methoxymalonyl-CoA: 172.7
  2-Methylbutyryl-CoA: 138.8
  trans-1,2-CPDA: 125.4
  CHC-CoA: 108.0
  Propionyl-CoA: 102.6
  Malonyl-CoA: 95.3
  Isobutyryl-CoA: 80.7
  Benzoyl-CoA: 68.4
  Acetyl-CoA: 31.9
  fatty_acid: 29.7
  3-Methylbutyryl-CoA: 26.5
  inactive: 18.2

PKS_AT (5480..5763): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 215.2
  inactive: 94.6
  Methoxymalonyl-CoA: 66.4
  Methylmalonyl-CoA: 64.0
  Propionyl-CoA: 31.3
  Isobutyryl-CoA: 29.0
  Ethylmalonyl-CoA: 20.9
  Acetyl-CoA: 17.8
  Benzoyl-CoA: 14.1
  2-Methylbutyryl-CoA: 13.7
  fatty_acid: 13.4
  trans-1,2-CPDA: 6.9
  3-Methylbutyryl-CoA: 5.2
  CHC-CoA: 3.7

PKS_AT (6988..7269): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 214.5
  inactive: 90.1
  Methoxymalonyl-CoA: 66.1
  Methylmalonyl-CoA: 62.2
  Propionyl-CoA: 30.5
  Isobutyryl-CoA: 26.7
  Ethylmalonyl-CoA: 20.9
  Acetyl-CoA: 17.4
  fatty_acid: 14.4
  Benzoyl-CoA: 14.0
  2-Methylbutyryl-CoA: 13.4
  trans-1,2-CPDA: 7.0
  3-Methylbutyryl-CoA: 6.2
  CHC-CoA: 4.0

PKS_AT (8506..8786): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 208.4
  inactive: 96.6
  Methoxymalonyl-CoA: 69.1
  Methylmalonyl-CoA: 58.8
  Isobutyryl-CoA: 37.1
  Propionyl-CoA: 20.5
  Ethylmalonyl-CoA: 18.3
  Benzoyl-CoA: 15.4
  Acetyl-CoA: 14.7
  fatty_acid: 10.5
  CHC-CoA: 7.3
  trans-1,2-CPDA: 6.3
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: -2.8

HCC61_RS28775: mal - mal - mal - mal
PKS_AT (610..894): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 203.0
  inactive: 86.9
  Methoxymalonyl-CoA: 56.1
  Methylmalonyl-CoA: 47.4
  Isobutyryl-CoA: 26.2
  Propionyl-CoA: 25.3
  Acetyl-CoA: 19.0
  Ethylmalonyl-CoA: 16.1
  fatty_acid: 8.1
  Benzoyl-CoA: 7.4
  CHC-CoA: 2.0
  trans-1,2-CPDA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

PKS_AT (2383..2669): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 216.3
  inactive: 99.8
  Methoxymalonyl-CoA: 69.3
  Methylmalonyl-CoA: 54.1
  Propionyl-CoA: 30.3
  Isobutyryl-CoA: 26.1
  Ethylmalonyl-CoA: 21.0
  Acetyl-CoA: 19.5
  Benzoyl-CoA: 19.1
  CHC-CoA: 13.9
  fatty_acid: 13.2
  2-Methylbutyryl-CoA: 9.6
  trans-1,2-CPDA: 0.0
  3-Methylbutyryl-CoA: 0.0

PKS_AT (3881..4163): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 211.2
  inactive: 96.1
  Methoxymalonyl-CoA: 55.0
  Methylmalonyl-CoA: 44.5
  Propionyl-CoA: 24.9
  Isobutyryl-CoA: 21.5
  Acetyl-CoA: 15.4
  fatty_acid: 13.3
  Benzoyl-CoA: 12.3
  Ethylmalonyl-CoA: 11.6
  CHC-CoA: 7.6
  trans-1,2-CPDA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

PKS_AT (5905..6106): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 157.2
  inactive: 71.5
  Methoxymalonyl-CoA: 46.9
  Methylmalonyl-CoA: 40.9
  Ethylmalonyl-CoA: 21.2
  Acetyl-CoA: 18.4
  Isobutyryl-CoA: 15.5
  Propionyl-CoA: 13.7
  Benzoyl-CoA: 13.6
  fatty_acid: 11.0
  CHC-CoA: 9.4
  trans-1,2-CPDA: 9.2
  2-Methylbutyryl-CoA: 2.3
  3-Methylbutyryl-CoA: 0.0

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

Regulator | Description
--- | ---

NZ_JAASAG010000018.1 - Region 1 - 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: 1 - 53,477 nt. (total: 53,477 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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
HCC61_RS28785: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS28815: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS28820: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS31370: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

Lyases: decarboxylase
HCC61_RS28840: putative carboxymuconolactone decarboxylase

smcogs
  SMCOG1298: putative carboxymuconolactone decarboxylase

Ligases: synthase
HCC61_RS28790: Beta-ketoacyl synthase

smcogs
  SMCOG1093: Beta-ketoacyl synthase

HCC61_RS28795: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS28800: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS28805: Beta-ketoacyl synthase

smcogs
  SMCOG1093: Beta-ketoacyl synthase

HCC61_RS28835: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.74 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  | 0.74 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001244.3 |  | 0.72 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0000041.3 |  | 0.69 | PKS | oronofacic acid | Pseudomonas syringae
BGC0001276.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0002154.2 |  | 0.64 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001257.3 |  | 0.64 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245
BGC0002191.2 |  | 0.64 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001258.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis
BGC0000107.3 |  | 0.63 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.74 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  | 0.74 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001244.3 |  | 0.72 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0000041.3 |  | 0.69 | PKS | oronofacic acid | Pseudomonas syringae
BGC0001276.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0002154.2 |  | 0.64 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001257.3 |  | 0.64 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245
BGC0002191.2 |  | 0.64 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001258.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis
BGC0000107.3 |  | 0.63 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4

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:
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.25 out of 20.47
Confidence: medium
Additional weak hits (7):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.35 out of 30.25
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.14 out of 30.22
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.77 out of 31.73
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.40 out of 27.78
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.03 out of 26.06
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.79 out of 29.38
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.96 out of 26.33
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 1, location 0 - 53477:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (redmal) + (Me-mal - Me-ccmal) + (ccmal) + (Me-redmal)
Non-colinear ordering:
  HCC61_RS28790 + HCC61_RS28795 + HCC61_RS28800 + HCC61_RS28805

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).
HCC61_RS28790: mal
PKS_AT (549..842): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 66.7%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 193.8
  inactive: 75.5
  Methoxymalonyl-CoA: 63.6
  Methylmalonyl-CoA: 61.8
  Ethylmalonyl-CoA: 36.6
  Propionyl-CoA: 35.2
  Isobutyryl-CoA: 28.5
  Acetyl-CoA: 25.6
  fatty_acid: 16.0
  Benzoyl-CoA: 15.2
  2-Methylbutyryl-CoA: 13.5
  CHC-CoA: 13.0
  trans-1,2-CPDA: 7.2
  3-Methylbutyryl-CoA: 0.0

HCC61_RS28795: mmal - mmal
PKS_AT (568..865): mmal
ATSignature: Ethylmalonyl-CoA, Methoxymalonyl-CoA, Methylmalonyl-CoA

Top 3 matches:
  Ethylmalonyl-CoA: 79.2%
  Methoxymalonyl-CoA: 79.2%
  Methylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 165.5
  Ethylmalonyl-CoA: 164.8
  Methoxymalonyl-CoA: 150.4
  trans-1,2-CPDA: 115.7
  Malonyl-CoA: 113.5
  2-Methylbutyryl-CoA: 109.6
  CHC-CoA: 86.9
  Propionyl-CoA: 85.4
  Isobutyryl-CoA: 72.8
  Acetyl-CoA: 64.7
  3-Methylbutyryl-CoA: 51.5
  Benzoyl-CoA: 50.4
  fatty_acid: 32.9
  inactive: 26.7

PKS_AT (2241..2538): mmal
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 95.8%
  Ethylmalonyl-CoA: 87.5%
  Methoxymalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 193.9
  Ethylmalonyl-CoA: 185.8
  Methoxymalonyl-CoA: 160.5
  2-Methylbutyryl-CoA: 156.4
  Propionyl-CoA: 118.4
  trans-1,2-CPDA: 107.5
  Malonyl-CoA: 95.9
  CHC-CoA: 87.5
  Isobutyryl-CoA: 56.8
  3-Methylbutyryl-CoA: 47.8
  Benzoyl-CoA: 46.9
  Acetyl-CoA: 41.1
  fatty_acid: 39.7
  inactive: 33.3

HCC61_RS28800: mal
PKS_AT (592..862): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 79.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 184.7
  inactive: 88.0
  Methoxymalonyl-CoA: 54.4
  Methylmalonyl-CoA: 43.4
  Isobutyryl-CoA: 23.8
  Propionyl-CoA: 22.8
  Acetyl-CoA: 10.5
  Benzoyl-CoA: 10.1
  Ethylmalonyl-CoA: 3.9
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  CHC-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

HCC61_RS28805: mmal
PKS_AT (583..877): mmal
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 91.7%
  Malonyl-CoA: 87.5%
  Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 189.0
  Ethylmalonyl-CoA: 184.7
  Methoxymalonyl-CoA: 159.9
  2-Methylbutyryl-CoA: 133.6
  Propionyl-CoA: 103.7
  trans-1,2-CPDA: 94.3
  Malonyl-CoA: 91.8
  CHC-CoA: 80.6
  Benzoyl-CoA: 65.9
  Isobutyryl-CoA: 61.9
  Acetyl-CoA: 52.1
  3-Methylbutyryl-CoA: 43.8
  fatty_acid: 27.0
  inactive: 21.3

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

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
VqsM | Regulator of quorum-sensing signalling systems

NZ_JAASAG010000019.1 - Region 1 - NRPS-like,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: 1 - 25,500 nt. (total: 25,500 nt) Show pHMM detection rules used
Region on contig edge.
NRPS-like: cds((PP-binding or NAD_binding_4) 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
TTA codons
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
HCC61_RS28970: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

HCC61_RS28990: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

Transferases: aminotransferase glycosyltransferase
HCC61_RS28980: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

HCC61_RS28985: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs
  SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001273.3 |  |  | 0.61 | PKS | asperlactone | Aspergillus ochraceus
BGC0001244.3 |  |  | 0.60 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0002191.2 |  |  | 0.59 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  |  | 0.58 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0002192.3 |  |  | 0.57 | PKS | FR901512 | fungal sp. No.14919
BGC0001164.3 |  |  | 0.57 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001254.3 |  |  | 0.56 | PKS | ACT-Toxin II | Alternaria alternata
BGC0001160.5 |  |  | 0.56 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0002154.2 |  |  | 0.54 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001257.3 |  |  | 0.54 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.64 | PKS | asperlactone | Aspergillus ochraceus
BGC0001244.3 |  | 0.63 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0002191.2 |  | 0.63 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  | 0.63 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0002192.3 |  | 0.62 | PKS | FR901512 | fungal sp. No.14919
BGC0001164.3 |  | 0.62 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001254.3 |  | 0.62 | PKS | ACT-Toxin II | Alternaria alternata
BGC0001160.5 |  | 0.62 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0002154.2 |  | 0.61 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001257.3 |  | 0.60 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245

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: 17.92 out of 20.47
Confidence: medium
Additional weak hits (6):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.93 out of 29.38
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.61 out of 28.14
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.02 out of 29.38
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.68 out of 21.55
Confidence: weak
RicR
Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 21.33 out of 32.93
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.14 out of 21.84
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 1, location 0 - 25500:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (AHBA)

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).
HCC61_RS28955: AHBA - mal
CAL_domain (34..448): AHBA
minowa: AHBA

Prediction, score:
  AHBA: 386.4
  shikimic_acid: 283.8
  Acetyl-CoA: 10.6
  fatty_acid: 0.0
  NH2: 0.0

PKS_AT (1631..1832): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 161.5
  inactive: 71.0
  Methoxymalonyl-CoA: 44.2
  Methylmalonyl-CoA: 40.4
  Acetyl-CoA: 17.3
  Ethylmalonyl-CoA: 16.0
  Isobutyryl-CoA: 14.8
  Propionyl-CoA: 12.8
  Benzoyl-CoA: 12.1
  fatty_acid: 7.4
  2-Methylbutyryl-CoA: 7.3
  CHC-CoA: 5.2
  trans-1,2-CPDA: 0.0
  3-Methylbutyryl-CoA: 0.0

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

Regulator | Description
--- | ---
VqsM | Regulator of quorum-sensing signalling systems

NZ_JAASAG010000019.1 - Region 2 - butyrolactone
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: 38,094 - 49,209 nt. (total: 11,116 nt) Show pHMM detection rules used
butyrolactone: AfsA

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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
Lyases: dehydratase
HCC61_RS29085: 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 | butyrolactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000850.5 |  | 0.64 | other (other) | γ-butyrolactone | Streptomyces acidiscabies
BGC0000849.4 |  | 0.59 | other (butyrolactone) | SCB1, SCB2, SCB3 | Streptomyces coelicolor A3(2)
BGC0002578.2 |  | 0.41 | other (other) | gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F | Streptomyces venezuelae ATCC 10712
BGC0000914.5 |  | 0.26 | other (other) | methylenomycin A | Streptomyces coelicolor A3(2)
BGC0000826.5 |  | 0.26 | other (other) | staurosporine | Streptomyces clavuligerus ATCC 27064
BGC0000827.3 |  | 0.25 | other (other) | staurosporine | Salinispora arenicola CNS-205
BGC0001771.4 |  | 0.25 | NRPS | scleric acid | Streptomyces sclerotialus
BGC0001137.5 |  | 0.25 | other (other) | marinacarboline A, marinacarboline B, marinacarboline C, marinacarboline D | Marinactinospora thermotolerans
BGC0001083.5 |  | 0.25 | PKS, terpene | merochlorin A, merochlorin B, deschloro-merochlorin A, deschloro-merochlorin B, isochloro-merochlorin B, dichloro-merochlorin B, merochlorin D, merochlorin C | Streptomyces sp. CNH189
BGC0002652.2 |  | 0.25 | other (other), saccharide | cytosaminomycin F, cytosaminomycin G, streptcytosine P, plicacetin, 40551-F, 12F-plicacetin, streptcytosine D, streptcytosine E | Streptomyces sp. SHP22-7

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000850.5 |  | 0.64 | other (other) | γ-butyrolactone | Streptomyces acidiscabies
BGC0000849.4 |  | 0.59 | other (butyrolactone) | SCB1, SCB2, SCB3 | Streptomyces coelicolor A3(2)
BGC0002578.2 |  | 0.41 | other (other) | gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F | Streptomyces venezuelae ATCC 10712
BGC0000914.5 |  | 0.26 | other (other) | methylenomycin A | Streptomyces coelicolor A3(2)
BGC0000826.5 |  | 0.26 | other (other) | staurosporine | Streptomyces clavuligerus ATCC 27064
BGC0000827.3 |  | 0.25 | other (other) | staurosporine | Salinispora arenicola CNS-205
BGC0001771.4 |  | 0.25 | NRPS | scleric acid | Streptomyces sclerotialus
BGC0001137.5 |  | 0.25 | other (other) | marinacarboline A, marinacarboline B, marinacarboline C, marinacarboline D | Marinactinospora thermotolerans
BGC0001083.5 |  | 0.25 | PKS, terpene | merochlorin A, merochlorin B, deschloro-merochlorin A, deschloro-merochlorin B, isochloro-merochlorin B, dichloro-merochlorin B, merochlorin D, merochlorin C | Streptomyces sp. CNH189
BGC0002652.2 |  | 0.25 | other (other), saccharide | cytosaminomycin F, cytosaminomycin G, streptcytosine P, plicacetin, 40551-F, 12F-plicacetin, streptcytosine D, streptcytosine E | Streptomyces sp. SHP22-7

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.
No hits above weak threshold.
Weak hits (6):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.41 out of 26.33
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.89 out of 23.43
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.62 out of 39.62
Confidence: weak
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.00 out of 18.57
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.71 out of 25.75
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.78 out of 30.25
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---

NZ_JAASAG010000002.1 - Region 1 - butyrolactone
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: 180,776 - 191,783 nt. (total: 11,008 nt) Show pHMM detection rules used
butyrolactone: AfsA

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: oxygenase
HCC61_RS04720: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS04725: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

Transferases: methyltransferase
HCC61_RS04685: methyltransferase

smcogs
  SMCOG1089: methyltransferase

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 | butyrolactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002449.2 |  | 0.41 | other (other) | sarasinoside | uncultured bacterium
BGC0001223.5 |  | 0.40 | other (other) | hydroxysporine | uncultured bacterium
BGC0001605.3 |  | 0.39 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001458.4 |  | 0.39 | other (aminocoumarin) | salinipostin G, Salinipostin G, Salinipostin A, Salinipostin B, Salinipostin C, Salinipostin D, Salinipostin E, Salinipostin F, Salinipostin H, Salinipostin I, Salinipostin J, Salinipostin K | Salinispora tropica CNB-440
BGC0001335.5 |  | 0.37 | other (other) | borregomycin A, borregomycin B, borregomycin C, borregomycin D | uncultured bacterium
BGC0001483.4 |  | 0.36 | other (other) | 5-isoprenylindole-3-carboxylate β-D-glycosyl ester | Streptomyces sp. RM-5-8
BGC0002578.2 |  | 0.36 | other (other) | gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F | Streptomyces venezuelae ATCC 10712
BGC0000968.5 |  | 0.35 | NRPS, PKS | chaetoglobosin A, chaetoglobosin C | Penicillium expansum
BGC0000665.5 |  | 0.34 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0000391.5 |  | 0.34 | NRPS | methylpendolmycin, pendolmycin | Marinactinospora thermotolerans

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002449.2 |  | 0.41 | other (other) | sarasinoside | uncultured bacterium
BGC0001223.5 |  | 0.40 | other (other) | hydroxysporine | uncultured bacterium
BGC0001605.3 |  | 0.39 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001458.4 |  | 0.39 | other (aminocoumarin) | salinipostin G, Salinipostin G, Salinipostin A, Salinipostin B, Salinipostin C, Salinipostin D, Salinipostin E, Salinipostin F, Salinipostin H, Salinipostin I, Salinipostin J, Salinipostin K | Salinispora tropica CNB-440
BGC0001335.5 |  | 0.37 | other (other) | borregomycin A, borregomycin B, borregomycin C, borregomycin D | uncultured bacterium
BGC0001483.4 |  | 0.36 | other (other) | 5-isoprenylindole-3-carboxylate β-D-glycosyl ester | Streptomyces sp. RM-5-8
BGC0002578.2 |  | 0.36 | other (other) | gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F | Streptomyces venezuelae ATCC 10712
BGC0000968.5 |  | 0.35 | NRPS, PKS | chaetoglobosin A, chaetoglobosin C | Penicillium expansum
BGC0000665.5 |  | 0.34 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0000391.5 |  | 0.34 | NRPS | methylpendolmycin, pendolmycin | Marinactinospora thermotolerans

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:
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.67 out of 19.26
Confidence: medium
Additional weak hits (4):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.96 out of 26.33
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.05 out of 30.22
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.76 out of 21.84
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.19 out of 30.98
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CRP | Cyclic AMP receptor protein
MexT | Global virulence regulator

NZ_JAASAG010000020.1 - Region 1 - 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: 32,359 - 60,958 nt. (total: 28,600 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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: dehydrogenase oxidase oxygenase
HCC61_RS29395: FAD linked oxidase domain protein

smcogs
  SMCOG1138: FAD linked oxidase domain protein

HCC61_RS29415: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS29435: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

HCC61_RS29445: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS29455: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: methyltransferase transferase
HCC61_RS29425: O-methyltransferase

smcogs
  SMCOG1042: O-methyltransferase

HCC61_RS29440: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Ligases: synthase
HCC61_RS29450: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.64 | PKS | asperlactone | Aspergillus ochraceus
BGC0001257.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245
BGC0001258.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis
BGC0000107.3 |  | 0.63 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002175.3 |  | 0.63 | PKS | YWA1 | Aspergillus oryzae RIB40
BGC0001275.3 |  | 0.62 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001284.4 |  | 0.62 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001254.3 |  | 0.62 | PKS | ACT-Toxin II | Alternaria alternata
BGC0001160.5 |  | 0.61 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.64 | PKS | asperlactone | Aspergillus ochraceus
BGC0001257.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245
BGC0001258.3 |  | 0.63 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis
BGC0000107.3 |  | 0.63 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002175.3 |  | 0.63 | PKS | YWA1 | Aspergillus oryzae RIB40
BGC0001275.3 |  | 0.62 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001284.4 |  | 0.62 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001254.3 |  | 0.62 | PKS | ACT-Toxin II | Alternaria alternata
BGC0001160.5 |  | 0.61 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822

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:
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.93 out of 26.85
Confidence: medium
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 1, location 32358 - 60958:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (ohmal)

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).
HCC61_RS29450: mal
PKS_AT (546..821): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 70.8%
  Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 196.2
  inactive: 78.4
  Methoxymalonyl-CoA: 57.5
  Methylmalonyl-CoA: 40.8
  Propionyl-CoA: 23.6
  Isobutyryl-CoA: 11.5
  Benzoyl-CoA: 10.8
  Acetyl-CoA: 9.8
  CHC-CoA: 8.4
  Ethylmalonyl-CoA: 7.7
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

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

Regulator | Description
--- | ---
RutR | Regulator of the pyrimidine and purine metabolism

NZ_JAASAG010000024.1 - Region 1 - 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: 1 - 17,331 nt. (total: 17,331 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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
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: acylase
HCC61_RS31115: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.73 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  | 0.73 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001276.3 |  | 0.73 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0001298.4 |  | 0.57 | PKS | 4-Z-annimycin, 4-E-annimycin | Streptomyces calvus
BGC0000038.5 |  | 0.51 | PKS | coelimycin P1 | Streptomyces coelicolor A3(2)
BGC0000143.5 |  | 0.51 | PKS | salinomycin | Streptomyces albus
BGC0002229.2 |  | 0.51 | PKS | 6-MSA, aculin A | Aspergillus aculeatus ATCC 16872
BGC0000067.5 |  | 0.51 | PKS | geldanamycin | Streptomyces hygroscopicus subsp. duamyceticus
BGC0001065.5 |  | 0.50 | PKS | herboxidiene | Streptomyces chromofuscus
BGC0001052.5 |  | 0.50 | NRPS, PKS | tirandamycin | Streptomyces sp. 307-9

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.73 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  | 0.73 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001276.3 |  | 0.73 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0001298.4 |  | 0.57 | PKS | 4-Z-annimycin, 4-E-annimycin | Streptomyces calvus
BGC0000038.5 |  | 0.51 | PKS | coelimycin P1 | Streptomyces coelicolor A3(2)
BGC0000143.5 |  | 0.51 | PKS | salinomycin | Streptomyces albus
BGC0002229.2 |  | 0.51 | PKS | 6-MSA, aculin A | Aspergillus aculeatus ATCC 16872
BGC0000067.5 |  | 0.51 | PKS | geldanamycin | Streptomyces hygroscopicus subsp. duamyceticus
BGC0001065.5 |  | 0.50 | PKS | herboxidiene | Streptomyces chromofuscus
BGC0001052.5 |  | 0.50 | NRPS, PKS | tirandamycin | Streptomyces sp. 307-9

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.

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
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 1, location 0 - 17331:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (ccmal - ccmal - Me-ccmal)

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).
HCC61_RS31115: mal - mal - mmal
PKS_AT (563..851): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 219.9
  inactive: 102.3
  Methoxymalonyl-CoA: 62.4
  Methylmalonyl-CoA: 52.2
  Isobutyryl-CoA: 28.5
  Propionyl-CoA: 26.4
  Ethylmalonyl-CoA: 23.8
  Benzoyl-CoA: 21.5
  Acetyl-CoA: 18.8
  trans-1,2-CPDA: 17.0
  fatty_acid: 13.4
  CHC-CoA: 9.1
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: -0.4

PKS_AT (2273..2558): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 227.8
  inactive: 105.2
  Methoxymalonyl-CoA: 64.4
  Methylmalonyl-CoA: 56.1
  Isobutyryl-CoA: 33.6
  Propionyl-CoA: 27.1
  Ethylmalonyl-CoA: 25.7
  Benzoyl-CoA: 24.5
  trans-1,2-CPDA: 19.4
  Acetyl-CoA: 16.3
  fatty_acid: 16.2
  CHC-CoA: 11.1
  2-Methylbutyryl-CoA: 4.3
  3-Methylbutyryl-CoA: 0.0

PKS_AT (4023..4321): mmal
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 95.8%
  Malonyl-CoA: 87.5%
  Methoxymalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 211.3
  Ethylmalonyl-CoA: 202.7
  Methoxymalonyl-CoA: 170.8
  2-Methylbutyryl-CoA: 147.8
  trans-1,2-CPDA: 116.6
  Propionyl-CoA: 106.8
  Malonyl-CoA: 101.0
  CHC-CoA: 99.4
  Isobutyryl-CoA: 84.6
  Benzoyl-CoA: 69.2
  Acetyl-CoA: 49.5
  fatty_acid: 47.0
  3-Methylbutyryl-CoA: 34.0
  inactive: 26.7

Link to PARAS substrate predictor
NZ_JAASAG010000026.1 - Region 1 - 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: 1 - 7,375 nt. (total: 7,375 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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
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: acylase
HCC61_RS29960: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002191.2 |  | 0.63 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  | 0.62 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0002192.3 |  | 0.61 | PKS | FR901512 | fungal sp. No.14919
BGC0001160.5 |  | 0.61 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0000107.3 |  | 0.60 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002171.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002596.2 |  | 0.54 | PKS | lecanoric acid, orsellinic acid | Claviceps purpurea 20.1
BGC0002749.2 |  | 0.51 | NRPS, PKS | aspcandine | Aspergillus candidus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002191.2 |  | 0.63 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  | 0.62 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0002192.3 |  | 0.61 | PKS | FR901512 | fungal sp. No.14919
BGC0001160.5 |  | 0.61 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0000107.3 |  | 0.60 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002171.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002596.2 |  | 0.54 | PKS | lecanoric acid, orsellinic acid | Claviceps purpurea 20.1
BGC0002749.2 |  | 0.51 | NRPS, PKS | aspcandine | Aspergillus candidus

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.

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
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 1, location 0 - 7375:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (ohmal)

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).
HCC61_RS29960: mal
PKS_AT (1021..1306): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 79.2%
  Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 216.4
  inactive: 101.7
  Methoxymalonyl-CoA: 60.1
  Methylmalonyl-CoA: 54.1
  Propionyl-CoA: 30.1
  Acetyl-CoA: 27.0
  Benzoyl-CoA: 22.0
  Ethylmalonyl-CoA: 21.6
  Isobutyryl-CoA: 19.4
  2-Methylbutyryl-CoA: 18.3
  CHC-CoA: 12.8
  fatty_acid: 12.2
  trans-1,2-CPDA: 8.1
  3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor
NZ_JAASAG010000028.1 - Region 1 - 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: 1 - 3,090 nt. (total: 3,090 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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
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: dehydrogenase
HCC61_RS29980: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.62 | PKS | asperlactone | Aspergillus ochraceus
BGC0001160.5 |  | 0.60 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0002171.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002749.2 |  | 0.50 | NRPS, PKS | aspcandine | Aspergillus candidus
BGC0000122.5 |  | 0.49 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0000043.5 |  | 0.49 | PKS | curacin A | Moorea producens 19L
BGC0000353.5 |  | 0.47 | NRPS | tacrolimus | Streptomyces sp. MA6548
BGC0000041.3 |  | 0.47 | PKS | oronofacic acid | Pseudomonas syringae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001273.3 |  | 0.62 | PKS | asperlactone | Aspergillus ochraceus
BGC0001160.5 |  | 0.60 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0002171.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.59 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002749.2 |  | 0.50 | NRPS, PKS | aspcandine | Aspergillus candidus
BGC0000122.5 |  | 0.49 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0000043.5 |  | 0.49 | PKS | curacin A | Moorea producens 19L
BGC0000353.5 |  | 0.47 | NRPS | tacrolimus | Streptomyces sp. MA6548
BGC0000041.3 |  | 0.47 | PKS | oronofacic acid | Pseudomonas syringae

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 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
NZ_JAASAG010000029.1 - Region 1 - 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: 1 - 2,809 nt. (total: 2,809 nt) Show pHMM detection rules used
Region on contig edge.
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
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: acylase
HCC61_RS29985: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001160.5 |  | 0.55 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.55 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0002171.2 |  | 0.55 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.55 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002749.2 |  | 0.45 | NRPS, PKS | aspcandine | Aspergillus candidus
BGC0000353.5 |  | 0.44 | NRPS | tacrolimus | Streptomyces sp. MA6548
BGC0000122.5 |  | 0.43 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0000041.3 |  | 0.43 | PKS | oronofacic acid | Pseudomonas syringae
BGC0000043.5 |  | 0.43 | PKS | curacin A | Moorea producens 19L
BGC0002555.3 |  | 0.41 | NRPS, PKS | emerimicin V, emerimicin VI, emerimicin VII, emerimicin VIII, emerimicin IX, emerimicin X | Acremonium sp.

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001160.5 |  | 0.55 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.55 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0002171.2 |  | 0.55 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger ATCC 1015
BGC0002275.2 |  | 0.55 | NRPS, PKS | pyrophen, campyrone B | Aspergillus niger CBS 101883
BGC0002749.2 |  | 0.45 | NRPS, PKS | aspcandine | Aspergillus candidus
BGC0000353.5 |  | 0.44 | NRPS | tacrolimus | Streptomyces sp. MA6548
BGC0000122.5 |  | 0.43 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0000041.3 |  | 0.43 | PKS | oronofacic acid | Pseudomonas syringae
BGC0000043.5 |  | 0.43 | PKS | curacin A | Moorea producens 19L
BGC0002555.3 |  | 0.41 | NRPS, PKS | emerimicin V, emerimicin VI, emerimicin VII, emerimicin VIII, emerimicin IX, emerimicin X | Acremonium sp.

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 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 substrates
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).
HCC61_RS29985: pk
PKS_AT (292..594): pk
ATSignature: Ethylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:
  Ethylmalonyl-CoA: 87.5%
  Methoxymalonyl-CoA: 87.5%
  Methylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 186.3
  Ethylmalonyl-CoA: 183.2
  Methoxymalonyl-CoA: 149.6
  2-Methylbutyryl-CoA: 116.8
  trans-1,2-CPDA: 108.9
  Isobutyryl-CoA: 96.1
  Malonyl-CoA: 92.6
  CHC-CoA: 86.8
  Propionyl-CoA: 81.0
  Benzoyl-CoA: 53.7
  3-Methylbutyryl-CoA: 39.7
  Acetyl-CoA: 34.7
  inactive: 29.5
  fatty_acid: 28.6

Link to PARAS substrate predictor
NZ_JAASAG010000003.1 - 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: 469,191 - 495,798 nt. (total: 26,608 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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
HCC61_RS10020: dehydrogenase

smcogs
  SMCOG1181: dehydrogenase

Transferases: aminotransferase transferase
HCC61_RS10015: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs
  SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

HCC61_RS10090: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

Ligases: synthetase
HCC61_RS10070: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Translocases: transport
HCC61_RS10045: MMPL domain-containing transport protein

smcogs
  SMCOG1035: MMPL domain-containing transport 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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000663.5 |  | 0.66 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000664.5 |  | 0.52 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000656.5 |  | 0.50 | terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0002162.3 |  | 0.49 | terpene | sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8 | Aspergillus fischeri NRRL 181
BGC0000630.3 |  | 0.49 | terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000646.5 |  | 0.49 | terpene | β-carotein | uncultured bacterium
BGC0000640.3 |  | 0.48 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0002173.2 |  | 0.48 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0000859.3 |  | 0.48 | other (other) | ectoine | Methylomicrobium alcaliphilum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000663.5 |  | 0.66 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000664.5 |  | 0.52 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000656.5 |  | 0.50 | terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0002162.3 |  | 0.49 | terpene | sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8 | Aspergillus fischeri NRRL 181
BGC0000630.3 |  | 0.49 | terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000646.5 |  | 0.49 | terpene | β-carotein | uncultured bacterium
BGC0000640.3 |  | 0.48 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0002173.2 |  | 0.48 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0000859.3 |  | 0.48 | other (other) | ectoine | Methylomicrobium alcaliphilum

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 | hopanoid |  | C30 | hopanoid skeleton | unknown
triterpene | polypodane |  | C30 | polypodane skeleton | unknown

Genes with terpene domains:
HCC61_RS10055: PT_phytoene_like
Domain 1 (7 - 283): Prenyltransferase; Phytoene synthase like
Subtype: Hydroxysqualene synthase

Reactions:
  PSPP → hydroxysqualene

HCC61_RS10060: PT_phytoene_like
Domain 1 (15 - 299): Prenyltransferase; Phytoene synthase like
Subtype: unknown

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

HCC61_RS10070: PT_FPPS_like
Domain 1 (59 - 355): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

Reactions:
  IPP, DMAPP → FPP
  IPP, DMAPP → GGPP
  IPP, DMAPP → GFPP
  IPP, DMAPP → HPP

HCC61_RS10075: T2TS
Domain 1 (25 - 676): Type 2 terpene synthase
Subtype: Squalene substrate

Reactions:
  squalene → hopanoid
  squalene → polypodane

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:
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.23 out of 19.52
Confidence: medium
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.94 out of 20.01
Confidence: medium
Additional weak hits (1):
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.45 out of 25.75
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
DMAPP | Dimethylallyl diphosphate
FPP | Farnesyl diphosphate
GFPP | Geranylfarnesyl diphosphate
GGPP | Geranylgeranyl diphosphate
HPP | Hexaprenyl diphosphate
IPP | Isopentenyl diphosphate
PSPP | Presqualene diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsQ1 | Two-component system AfsQ1-Q2, activator of antibiotic production
ArgR | Regulator of arginine biosynthesis genes

NZ_JAASAG010000003.1 - Region 2 - 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: 787,239 - 821,818 nt. (total: 34,580 nt) Show pHMM detection rules used
Region on contig edge.
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
TTA codons
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: dehydrogenase synthase
HCC61_RS11380: riboflavin biosynthesis protein RibD

smcogs
  SMCOG1240: riboflavin biosynthesis protein RibD

HCC61_RS11445: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: acylase halogenase
HCC61_RS11450: conventional flavin-dependent halogenase

halogenases
  conventional flavin-dependent halogenase
smcogs
  SMCOG1119: halogenase

HCC61_RS30655: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: hydrolase synthase
HCC61_RS11380: riboflavin biosynthesis protein RibD

smcogs
  SMCOG1240: riboflavin biosynthesis protein RibD

HCC61_RS11455: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000996.5 |  | 0.47 | NRPS, PKS | frontalamide B, frontalamide A | Streptomyces sp. SPB78
BGC0000170.3 |  | 0.45 | PKS | yanuthone D | Aspergillus niger ATCC 1015
BGC0000927.3 |  | 0.44 | other (flavin) | roseoflavin | Streptomyces davaonensis JCM 4913
BGC0000122.5 |  | 0.44 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0002697.3 |  | 0.44 | NRPS, PKS | clipibicyclene, azabicyclene B, azabicyclene C, azabicyclene D | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000840.5 |  | 0.43 | other (other) | xanthomonadin I | Xanthomonas oryzae pv. oryzae
BGC0000138.5 |  | 0.42 | PKS | rimocidin | Streptomyces diastaticus
BGC0002152.2 |  | 0.42 | other (other) | toxoflavin | Pseudomonas protegens Pf-5
BGC0000068.5 |  | 0.42 | PKS | geldanamycin | Streptomyces hygroscopicus
BGC0001726.4 |  | 0.42 | NRPS, PKS | pactamide A, pactamide B, pactamide C, pactamide D, pactamide E, pactamide F | Streptomyces pactum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000996.5 |  | 0.47 | NRPS, PKS | frontalamide B, frontalamide A | Streptomyces sp. SPB78
BGC0000170.3 |  | 0.45 | PKS | yanuthone D | Aspergillus niger ATCC 1015
BGC0000927.3 |  | 0.44 | other (flavin) | roseoflavin | Streptomyces davaonensis JCM 4913
BGC0000122.5 |  | 0.44 | PKS | phenylnannolone A, phenylnannolone B, phenylnannolone C | Nannocystis pusilla
BGC0002697.3 |  | 0.44 | NRPS, PKS | clipibicyclene, azabicyclene B, azabicyclene C, azabicyclene D | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000840.5 |  | 0.43 | other (other) | xanthomonadin I | Xanthomonas oryzae pv. oryzae
BGC0000138.5 |  | 0.42 | PKS | rimocidin | Streptomyces diastaticus
BGC0002152.2 |  | 0.42 | other (other) | toxoflavin | Pseudomonas protegens Pf-5
BGC0000068.5 |  | 0.42 | PKS | geldanamycin | Streptomyces hygroscopicus
BGC0001726.4 |  | 0.42 | NRPS, PKS | pactamide A, pactamide B, pactamide C, pactamide D, pactamide E, pactamide F | Streptomyces pactum

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:
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.37 out of 23.79
Confidence: medium
Additional weak hits (4):
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.03 out of 19.26
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.23 out of 30.98
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.88 out of 30.11
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.00 out of 27.04
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 2, location 787238 - 821818:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (mal - ccmal - Me-ccmal)

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).
HCC61_RS30655: mal - mal - mmal
PKS_AT (537..823): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 70.8%
  Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 218.4
  inactive: 99.1
  Methoxymalonyl-CoA: 77.4
  Methylmalonyl-CoA: 67.4
  Isobutyryl-CoA: 45.8
  Propionyl-CoA: 35.9
  Ethylmalonyl-CoA: 28.2
  2-Methylbutyryl-CoA: 25.0
  Benzoyl-CoA: 23.3
  Acetyl-CoA: 21.1
  fatty_acid: 11.9
  CHC-CoA: 10.0
  trans-1,2-CPDA: 5.2
  3-Methylbutyryl-CoA: 0.0

PKS_AT (1543..1830): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 100.0%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 207.8
  inactive: 89.6
  Methoxymalonyl-CoA: 65.8
  Methylmalonyl-CoA: 57.8
  Propionyl-CoA: 44.2
  Ethylmalonyl-CoA: 25.5
  CHC-CoA: 19.8
  Isobutyryl-CoA: 19.5
  Benzoyl-CoA: 19.5
  Acetyl-CoA: 19.1
  fatty_acid: 14.5
  2-Methylbutyryl-CoA: 13.9
  trans-1,2-CPDA: 13.5
  3-Methylbutyryl-CoA: 0.0

PKS_AT (3212..3511): mmal
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 95.8%
  Methoxymalonyl-CoA: 91.7%
  Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 212.2
  Ethylmalonyl-CoA: 209.5
  Methoxymalonyl-CoA: 171.5
  2-Methylbutyryl-CoA: 146.2
  trans-1,2-CPDA: 121.1
  Propionyl-CoA: 118.2
  CHC-CoA: 83.7
  Malonyl-CoA: 82.1
  Isobutyryl-CoA: 78.7
  Acetyl-CoA: 62.2
  Benzoyl-CoA: 57.5
  3-Methylbutyryl-CoA: 46.3
  fatty_acid: 30.3
  inactive: 29.6

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

Regulator | Description
--- | ---
IolR | Regulator of the inositol catabolism

NZ_JAASAG010000004.1 - Region 1 - NI-siderophore,NRP-metallophore,NRPS,t3nrps-iterative,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: 71,195 - 208,400 nt. (total: 137,206 nt) Show pHMM detection rules used
t3nrps-iterative: (AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC) and not ATP-grasp)
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)))
NI-siderophore: IucA_IucC
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
terpene-precursor: (PT_FPPS_like and not PT_HPP)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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
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: dehydrogenase oxidoreductase oxygenase reductase
HCC61_RS11790: 3-hydroxybutyryl-CoA dehydrogenase

smcogs
  SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

HCC61_RS11830: hydroxymethylglutaryl-CoA reductase

smcogs
  SMCOG1187: hydroxymethylglutaryl-CoA reductase

HCC61_RS11875: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS11935: lysine/ornithine N-monooxygenase

smcogs
  SMCOG1080: lysine/ornithine N-monooxygenase

HCC61_RS12070: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS12085: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

HCC61_RS12180: 3-hydroxyisobutyrate dehydrogenase

smcogs
  SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

Transferases: acetyltransferase formyltransferase methyltransferase
HCC61_RS11800: methyltransferase

smcogs
  SMCOG1089: methyltransferase

HCC61_RS11940: methionyl-tRNA formyltransferase

smcogs
  SMCOG1228: methionyl-tRNA formyltransferase

HCC61_RS31485: acetyl-CoA acetyltransferase

smcogs
  SMCOG1124: acetyl-CoA acetyltransferase

Hydrolases: hydrolase
HCC61_RS11860: isochorismatase

smcogs
  SMCOG1027: isochorismatase

HCC61_RS12000: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

HCC61_RS12015: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

Lyases: decarboxylase dehydratase hydratase
HCC61_RS11845: L-carnitine dehydratase/bile acid-inducible

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

HCC61_RS11850: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

HCC61_RS11900: diaminopimelate decarboxylase

smcogs
  SMCOG1264: diaminopimelate decarboxylase

HCC61_RS12020: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Isomerases: isomerase
HCC61_RS11870: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: ligase synthetase
HCC61_RS11865: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS12115: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS12145: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

HCC61_RS30660: 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 | t3nrps-iterative | NRP-metallophore | NI-siderophore | NRPS | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0002071.2 |  |  |  |  |  | 1.33 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0000946.5 |  |  |  |  |  | 1.32 | other (other) | vibrioferrin | Vibrio parahaemolyticus
BGC0002135.2 |  |  |  |  |  | 1.30 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001641.4 |  |  |  |  |  | 1.25 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5 |  |  |  |  |  | 1.24 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001758.4 |  |  |  |  |  | 1.22 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001833.4 |  |  |  |  |  | 1.13 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001261.3 |  |  |  |  |  | 1.10 | NRPS | AM-toxin | Alternaria alternata
BGC0001825.4 |  |  |  |  |  | 1.09 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001240.4 |  |  |  |  |  | 1.09 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002071.2 |  | 0.73 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0001135.5 |  | 0.73 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001758.4 |  | 0.72 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001833.4 |  | 0.70 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001166.5 |  | 0.70 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001240.4 |  | 0.70 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0001261.3 |  | 0.69 | NRPS | AM-toxin | Alternaria alternata
BGC0001128.4 |  | 0.69 | 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.

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
diterpene precursor |  | GGPP | C20 | acyclic | PP
sesterterpene precursor |  | GFPP | C25 | acyclic | PP
triterpene precursor |  | HPP | C30 | acyclic | PP

Genes with terpene domains:
HCC61_RS12145: PT_FPPS_like
Domain 1 (67 - 366): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

Reactions:
  IPP, DMAPP → FPP
  IPP, DMAPP → GGPP
  IPP, DMAPP → GFPP
  IPP, DMAPP → HPP

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:
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.92 out of 26.85
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.60 out of 19.26
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 29.03 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.86 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 31.03 out of 36.53
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.15 out of 23.79
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.86 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.73 out of 36.53
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.48 out of 23.79
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.36 out of 23.79
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05
Confidence: medium
Additional weak hits (18):
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.75 out of 30.25
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.41 out of 36.53
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.74 out of 36.54
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.10 out of 36.53
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.11 out of 25.75
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.39 out of 28.19
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.41 out of 36.53
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.20 out of 39.62
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.40 out of 36.53
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.71 out of 36.53
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.33 out of 20.01
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.38 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.79 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.74 out of 28.14
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.94 out of 33.73
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.86 out of 32.93
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
Terpene
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 1, location 71194 - 208400:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Ala - Gly - Thr - Ser - D-Leu) + (Thr - D-His - Val - D-X) + (D-X - Gly - D-Ser - D-OH-Orn)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 71194 - 187936:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Ala - Gly - Thr - Ser - D-Leu) + (Thr - D-His - Val - D-X) + (D-X - Gly - D-Ser - D-OH-Orn)

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).
HCC61_RS11865: diOH-Bz
Search NORINE for peptide: strict or relaxed
AMP-binding (38..444): diOH-Bz
nrpys: diOH-Bz

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    SVSLFPLSSPGGGLLVGGAQQVFGMAEGLVNYTR
  Nearest Stachelhaus code(s):
    diOH-Bz PLPGLGVVNK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

HCC61_RS11965: Ala - Gly - Thr - Ser - Leu
Search NORINE for peptide: strict or relaxed
AMP-binding (467..882): 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:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    LAATFDIAATELQALTAGEFNLYGPSETTVYSTG
  Nearest Stachelhaus code(s):
    Ala DIFQLALVYK (62% 8Å match)
  Stachelhaus code match:
    90% (moderate)

AMP-binding (1530..1931): 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:
    FSMTFDIAVLELQALAGGEVNLYGPTETTVWSTV
  Nearest Stachelhaus code(s):
    Gly DILQLGLVWK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (2581..3037): Thr
nrpys: Thr

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LATHFDFSVWEGNQVFGGELNMYGITETTVHVTE
  Nearest Stachelhaus code(s):
    Thr DFWNVGMVHK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (3709..4119): 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:
    RWATFDVSVWEWFFFSSGEHNLYGPTEAAVHVTY
  Nearest Stachelhaus code(s):
    Ser DVWHFSLVDK (88% 8Å match)
  Stachelhaus code match:
    80% (moderate)

AMP-binding (4767..5177): Leu
nrpys: Leu

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LSQAFDASVMEMLIVVGGEVNAYGPTEVTACVTM
  Nearest Stachelhaus code(s):
    Leu DAMLVGAACK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

HCC61_RS11970: Thr - His - Val - X
Search NORINE for peptide: strict or relaxed
AMP-binding (476..943): Thr
nrpys: Thr

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LATHFDFSVWEGSQVFGGEVNMYGITETTVHVTQ
  Nearest Stachelhaus code(s):
    Thr DFWSVGMVHK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1624..2025): His
nrpys: His

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LTLAFDTSVWEMTVIVAGEFNSYGPTETTVDATL
  Nearest Stachelhaus code(s):
    His DTWTIASVDK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (3128..3540): 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:
    LDSSFDASTYEVWFWTGGDVNGYGPTETTTFATA
  Nearest Stachelhaus code(s):
    Val DAYWWGGTFK (91% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (4205..4610): X
nrpys: (unknown)

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    RWTAFDVSVWEGHFFSGGEVNQYGPTEAAVDVTA
  Nearest Stachelhaus code(s):
    His DYWHFGAVDK (82% 8Å match)
    Ser DVWHFSLVDK (79% 8Å match)
  Stachelhaus code match:
    80% (moderate)

HCC61_RS30660: X - Gly - Ser - OH-Orn
Search NORINE for peptide: strict or relaxed
AMP-binding (476..880): X
nrpys: (unknown)

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:
    LWAAFDVTFCENVIIVGTEFNAYGPTEAVVNSAT
  Nearest Stachelhaus code(s):
    Fo-OH-Orn DVWIIGAVNK (62% 8Å match)
    Trp or Pro DVMFIGAVNK (50% 8Å match)
  Stachelhaus code match:
    80% (moderate)

AMP-binding (2002..2381): 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:
    LDITFDIAALEVQALSGGELNLYGPTETTVWSTA
  Nearest Stachelhaus code(s):
    Gly DILQLGLVWK (85% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (3092..3500): 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:
    RWMTFDVSVWELHFFASGEHNLYGPTEATVDVTA
  Nearest Stachelhaus code(s):
    Ser DVWHFSLVDK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (4660..5066): OH-Orn
nrpys: OH-Orn

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    LSHWFDASWQPWEVGVGGEVNLYGPTEATVDSML
  Nearest Stachelhaus code(s):
    OH-Orn DAQEGGLVDK (85% 8Å match)
  Stachelhaus code match:
    100% (strong)

HCC61_RS12115: Asp
Search NORINE for peptide: strict or relaxed
AMP-binding (2..398): 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:
    N/A
  Single AA prediction:
    asp (Asp)

Stachelhaus prediction details:
  Stachelhaus sequence:
    VNLQHGAGYF-PKIVYGASIQDYGQSEAPMTITC
  Nearest Stachelhaus code(s):
  Stachelhaus code match:
    0% (weak)

Link to PARAS substrate predictor
Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
DMAPP | Dimethylallyl diphosphate
FPP | Farnesyl diphosphate
GFPP | Geranylfarnesyl diphosphate
GGPP | Geranylgeranyl diphosphate
HPP | Hexaprenyl diphosphate
IPP | Isopentenyl diphosphate
PP | Diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
CRP | Cyclic AMP receptor protein
DmdR1 | Iron(II)-dependent repressor
IolR | Regulator of the inositol catabolism
RutR | Regulator of the pyrimidine and purine metabolism

NZ_JAASAG010000005.1 - Region 1 - NI-siderophore
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: 49,656 - 82,987 nt. (total: 33,332 nt) Show pHMM detection rules used
NI-siderophore: IucA_IucC

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: oxygenase
HCC61_RS14020: Antibiotic biosynthesis monooxygenase

smcogs
  SMCOG1258: Antibiotic biosynthesis monooxygenase

Isomerases: mutase
HCC61_RS14025: phosphoglycerate mutase

smcogs
  SMCOG1101: phosphoglycerate mutase

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 | NI-siderophore | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002692.2 |  | 0.55 | other (other) | speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B | Kribbella speibonae
BGC0000942.4 |  | 0.54 | other (other) | petrobactin | Bacillus anthracis str. Ames
BGC0001499.5 |  | 0.54 | other (other) | aerobactin | Pantoea ananatis
BGC0001713.5 |  | 0.52 | other (other) | ochrobactin | Ochrobactrum anthropi
BGC0000295.5 |  | 0.51 | NRPS | acinetoferrin | Acinetobacter haemolyticus
BGC0002469.2 |  | 0.51 | other (other) | woodybactin A, woodybactin B, woodybactin C, woodybactin D | Shewanella woodyi ATCC 51908
BGC0001531.5 |  | 0.51 | other (other) | bisucaberin B | Tenacibaculum mesophilum
BGC0002682.2 |  | 0.50 | other (other) | aerobactin | Vibrio mimicus
BGC0000939.5 |  | 0.50 | other (other) | aerobactin | Grimontia hollisae
BGC0001572.3 |  | 0.50 | other (other) | desferrioxamine E | Pantoea agglomerans

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002692.2 |  | 0.55 | other (other) | speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B | Kribbella speibonae
BGC0000942.4 |  | 0.54 | other (other) | petrobactin | Bacillus anthracis str. Ames
BGC0001499.5 |  | 0.54 | other (other) | aerobactin | Pantoea ananatis
BGC0001713.5 |  | 0.52 | other (other) | ochrobactin | Ochrobactrum anthropi
BGC0000295.5 |  | 0.51 | NRPS | acinetoferrin | Acinetobacter haemolyticus
BGC0002469.2 |  | 0.51 | other (other) | woodybactin A, woodybactin B, woodybactin C, woodybactin D | Shewanella woodyi ATCC 51908
BGC0001531.5 |  | 0.51 | other (other) | bisucaberin B | Tenacibaculum mesophilum
BGC0002682.2 |  | 0.50 | other (other) | aerobactin | Vibrio mimicus
BGC0000939.5 |  | 0.50 | other (other) | aerobactin | Grimontia hollisae
BGC0001572.3 |  | 0.50 | other (other) | desferrioxamine E | Pantoea agglomerans

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:
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.93 out of 24.78
Confidence: medium
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 23.31 out of 27.18
Confidence: medium
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.14 out of 27.18
Confidence: medium
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.78 out of 29.72
Confidence: medium
Additional weak hits (11):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 26.33
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.88 out of 23.43
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.90 out of 33.73
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.29 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.54 out of 28.14
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.09 out of 29.65
Confidence: weak
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.77 out of 25.88
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 21.32 out of 27.18
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.47 out of 30.98
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.74 out of 27.04
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.04 out of 27.18
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CRP | Cyclic AMP receptor protein
LexA variant 2 | Repressor of DNA damage response
NrdR | Represses ribonucleotide reductase encoding genes
NtrC | Nitrogen regulatory protein C

NZ_JAASAG010000005.1 - Region 2 - hglE-KS
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: 196,834 - 249,138 nt. (total: 52,305 nt) Show pHMM detection rules used
hglE-KS: (hglE or hglD)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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
HCC61_RS14605: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

Transferases: carbamoyltransferase glycosyltransferase
HCC61_RS14575: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

HCC61_RS14630: ornithine carbamoyltransferase

smcogs
  SMCOG1114: ornithine carbamoyltransferase

Hydrolases: hydrolase
HCC61_RS14490: isochorismatase

smcogs
  SMCOG1027: isochorismatase

HCC61_RS14495: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

HCC61_RS14570: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

Lyases: hydratase
HCC61_RS14645: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: synthase
HCC61_RS14555: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS14560: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl 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 | hglE-KS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001284.4 |  | 0.61 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001160.5 |  | 0.60 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001273.3 |  | 0.60 | PKS | asperlactone | Aspergillus ochraceus
BGC0002154.2 |  | 0.59 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001276.3 |  | 0.59 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0000107.3 |  | 0.59 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002175.3 |  | 0.59 | PKS | YWA1 | Aspergillus oryzae RIB40
BGC0001244.3 |  | 0.59 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0001258.3 |  | 0.59 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001284.4 |  | 0.61 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001164.3 |  | 0.60 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001160.5 |  | 0.60 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001273.3 |  | 0.60 | PKS | asperlactone | Aspergillus ochraceus
BGC0002154.2 |  | 0.59 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001276.3 |  | 0.59 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0000107.3 |  | 0.59 | PKS | naphthopyrone | Aspergillus nidulans FGSC A4
BGC0002175.3 |  | 0.59 | PKS | YWA1 | Aspergillus oryzae RIB40
BGC0001244.3 |  | 0.59 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0001258.3 |  | 0.59 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis

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: 17.80 out of 20.47
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.67 out of 19.26
Confidence: medium
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.03 out of 29.72
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.38 out of 19.26
Confidence: medium
Additional weak hits (14):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.37 out of 27.78
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.43 out of 21.55
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.33 out of 28.14
Confidence: weak
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.65 out of 18.57
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.33 out of 26.06
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 19.90 out of 31.73
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.37 out of 21.55
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.19 out of 21.55
Confidence: weak
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.18 out of 18.57
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.55 out of 29.38
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.02 out of 23.43
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.61 out of 29.65
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.61 out of 23.43
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 2, location 196833 - 249138:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (mal) + (pk)
Non-colinear ordering:
  HCC61_RS14555 + HCC61_RS14560 + HCC61_RS14565

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).
HCC61_RS14555: mal
PKS_AT (1259..1553): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 75.0%
  inactive: 66.7%
  Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 83.7
  Methoxymalonyl-CoA: 36.6
  inactive: 33.9
  Methylmalonyl-CoA: 28.3
  Propionyl-CoA: 20.1
  Ethylmalonyl-CoA: 15.4
  CHC-CoA: 14.8
  trans-1,2-CPDA: 12.3
  Isobutyryl-CoA: 9.4
  Benzoyl-CoA: 9.4
  fatty_acid: 9.3
  2-Methylbutyryl-CoA: 7.4
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0

HCC61_RS14560: pk
PKS_AT (674..891): pk
ATSignature: (unknown)
No matches above 50%
minowa: inactive

Prediction, score:
  inactive: 13.8
  Malonyl-CoA: 4.8
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Propionyl-CoA: 0.0
  Methylmalonyl-CoA: 0.0
  Methoxymalonyl-CoA: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

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

Regulator | Description
--- | ---
CRP | Cyclic AMP receptor protein
NtrC | Nitrogen regulatory protein C
VqsM | Regulator of quorum-sensing signalling systems

NZ_JAASAG010000005.1 - Region 3 - RiPP-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: 450,679 - 462,094 nt. (total: 11,416 nt) Show pHMM detection rules used
Region on contig edge.
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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
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
No tailoring functions detected.
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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000306.5 |  | 0.31 | NRPS | arylomycin | Streptomyces filamentosus NRRL 11379
BGC0002553.2 |  | 0.30 | other (other) | tunicamycin | Rathayibacter iranicus
BGC0002387.2 |  | 0.30 | PKS | yangpumicin A | Micromonospora yangpuensis
BGC0000529.5 |  | 0.29 | ribosomal | microbisporicin A2 | Microbispora corallina
BGC0000516.4 |  | 0.28 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0001377.5 |  | 0.28 | PKS | uncialamycin | Streptomyces uncialis
BGC0000874.5 |  | 0.28 | other (other) | blasticidin S | Streptomyces griseochromogenes
BGC0002788.2 |  | 0.28 | PKS | 14-hydroxyisochainin | Streptomyces peucetius subsp. caesius ATCC 27952
BGC0001060.5 |  | 0.25 | PKS | dynemicin A | Micromonospora chersina
BGC0000692.5 |  | 0.25 | saccharide | apramycin | Streptoalloteichus hindustanus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000306.5 |  | 0.31 | NRPS | arylomycin | Streptomyces filamentosus NRRL 11379
BGC0002553.2 |  | 0.30 | other (other) | tunicamycin | Rathayibacter iranicus
BGC0002387.2 |  | 0.30 | PKS | yangpumicin A | Micromonospora yangpuensis
BGC0000529.5 |  | 0.29 | ribosomal | microbisporicin A2 | Microbispora corallina
BGC0000516.4 |  | 0.28 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0001377.5 |  | 0.28 | PKS | uncialamycin | Streptomyces uncialis
BGC0000874.5 |  | 0.28 | other (other) | blasticidin S | Streptomyces griseochromogenes
BGC0002788.2 |  | 0.28 | PKS | 14-hydroxyisochainin | Streptomyces peucetius subsp. caesius ATCC 27952
BGC0001060.5 |  | 0.25 | PKS | dynemicin A | Micromonospora chersina
BGC0000692.5 |  | 0.25 | saccharide | apramycin | Streptoalloteichus hindustanus

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.

NZ_JAASAG010000006.1 - Region 1 - NRPS-like,RiPP-like,T2PKS,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: 255,370 - 351,898 nt. (total: 96,529 nt) Show pHMM detection rules used
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))
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)
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
T2PKS: (t2ks and t2clf)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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
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: dehydrogenase oxidase oxidoreductase oxygenase
HCC61_RS16720: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS16725: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS16750: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

HCC61_RS16785: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS16805: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

HCC61_RS16810: pyruvate oxidase/decarboxylase

smcogs
  SMCOG1055: pyruvate oxidase/decarboxylase

HCC61_RS16860: pyruvate oxidase/decarboxylase

smcogs
  SMCOG1055: pyruvate oxidase/decarboxylase

HCC61_RS16915: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS16925: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

HCC61_RS16930: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

HCC61_RS16955: FAD linked oxidase domain protein

smcogs
  SMCOG1138: FAD linked oxidase domain protein

HCC61_RS16960: acyl-CoA dehydrogenase type 2

smcogs
  SMCOG1191: acyl-CoA dehydrogenase type 2

HCC61_RS16975: flavin reductase domain protein FMN-binding

smcogs
  SMCOG1160: flavin reductase domain protein FMN-binding

HCC61_RS16985: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

HCC61_RS16995: FAD linked oxidase domain protein

smcogs
  SMCOG1138: FAD linked oxidase domain protein

HCC61_RS17030: oxidoreductase

smcogs
  SMCOG1079: oxidoreductase

Transferases: PPTase aminotransferase glycosyltransferase methyltransferase transferase
HCC61_RS16885: methyltransferase

smcogs
  SMCOG1248: methyltransferase

HCC61_RS16940: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

HCC61_RS16990: O-methyltransferase

smcogs
  SMCOG1042: O-methyltransferase

HCC61_RS17000: O-methyltransferase

smcogs
  SMCOG1042: O-methyltransferase

HCC61_RS17005: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs
  SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

HCC61_RS17020: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs
  SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

HCC61_RS17035: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

HCC61_RS17040: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Hydrolases: esterase
HCC61_RS16685: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

smcogs
  SMCOG1283: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

Lyases: cyclase dehydratase
HCC61_RS16895: Polyketide synthesis cyclase

smcogs
  SMCOG1225: Polyketide synthesis cyclase

HCC61_RS16920: cyclase/dehydrase

smcogs
  SMCOG1128: cyclase/dehydrase

HCC61_RS17010: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

HCC61_RS30760: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase synthetase
HCC61_RS16730: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

HCC61_RS16840: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS16900: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

HCC61_RS16905: Beta-ketoacyl synthase

smcogs
  SMCOG1093: Beta-ketoacyl 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 | RiPP-like | terpene | NRPS-like | T2PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0000231.5 |  |  |  |  | 1.19 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0000234.5 |  |  |  |  | 0.97 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002276.2 |  |  |  |  | 0.85 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0001723.5 |  |  |  |  | 0.79 | PKS | oviedomycin | Streptomyces antibioticus
BGC0002047.2 |  |  |  |  | 0.64 | PKS | brasiliquinone A, brasiliquinone B | Nocardia brasiliensis
BGC0002000.4 |  |  |  |  | 0.60 | PKS | setomimycin | Streptomyces aurantiacus JA 4570
BGC0001197.5 |  |  |  |  | 0.58 | PKS | frankiamicin | Frankia sp. EAN1pec
BGC0002383.3 |  |  |  |  | 0.58 | PKS | kinanthraquinone B, kinanthraquinone | Streptomyces sp. SN-593
BGC0002672.2 |  |  |  |  | 0.55 | PKS | saccharothrixin D, saccharothrixin E, saccharothrixin F, saccharothrixin G, saccharothrixin H, saccharothrixin I, saccharothrixin J, saccharothrixin K, saccharothrixin L, saccharothrixin M | Saccharothrix sp.
BGC0000235.5 |  |  |  |  | 0.55 | PKS | kiamycin | Streptomyces sp. W007

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000231.5 |  | 0.84 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0000234.5 |  | 0.78 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002276.2 |  | 0.74 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0000278.3 |  | 0.72 | PKS | urdamycin | Streptomyces fradiae
BGC0002383.3 |  | 0.70 | PKS | kinanthraquinone B, kinanthraquinone | Streptomyces sp. SN-593
BGC0002047.2 |  | 0.69 | PKS | brasiliquinone A, brasiliquinone B | Nocardia brasiliensis
BGC0001723.5 |  | 0.67 | PKS | oviedomycin | Streptomyces antibioticus
BGC0000235.5 |  | 0.60 | PKS | kiamycin | Streptomyces sp. W007
BGC0001513.3 |  | 0.58 | PKS | anthrabenzoxocinone | Actinobacteria bacterium
BGC0000253.4 |  | 0.57 | PKS | oviedomycin | Streptomyces antibioticus

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.
Location:
Identifier
Identity
Coverage
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 |  |  | C15 | C1-C6 | none
diterpene |  |  | C20 | C1-C6 | none
diterpene |  |  | C20 | C1-C7 + C6-C10 | none
sesterterpene |  |  | C25 | C1-C7 + C6-C10 | none

Genes with terpene domains:
HCC61_RS16730: PT_FPPS_like
Domain 1 (77 - 258): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

Reactions:
  IPP, DMAPP → FPP
  IPP, DMAPP → GGPP
  IPP, DMAPP → GFPP
  IPP, DMAPP → HPP

HCC61_RS16735: TS_UbiA
Domain 1 (31 - 320): UbiA type terpene synthase

Reactions:
  FPP → sesquiterpene_C1-C6
  GGPP → diterpene_C1-C6
  GGPP → diterpene_C1-C7/C6-C10
  GFPP → sesterterpene_C1-C7/C6-C10

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:
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16
Confidence: strong
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 20.32 out of 23.43
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05
Confidence: medium
Additional weak hits (24):
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.37 out of 26.12
Confidence: weak
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.66 out of 20.97
Confidence: weak
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.78 out of 25.88
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.07 out of 33.73
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.15 out of 30.25
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.84 out of 21.84
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.54 out of 28.14
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.58 out of 30.25
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.68 out of 28.19
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.71 out of 28.14
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.27 out of 23.43
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 30.11
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.70 out of 27.78
Confidence: weak
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.11 out of 27.55
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.42 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.70 out of 26.06
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.37 out of 28.19
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.45 out of 30.98
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.10 out of 30.11
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 19.07 out of 30.97
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.73 out of 28.19
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.89 out of 32.93
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
Type II PKS
Terpene
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 1, location 255369 - 351898:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 278547 - 322345:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 5, location 279397 - 351898:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
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).
HCC61_RS16840: X
AMP-binding (104..571): X
nrpys: (unknown)

SVM prediction details:
  Predicted physicochemical class:
    N/A
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    LASLHLAGRYMSMLMCGSALDGYGATEAGMITTG
  Nearest Stachelhaus code(s):
    nOct DAMMVGVMIK (29% 8Å match)
  Stachelhaus code match:
    60% (weak)

Link to PARAS substrate predictor
Type II PKS gene cluster prediction details
Predictions of starter units, elongations, product classes, and potential molecular weights for type II PKS clusters.
More detailed information is available here.

Cluster section:
  279397 to 351898
Starter unit(s):
  acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:
  8|9 (Score: 713.3; E-value: 1.7e-217)
Product class(es):
  angucycline
Product molecular weight(s):
  acetyl-CoA_8: 593 Da
  acetyl-CoA_9: 635 Da

HCC61_RS16785
  KR (Score: 114.1; E-value: 2.1e-35)
HCC61_RS16895
  CYC C4-C17/C2-C19 (Score: 196.1; E-value: 1.3e-60)
HCC61_RS16900
  KS (Score: 797.5; E-value: 5.6e-243)
HCC61_RS16905
  CLF 8|9 (Score: 713.3; E-value: 1.7e-217)
HCC61_RS16910
  ACP (Score: 141.4; E-value: 1.6e-44)
HCC61_RS16915
  KR C9 (Score: 488.1; E-value: 1.3e-149)
HCC61_RS16920
  CYC C7-C12 (Score: 507.1; E-value: 3.3e-155)
HCC61_RS16925
  OXY (Score: 599.9; E-value: 8.7e-183)
HCC61_RS16930
  OXY (Score: 592.2; E-value: 1.8e-180)
HCC61_RS16940
  GT (Score: 390.6; E-value: 2.4e-119)
HCC61_RS16985
  OXY (Score: 504.2; E-value: 9.2e-154)
HCC61_RS16990
  MET (Score: 256.1; E-value: 1.1e-78)
HCC61_RS17000
  MET (Score: 262.4; E-value: 1.3e-80)

Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
DMAPP | Dimethylallyl diphosphate
FPP | Farnesyl diphosphate
GFPP | Geranylfarnesyl diphosphate
GGPP | Geranylgeranyl diphosphate
HPP | Hexaprenyl diphosphate
IPP | Isopentenyl diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
AfsR | Pleiotropic regulatory for antibiotic production
BldD | Development and antibiotic global regulator

NZ_JAASAG010000006.1 - Region 2 - NRPS-like,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: 390,658 - 437,033 nt. (total: 46,376 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)
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
TTA codons
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: dehydrogenase oxidoreductase
HCC61_RS17245: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

HCC61_RS17260: oxidoreductase

smcogs
  SMCOG1079: oxidoreductase

HCC61_RS17300: 3-hydroxybutyryl-CoA dehydrogenase

smcogs
  SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

HCC61_RS17310: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

HCC61_RS17335: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: methyltransferase transketolase
HCC61_RS17265: transketolase

smcogs
  SMCOG1204: transketolase

HCC61_RS17320: methyltransferase

smcogs
  SMCOG1089: methyltransferase

Hydrolases: phosphatase
HCC61_RS17315: FkbH like protein

smcogs
  SMCOG1256: FkbH like protein

Lyases: lyase
HCC61_RS17330: argininosuccinate lyase/adenylosuccinate lyase

smcogs
  SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase synthase
HCC61_RS17270: 1-deoxy-D-xylulose-5-phosphate synthase

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

HCC61_RS17290: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

HCC61_RS31245: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl 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 | NRPS-like | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0002164.2 |  |  | 0.63 | NRPS | peramine | Epichloe festucae
BGC0001261.3 |  |  | 0.61 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  |  | 0.59 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  |  | 0.58 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0002286.3 |  |  | 0.57 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001284.4 |  |  | 0.56 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001956.3 |  |  | 0.56 | PKS | miharamycin A, miharamycin B | Streptomyces miharaensis
BGC0000307.4 |  |  | 0.55 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002479.3 |  |  | 0.55 | NRPS, PKS, saccharide | miharamycin B, miharamycin A | Streptomyces miharaensis
BGC0001240.4 |  |  | 0.55 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002164.2 |  | 0.65 | NRPS | peramine | Epichloe festucae
BGC0001261.3 |  | 0.64 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.63 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.62 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0002286.3 |  | 0.62 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001284.4 |  | 0.62 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001956.3 |  | 0.61 | PKS | miharamycin A, miharamycin B | Streptomyces miharaensis
BGC0000307.4 |  | 0.61 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002479.3 |  | 0.61 | NRPS, PKS, saccharide | miharamycin B, miharamycin A | Streptomyces miharaensis
BGC0001240.4 |  | 0.61 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii

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: 18.42 out of 20.47
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.94 out of 27.04
Confidence: medium
Additional weak hits (15):
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.15 out of 36.54
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.90 out of 30.25
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.42 out of 26.12
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.81 out of 27.78
Confidence: weak
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.63 out of 18.57
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.33 out of 25.75
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.96 out of 26.33
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.75 out of 30.25
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.39 out of 36.54
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.90 out of 24.78
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.32 out of 32.93
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.36 out of 35.63
Confidence: weak
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.45 out of 18.57
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.86 out of 33.14
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 6, location 390657 - 437033:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X) + (mal)

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).
HCC61_RS17290: X
AMP-binding (252..659): X
nrpys: Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    RLEAF----REWSFFVGGEHNTYTLSEADYVCHR
  Nearest Stachelhaus code(s):
  Stachelhaus code match:
    0% (weak)

HCC61_RS31245: mal
PKS_AT (583..911): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 62.5%
  inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 35.0
  Methoxymalonyl-CoA: 31.2
  Methylmalonyl-CoA: 19.9
  inactive: 14.9
  Isobutyryl-CoA: 9.8
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Propionyl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

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

Regulator | Description
--- | ---
DasR | N-acetylglucosamine dependent repressor
VqsM | Regulator of quorum-sensing signalling systems

NZ_JAASAG010000007.1 - Region 1 - ectoine
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: 367,885 - 378,289 nt. (total: 10,405 nt) Show pHMM detection rules used
ectoine: ectoine_synt

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
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: dehydrogenase
HCC61_RS19065: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

Transferases: aminotransferase
HCC61_RS19080: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

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 | ectoine | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002052.3 |  | 0.86 | other (ectoine) | ectoine | Streptomyces sp.
BGC0000853.3 |  | 0.85 | other (other) | ectoine | Streptomyces anulatus
BGC0000852.5 |  | 0.70 | other (other) | ectoine | Sporosarcina pasteurii
BGC0000858.3 |  | 0.66 | other (other) | ectoine | Methylobacter marinus
BGC0000859.3 |  | 0.66 | other (other) | ectoine | Methylomicrobium alcaliphilum
BGC0000855.3 |  | 0.66 | other (other) | ectoine | Methylomicrobium kenyense
BGC0000856.3 |  | 0.66 | other (other) | ectoine | Methylophaga thalassica
BGC0000857.3 |  | 0.63 | other (other) | ectoine | Methylophaga alcalica
BGC0000860.3 |  | 0.63 | other (other) | ectoine | Methylarcula marina
BGC0000854.3 |  | 0.62 | other (other) | ectoine | Methylomicrobium alcaliphilum 20Z

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002052.3 |  | 0.86 | other (ectoine) | ectoine | Streptomyces sp.
BGC0000853.3 |  | 0.85 | other (other) | ectoine | Streptomyces anulatus
BGC0000852.5 |  | 0.70 | other (other) | ectoine | Sporosarcina pasteurii
BGC0000858.3 |  | 0.66 | other (other) | ectoine | Methylobacter marinus
BGC0000859.3 |  | 0.66 | other (other) | ectoine | Methylomicrobium alcaliphilum
BGC0000855.3 |  | 0.66 | other (other) | ectoine | Methylomicrobium kenyense
BGC0000856.3 |  | 0.66 | other (other) | ectoine | Methylophaga thalassica
BGC0000857.3 |  | 0.63 | other (other) | ectoine | Methylophaga alcalica
BGC0000860.3 |  | 0.63 | other (other) | ectoine | Methylarcula marina
BGC0000854.3 |  | 0.62 | other (other) | ectoine | Methylomicrobium alcaliphilum 20Z

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:
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.62 out of 19.52
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16
Confidence: strong
Additional weak hits (5):
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.36 out of 27.78
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.64 out of 31.73
Confidence: weak
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.03 out of 19.26
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.31 out of 21.55
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.32 out of 30.98
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
AfsQ1 | Two-component system AfsQ1-Q2, activator of antibiotic production

NZ_JAASAG010000009.1 - Region 1 - RiPP-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: 277,620 - 288,426 nt. (total: 10,807 nt) Show pHMM detection rules used
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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
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
No tailoring functions detected.
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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002073.3 |  | 0.35 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002531.3 |  | 0.34 | NRPS | cepaciachelin | Burkholderia ambifaria AMMD
BGC0002115.3 |  | 0.34 | ribosomal | streptamidine | Streptomyces albidoflavus J1074
BGC0001498.5 |  | 0.33 | other (other) | aerobactin | Xenorhabdus szentirmaii DSM 16338
BGC0002415.2 |  | 0.33 | NRPS | vanchrobactin, trivanchrobactin, divanchrobactin | Vibrio campbellii
BGC0002682.2 |  | 0.32 | other (other) | aerobactin | Vibrio mimicus
BGC0000939.5 |  | 0.32 | other (other) | aerobactin | Grimontia hollisae
BGC0000947.5 |  | 0.31 | other (other) | vibrioferrin | Vibrio alginolyticus
BGC0001870.3 |  | 0.31 | other (other) | putrebactin, avaroferrin | Xenorhabdus budapestensis
BGC0002683.2 |  | 0.31 | NRPS | schizokinen | Nostoc sp. PCC 7120 = FACHB-418

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002073.3 |  | 0.35 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002531.3 |  | 0.34 | NRPS | cepaciachelin | Burkholderia ambifaria AMMD
BGC0002115.3 |  | 0.34 | ribosomal | streptamidine | Streptomyces albidoflavus J1074
BGC0001498.5 |  | 0.33 | other (other) | aerobactin | Xenorhabdus szentirmaii DSM 16338
BGC0002415.2 |  | 0.33 | NRPS | vanchrobactin, trivanchrobactin, divanchrobactin | Vibrio campbellii
BGC0002682.2 |  | 0.32 | other (other) | aerobactin | Vibrio mimicus
BGC0000939.5 |  | 0.32 | other (other) | aerobactin | Grimontia hollisae
BGC0000947.5 |  | 0.31 | other (other) | vibrioferrin | Vibrio alginolyticus
BGC0001870.3 |  | 0.31 | other (other) | putrebactin, avaroferrin | Xenorhabdus budapestensis
BGC0002683.2 |  | 0.31 | NRPS | schizokinen | Nostoc sp. PCC 7120 = FACHB-418

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:
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.86 out of 36.53
Confidence: medium
Additional weak hits (6):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.15 out of 30.25
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.60 out of 30.22
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.56 out of 36.53
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.95 out of 29.38
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.86 out of 29.38
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.73 out of 35.63
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
DmdR1 | Iron(II)-dependent repressor