Select genomic region:
Overview
1.1
1.2
1.3
1.4
1.5
1.6
2.1
2.2
2.3
3.1
5.1

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

NZ_JADKRR010000001.1 (Clavibacter sp. VKM Ac-2872)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | NRP-metallophore,NRPS | 202,858 | 259,236 | Medium | coelibactin | NRPS:Type I
Region 1.2 | NAPAA | 563,289 | 597,440 | High | ε-Poly-L-lysine | NRPS:Type I
Region 1.3 | hydrogen-cyanide | 781,011 | 794,263 |  |
Region 1.4 | T3PKS | 1,621,634 | 1,662,854 |  |
Region 1.5 | terpene-precursor,betalactone | 2,022,173 | 2,057,866 |  |
Region 1.6 | lanthipeptide-class-ii | 2,130,613 | 2,153,771 | High | michiganin A | ribosomal:RiPP:Lanthipeptide

NZ_JADKRR010000002.1 (Clavibacter sp. VKM Ac-2872)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | azole-containing-RiPP | 232,150 | 254,551 |  |
Region 2.2 | terpene | 338,595 | 363,016 | Low | carotenoid | terpene
Region 2.3 | NRPS-like | 466,791 | 503,716 |

NZ_JADKRR010000003.1 (Clavibacter sp. VKM Ac-2872)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 3.1 | NI-siderophore | 101,178 | 131,676 | Low | FW0622 | other:other

NZ_JADKRR010000005.1 (Clavibacter sp. VKM Ac-2872)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 5.1 | RiPP-like | 82,808 | 94,384 |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | NRP-metallophore,NRPS | 202,858 | 259,236 | Medium | coelibactin | NRPS:Type I
Region 1.2 | NAPAA | 563,289 | 597,440 | High | ε-Poly-L-lysine | NRPS:Type I
Region 1.3 | hydrogen-cyanide | 781,011 | 794,263 |  |
Region 1.4 | T3PKS | 1,621,634 | 1,662,854 |  |
Region 1.5 | terpene-precursor,betalactone | 2,022,173 | 2,057,866 |  |
Region 1.6 | lanthipeptide-class-ii | 2,130,613 | 2,153,771 | High | michiganin A | ribosomal:RiPP:Lanthipeptide
Region 2.1 | azole-containing-RiPP | 232,150 | 254,551 |  |
Region 2.2 | terpene | 338,595 | 363,016 | Low | carotenoid | terpene
Region 2.3 | NRPS-like | 466,791 | 503,716 |
Region 3.1 | NI-siderophore | 101,178 | 131,676 | Low | FW0622 | other:other
Region 5.1 | RiPP-like | 82,808 | 94,384 |

No secondary metabolite regions were found in these records:
  NZ_JADKRR010000004.1 (Clavibacter sp. VKM Ac-2872)
  NZ_JADKRR010000006.1 (Clavibacter sp. VKM Ac-2872)
  NZ_JADKRR010000007.1 (Clavibacter sp. VKM Ac-2872)
  NZ_JADKRR010000008.1 (Clavibacter sp. VKM Ac-2872)
  NZ_JADKRR010000009.1 (Clavibacter sp. VKM Ac-2872)

Compact view
NZ_JADKRR010000001.1 - Region 1 - NRP-metallophore,NRPS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 202,858 - 259,236 nt. (total: 56,379 nt) Show pHMM detection rules used
NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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 reductase
ITJ40_RS01065: alkyl hydroperoxide reductase subunit

smcogs
  SMCOG1176: alkyl hydroperoxide reductase subunit

ITJ40_RS01090: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: PPTase glycosyltransferase kinase
ITJ40_RS01060: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

ITJ40_RS01150: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1060: 4'-phosphopantetheinyl transferase

ITJ40_RS01250: PfkB domain protein

smcogs
  SMCOG1276: PfkB domain protein

Hydrolases: esterase
ITJ40_RS01120: thioesterase

smcogs
  SMCOG1004: thioesterase

Isomerases: isomerase
ITJ40_RS01155: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: ligase
ITJ40_RS01140: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

ITJ40_RS01145: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

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

Reference | NRP-metallophore | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000412.5 |  |  | 0.63 | NRPS | pyochelin | Pseudomonas aeruginosa PAO1
BGC0001833.4 |  |  | 0.61 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001758.4 |  |  | 0.60 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001128.4 |  |  | 0.60 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  |  | 0.59 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  |  | 0.59 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001135.5 |  |  | 0.59 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002135.2 |  |  | 0.57 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001240.4 |  |  | 0.57 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0001251.4 |  |  | 0.57 | NRPS | epichloenin A | Epichloe festucae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000412.5 |  | 0.65 | NRPS | pyochelin | Pseudomonas aeruginosa PAO1
BGC0001833.4 |  | 0.64 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001758.4 |  | 0.64 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001128.4 |  | 0.64 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  | 0.63 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.63 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001135.5 |  | 0.63 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002135.2 |  | 0.62 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001240.4 |  | 0.62 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0001251.4 |  | 0.62 | NRPS | epichloenin A | Epichloe festucae

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: 22.15 out of 29.72
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.99 out of 20.47
Confidence: medium
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.61 out of 26.85
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 (17):
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.03 out of 39.62
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.52 out of 29.25
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.18 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.95 out of 32.74
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.65 out of 26.06
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.96 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.34 out of 32.74
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.78 out of 28.14
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.42 out of 29.38
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.44 out of 28.14
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.20 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.99 out of 26.06
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.28 out of 29.38
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 14.87 out of 31.73
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.52 out of 28.19
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.03 out of 28.19
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.60 out of 28.19
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 202857 - 259236:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Ser - Cys) + (Me-Cys)

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).
ITJ40_RS17330: Cys
Search NORINE for peptide: strict or relaxed
AMP-binding (543..951): Cys
nrpys: Cys

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:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Small clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Single AA prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TDIAFDLSVFDGNSLLSGDVSLGGATEAAIWSVH
  Nearest Stachelhaus code(s):
    Cys DLFNLSLIWK (76% 8Å match)
  Stachelhaus code match:
    100% (strong)

ITJ40_RS01140: Ser - Cys
Search NORINE for peptide: strict or relaxed
AMP-binding (577..980): Ser
nrpys: Ser

SVM prediction details:
  Predicted physicochemical class:
    N/A
  Large clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Small clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Single AA prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TSLSFDLSVYDANTLLGGDLALGGMTEATIHSTV
  Nearest Stachelhaus code(s):
    Ser DLYNLGLIHK (76% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1636..2035): Cys
nrpys: Cys

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:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Small clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Single AA prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TAVSFDLSVFDGDTLVSGDVALGGATEAAIWSNA
  Nearest Stachelhaus code(s):
    Cys DLFNLSLIWK (76% 8Å match)
  Stachelhaus code match:
    90% (moderate)

ITJ40_RS01145: X
AMP-binding (44..469): X
nrpys: (unknown)

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:
    NAALFTLACPGGALQVGGAQQVYGMAEGLVCTTA
  Nearest Stachelhaus code(s):
    Sal TLPAQGVICK (79% 8Å match)
    n-oh-nitropheBut TLPSQGVVCK (76% 8Å match)
  Stachelhaus code match:
    90% (moderate)

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
RutR | Regulator of the pyrimidine and purine metabolism
VqsM | Regulator of quorum-sensing signalling systems

NZ_JADKRR010000001.1 - Region 2 - NAPAA
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: 563,289 - 597,440 nt. (total: 34,152 nt) Show pHMM detection rules used
NAPAA: (AMP-binding and TIGR02353)

#### 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
ITJ40_RS02820: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

ITJ40_RS02910: NADH:flavin oxidoreductase/NADH oxidase

smcogs
  SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

Transferases: PPTase aminotransferase
ITJ40_RS02830: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

ITJ40_RS02865: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

Lyases: dehydratase
ITJ40_RS02880: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase
ITJ40_RS02840: 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 | NAPAA | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002174.2 |  | 0.77 | NRPS | ε-Poly-L-lysine | Epichloe festucae
BGC0002276.2 |  | 0.62 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0001135.5 |  | 0.61 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0000307.4 |  | 0.60 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001166.5 |  | 0.60 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001251.4 |  | 0.60 | NRPS | epichloenin A | Epichloe festucae
BGC0001250.4 |  | 0.60 | NRPS | epichloenin A | Epichloe festucae
BGC0001641.4 |  | 0.59 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4 |  | 0.59 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001240.4 |  | 0.59 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002174.2 |  | 0.77 | NRPS | ε-Poly-L-lysine | Epichloe festucae
BGC0002276.2 |  | 0.62 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0001135.5 |  | 0.61 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0000307.4 |  | 0.60 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001166.5 |  | 0.60 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001251.4 |  | 0.60 | NRPS | epichloenin A | Epichloe festucae
BGC0001250.4 |  | 0.60 | NRPS | epichloenin A | Epichloe festucae
BGC0001641.4 |  | 0.59 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4 |  | 0.59 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001240.4 |  | 0.59 | 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:
CatR
Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 18.76 out of 25.31
Confidence: medium
Additional weak hits (4):
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.76 out of 21.84
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.06 out of 28.19
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.71 out of 27.18
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 563288 - 597440:
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).
ITJ40_RS02840: X
AMP-binding (56..454): X
nrpys: (unknown)

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    FAELFDASCEELSTIFGGEWNTYGPTEATVVACA
  Nearest Stachelhaus code(s):
    Lys DAEDIGTVVK (71% 8Å match)
    Gln or Tyr DAESVGTVVK (65% 8Å match)
  Stachelhaus code match:
    90% (moderate)

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

Regulator | Description
--- | ---
CatR | H2O2-responsive repressor

NZ_JADKRR010000001.1 - Region 3 - hydrogen-cyanide
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: 781,011 - 794,263 nt. (total: 13,253 nt) Show pHMM detection rules used
hydrogen-cyanide: (Fer2_4 and cds(Pyr_redox_2 and Fer2_BFD) and DAO)

#### 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 oxidoreductase
ITJ40_RS03855: FAD dependent oxidoreductase

smcogs
  SMCOG1103: FAD dependent oxidoreductase

ITJ40_RS03880: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

Hydrolases: peptidase
ITJ40_RS03845: methionine aminopeptidase

smcogs
  SMCOG1172: methionine aminopeptidase

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 | hydrogen-cyanide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002345.2 |  | 0.53 | other (other) | hydrogen cyanide | Pseudomonas fluorescens
BGC0001639.3 |  | 0.40 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000504.5 |  | 0.40 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000538.3 |  | 0.40 | ribosomal | nisin Z | Lactococcus lactis
BGC0002382.3 |  | 0.39 | ribosomal | grimoviridin | Grimontia marina
BGC0001289.5 |  | 0.39 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000500.5 |  | 0.39 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0002064.2 |  | 0.37 | ribosomal | felipeptin A2, felipeptin A1 | Amycolatopsis sp. YIM 10
BGC0000497.3 |  | 0.37 | ribosomal | BHT-Aα, BHT-Aβ | Streptococcus ratti
BGC0000541.5 |  | 0.37 | ribosomal | paenicidin A | Paenibacillus polymyxa

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002345.2 |  | 0.53 | other (other) | hydrogen cyanide | Pseudomonas fluorescens
BGC0001639.3 |  | 0.40 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000504.5 |  | 0.40 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000538.3 |  | 0.40 | ribosomal | nisin Z | Lactococcus lactis
BGC0002382.3 |  | 0.39 | ribosomal | grimoviridin | Grimontia marina
BGC0001289.5 |  | 0.39 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000500.5 |  | 0.39 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0002064.2 |  | 0.37 | ribosomal | felipeptin A2, felipeptin A1 | Amycolatopsis sp. YIM 10
BGC0000497.3 |  | 0.37 | ribosomal | BHT-Aα, BHT-Aβ | Streptococcus ratti
BGC0000541.5 |  | 0.37 | ribosomal | paenicidin A | Paenibacillus polymyxa

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

No significant matches found.

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:
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.57 out of 26.33
Confidence: medium
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator

NZ_JADKRR010000001.1 - Region 4 - T3PKS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,621,634 - 1,662,854 nt. (total: 41,221 nt) Show pHMM detection rules used
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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 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 oxygenase
ITJ40_RS07755: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

ITJ40_RS07805: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

Transferases: acetyltransferase
ITJ40_RS07820: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: hydrolase
ITJ40_RS07710: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

ITJ40_RS07715: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

Isomerases: isomerase
ITJ40_RS07855: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: synthase
ITJ40_RS07795: chalcone and stilbene synthase domain protein

smcogs
  SMCOG1024: chalcone and stilbene synthase 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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.54 | PKS | 2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3 |  | 0.51 | PKS | hierridin B, hierridin C | Cyanobium sp. LEGE 06113
BGC0002332.2 |  | 0.50 | PKS | 4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A | Candidatus Entotheonella sp.
BGC0001905.4 |  | 0.50 | PKS | violapyrone B | Streptomyces somaliensis
BGC0001077.4 |  | 0.47 | PKS | 6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone | Actinoplanes missouriensis 431
BGC0002698.2 |  | 0.46 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0001831.3 |  | 0.45 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002362.3 |  | 0.44 | PKS | loseolamycin A1, loseolamycin A2 | Micromonospora endolithica
BGC0001529.5 |  | 0.43 | other (other) | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.54 | PKS | 2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3 |  | 0.51 | PKS | hierridin B, hierridin C | Cyanobium sp. LEGE 06113
BGC0002332.2 |  | 0.50 | PKS | 4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A | Candidatus Entotheonella sp.
BGC0001905.4 |  | 0.50 | PKS | violapyrone B | Streptomyces somaliensis
BGC0001077.4 |  | 0.47 | PKS | 6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone | Actinoplanes missouriensis 431
BGC0002698.2 |  | 0.46 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0001831.3 |  | 0.45 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002362.3 |  | 0.44 | PKS | loseolamycin A1, loseolamycin A2 | Micromonospora endolithica
BGC0001529.5 |  | 0.43 | other (other) | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus

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
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78
Confidence: medium
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.83 out of 29.65
Confidence: medium
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78
Confidence: medium
Additional weak hits (5):
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.50 out of 20.01
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.03 out of 29.65
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.21 out of 24.78
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.31 out of 26.06
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.53 out of 21.84
Confidence: weak
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
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
LexA variant 1 | Repressor of DNA damage response
LexA variant 2 | Repressor of DNA damage response

NZ_JADKRR010000001.1 - Region 5 - betalactone,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: 2,022,173 - 2,057,866 nt. (total: 35,694 nt) Show pHMM detection rules used
terpene-precursor: (PT_FPPS_like and not PT_HPP)
betalactone: (HMGL-like and AMP-binding)

#### 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: oxidoreductase
ITJ40_RS09630: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acyltransferase carboxylase
ITJ40_RS09610: acyltransferase

smcogs
  SMCOG1141: acyltransferase

ITJ40_RS09635: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: deformylase
ITJ40_RS09625: peptide deformylase

smcogs
  SMCOG1275: peptide deformylase

Ligases: ligase synthetase
ITJ40_RS09585: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

ITJ40_RS09620: 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 | terpene-precursor | betalactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000677.5 |  |  | 0.31 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0002309.2 |  |  | 0.29 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3 |  |  | 0.26 | terpene | raimonol | Streptomyces anulatus
BGC0001910.4 |  |  | 0.26 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0001456.3 |  |  | 0.26 | terpene | isorenieratene | Streptomyces argillaceus
BGC0000664.5 |  |  | 0.26 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0002561.3 |  |  | 0.25 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0000633.3 |  |  | 0.25 | terpene | carotenoid | Streptomyces avermitilis
BGC0000649.3 |  |  | 0.25 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000936.5 |  |  | 0.25 | other (other) | pyocyanine | Pseudomonas aeruginosa PAO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002309.2 |  | 0.47 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000677.5 |  | 0.46 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0000649.3 |  | 0.43 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001911.3 |  | 0.43 | terpene | raimonol | Streptomyces anulatus
BGC0002284.3 |  | 0.43 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0001910.4 |  | 0.43 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0000664.5 |  | 0.43 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3 |  | 0.42 | terpene | isorenieratene | Streptomyces argillaceus
BGC0002561.3 |  | 0.42 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0000678.5 |  | 0.42 | terpene | pentalenolactone | Streptomyces avermitilis MA-4680 = NBRC 14893

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:
ITJ40_RS09585: PT_FPPS_like
Domain 1 (45 - 371): 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:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.07 out of 20.47
Confidence: medium
Additional weak hits (4):
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.80 out of 21.55
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 21.72 out of 35.63
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.21 out of 33.14
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.77 out of 33.14
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
PP | Diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

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

NZ_JADKRR010000001.1 - Region 6 - lanthipeptide-class-ii
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 2,130,613 - 2,153,771 nt. (total: 23,159 nt) Show pHMM detection rules used
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
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
ITJ40_RS10045: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

ITJ40_RS10120: acyl-CoA dehydrogenase type 2

smcogs
  SMCOG1191: acyl-CoA dehydrogenase type 2

Lyases: cyclase
ITJ40_RS10090: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

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

Reference | lanthipeptide-class-ii | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000528.5 |  | 0.90 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000525.5 |  | 0.50 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000527.5 |  | 0.48 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0002346.3 |  | 0.48 | ribosomal | kyamicin | Saccharopolyspora sp.
BGC0000554.4 |  | 0.48 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001579.4 |  | 0.47 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0000503.5 |  | 0.46 | ribosomal | cinnamycin | Streptomyces cinnamoneus
BGC0002700.2 |  | 0.45 | ribosomal | bacinapeptin | Bacillus nakamurai
BGC0001210.5 |  | 0.45 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.44 | ribosomal | thuricin | Bacillus thuringiensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000528.5 |  | 0.90 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000525.5 |  | 0.50 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000527.5 |  | 0.48 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0002346.3 |  | 0.48 | ribosomal | kyamicin | Saccharopolyspora sp.
BGC0000554.4 |  | 0.48 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001579.4 |  | 0.47 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0000503.5 |  | 0.46 | ribosomal | cinnamycin | Streptomyces cinnamoneus
BGC0002700.2 |  | 0.45 | ribosomal | bacinapeptin | Bacillus nakamurai
BGC0001210.5 |  | 0.45 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.44 | ribosomal | thuricin | Bacillus thuringiensis

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 ITJ40_RS10090

ITJ40_RS10085
Leader:
MNDILETEPPVMVSPRWDMLLDAGDETSPSVQTQIDAEFRRVVSPYM
Core:
A S S G W L C T L T I E C G T F I C A C R
Core with dehydrations:
A Dha Dha G W L Cys Dhb L Dhb I E Cys G Dhb F I Cys A Cys R

#### antiSMASH-DB 4.0 matches for ITJ40_RS10085

100.0%
NZ_CP061274.1 and 1 other:
NZ_JADKRR010000001.1 Lanthipeptides: ITJ40_RS10085_lanthipeptide
Lanthipeptides: H9X71_RS09850_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C R
21
A S S G W L C T L T I E C G T F I C A C R
1
A S S G W L C T L T I E C G T F I C A C R
21
95.2%
NZ_AUBN01000022.1:
Lanthipeptides: G448_RS16025_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C R
21
A S S G W C T L T I E C G T F I C A C R
1
A S S G W F C T L T I E C G T F I C A C R
21
90.5%
NC_009480.1 and 10 others:
NZ_CP033724.1 Lanthipeptides: EFE39_RS10220_lanthipeptide NZ_CP047051.1 Lanthipeptides: GRD74_RS10365_lanthipeptide NZ_CP047054.1 Lanthipeptides: GRD61_RS10460_lanthipeptide NZ_CP053860.1 Lanthipeptides: DQP62_RS10825_lanthipeptide NZ_CP076352.1 Lanthipeptides: KN218_RS09900_lanthipeptide NZ_CP085137.1 Lanthipeptides: LHJ48_RS10290_lanthipeptide NZ_CP085140.1 Lanthipeptides: LHJ47_RS10305_lanthipeptide NZ_CP095274.1 Lanthipeptides: MU580_RS10460_lanthipeptide NZ_PSTW01000024.1 Lanthipeptides: C5C03_RS09675_lanthipeptide NZ_SISU01000002.1 Lanthipeptides: EOG37_RS09890_lanthipeptide
Lanthipeptides: CMM_RS10575_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C R
21
+S S G W L C T L T I E C G T I C A C R
1
S S S G W L C T L T I E C G T I I C A C R
21
with 99 more sequence matches
Only the first 10 are displayed here.
85.7%
NZ_CP028130.1:
Lanthipeptides: C7V51_RS14690_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C R
21
S S G W+C T L T I E C G T I C A C R
1
G S S G W M C T L T I E C G T I I C A C R
21
81.0%
NZ_CP015515.1 and 1 other:
NZ_PSUO01000011.1 Lanthipeptides: C5C18_RS08595_lanthipeptide
Lanthipeptides: A6122_RS12855_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C R
21
S S G W+C T L T I E C G T +C A C R
1
G S S G W M C T L T I E C G T V V C A C R
21
81.0%
NZ_JAGPXN010000019.1:
Lanthipeptides: KBX06_RS22045_lanthipeptide
2
S S G W L C T L T I E C G T F I C A C R
21
S S G W+C T L T I E C G T +C A C R
1
S S G W V C T L T I E C G T V V C A C R
20
76.2%
NZ_CP036455.1:
Lanthipeptides: EKD16_RS25235_lanthipeptide
2
S S G W L C T L T I E C G T F I C A C R
21
S S G W+C T L T I E C G T +C A C+
1
S S G W V C T L T I E C G T L V C A C Q
20
76.2%
NZ_JAODUN010000003.1:
Lanthipeptides: BXY51_RS10560_lanthipeptide
2
S S G W L C T L T I E C G T F I C A C
20
S S G W+C T L T I E C G T +C A C
1
S S G W V C T L T I E C G T L V C A C
19
76.2%
NZ_KB895893.1 and 1 other:
NZ_KB900614.1 Lanthipeptides: SALPAC6_RS0114155_lanthipeptide
Lanthipeptides: C569_RS0129325_lanthipeptide
2
S S G W L C T L T I E C G T F I C A C R
21
S S G W+C T L T I E C G T +C A C+
1
S S G W V C T L T I E C G T V V C A C Q
20
47.6%
NZ_CP086242.1 and 1 other:
NZ_CP086245.1 Lanthipeptides: LL037_RS25615_lanthipeptide
Lanthipeptides: LL038_RS25355_lanthipeptide
1
A S S G W L C T L T I E C G T F
16
A S S G +C T T E C F
1
A S S G A I C T A T T E C T Y F
16
42.9%
NZ_CP036073.1 and 11 others:
NZ_CP036073.1 Lanthipeptides: EXW45_RS04930_lanthipeptide NZ_CP036073.1 Lanthipeptides: EXW45_RS04925_lanthipeptide NZ_CP036073.1 Lanthipeptides: EXW45_RS04920_lanthipeptide NZ_CP036073.1 Lanthipeptides: EXW45_RS04915_lanthipeptide NZ_CP036073.1 Lanthipeptides: EXW45_RS04910_lanthipeptide NZ_NUEG01000031.1 Lanthipeptides: CN905_RS18915_lanthipeptide NZ_NUEG01000031.1 Lanthipeptides: CN905_RS18910_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: C6359_RS05275_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: C6359_RS05270_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: C6359_RS05265_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: C6359_RS05260_lanthipeptide
Lanthipeptides: EXW45_RS04935_lanthipeptide
1
A S S G W L C T L T I E C G T F I C A C
20
A G W L C T+T +C + C
1
A G C G W L C T V T D D C P N S V F V C
20
42.9%
NZ_CP036170.1:
Lanthipeptides: HDCHBGLK_RS18795_lanthipeptide
3
S G W L C T L T I E C G T F I
17
G+L T T I+C G T F+
1
E G F L S T-T I K C G T F L
14
42.9%
NZ_CP048273.1 and 3 others:
NZ_CP048273.1 Lanthipeptides: M654_RS18555_lanthipeptide NZ_LT745776.1 Lanthipeptides: B2C81_RS11280_lanthipeptide NZ_LT745776.1 Lanthipeptides: B2C81_RS11275_lanthipeptide
Lanthipeptides: M654_RS18560_lanthipeptide
1
A S S G W L C T L T I E C--G T F I C
18
A G W C T+T +C F+C
1
A G C G W A C T I T D D C P N S V F V C
20

#### MIBiG 4.0 matches for ITJ40_RS10085

26.7%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
2
S S G W L C T L T I E C
13
+ G W C T L T E C
15
N G G W-C T L T K E C
25
25.0%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
1
A S S G W L C T L T I E C
13
+ G C T L T+E C
11
G N K G A Y C T L T V E C
23
12.8%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
7
C T L T I E C
13
C T L+ E C
28
C T L S K E C
34
allorf_2140126_2140302
Leader:
MFLLSRMDPSRSARTVVVRAA
Core:
P I P M A R G P S Q V R L A P G D R G S A R L G R C G V D A Q P V R D P S
Core with dehydrations:
P I P M A R G P Dha Q V R L A P G D R G Dha A R L G R Cys G V D A Q P V R D P Dha

#### antiSMASH-DB 4.0 matches for allorf_2140126_2140302

100.0%
NZ_JADKRR010000001.1:
Lanthipeptides: allorf_2140126_2140302_lanthipeptide
1
P I P M A R G P S Q V R L A P G D R G S A R L G R C G V D A Q P V R D P S
37
P I P M A R G P S Q V R L A P G D R G S A R L G R C G V D A Q P V R D P S
1
P I P M A R G P S Q V R L A P G D R G S A R L G R C G V D A Q P V R D P S
37
24.3%
NZ_QGTL01000006.1:
Lanthipeptides: allorf_321760_321906_lanthipeptide
12
R L A P G D R G S A R L G R C G V D A Q
31
R+ P G G+A R+G + A Q
14
R V P P G P S G T A R I G S Q R L A A Q
33
21.6%
NC_019757.1:
Lanthipeptides: allorf_3742552_3742680_lanthipeptide
20
S A R L G R C G V D A Q P V R D P
36
S A R+ R C V ++ R+P
10
S A R V V R C W V K S R N E R N P
26
with 1 more sequence matches
20.5%
NZ_CP017171.1:
Lanthipeptides: allorf_7652578_7652769_lanthipeptide
6
R G P S Q V R L A P G D R G S A R L G R C G
27
R G P Q + P R + R C G
6
R G P V Q A F M Q P F A R S P S T P A R C G
27
allorf_2147275_2147397
Leader:
MMTKSPHALRRLHGS
Core:
R P R S R C I S C E E M C K I T L W T L V D G T Q
Core with dehydrations:
R P R Dha R Cys I Dha Cys E E M Cys K I Dhb L W Dhb L V D G Dhb Q

#### antiSMASH-DB 4.0 matches for allorf_2147275_2147397

100.0%
NZ_JADKRR010000001.1:
Lanthipeptides: allorf_2147275_2147397_lanthipeptide
1
R P R S R C I S C E E M C K I T L W T L V D G T Q
25
R P R S R C I S C E E M C K I T L W T L V D G T Q
1
R P R S R C I S C E E M C K I T L W T L V D G T Q
25
24.4%
NZ_AP022871.1 and 1 other:
NZ_AP022871.1 Lanthipeptides: allorf_02608365_02608586_lanthipeptide
Lanthipeptides: allorf_02608365_02608586_lanthipeptide
3
R S R C I S C E E M C--K I T L W T L V D G T
24
R S C I S C C ++T T G T
6
R S A C I S C P P H C T H R L T A C T G A S G T
29
20.0%
NZ_AP018194.1:
Lanthipeptides: CA739_RS01290_lanthipeptide
5
R C I S C E E M C K I T L W T L
20
R C++C + L W++
1
R C V N C T R K I Q C Y L W S I
16
with 2 more sequence matches
20.0%
NZ_CP036455.1:
Lanthipeptides: allorf_1457494_1457619_lanthipeptide
1
R P R S R C I S
8
R P R+R C+
6
R P R A R C L G
13
14.0%
NZ_CP011131.1 and 1 other:
NZ_CP090945.1 Lanthipeptides: L1A79_RS22855_lanthipeptide
Lanthipeptides: LG3211_RS26165_lanthipeptide
1
R P R S R C I S C E E M C K I T L W T
19
R P R I C + K+ +T
30
R P R D A G I D C T K P Y K L R R F T
48
allorf_2147485_2147667
Leader:
MGQRAVAQLGS
Core:
A L D W G S R G R R F K S C Q P D G H A S E G P D G S G R G I R R M Y A G I V A V N S M V D A P T
Core with dehydrations:
A L D W G Dha R G R R F K Dha Cys Q P D G H A Dha E G P D G Dha G R G I R R M Y A G I V A V N Dha M V D A P Dhb

#### antiSMASH-DB 4.0 matches for allorf_2147485_2147667

100.0%
NZ_JADKRR010000001.1:
Lanthipeptides: allorf_2147485_2147667_lanthipeptide
1
A L D W G S R G R R F K S C Q P D G H A S E G P D G S G R G I R R M Y A G I V A V N S M V D A P T
49
A L D W G S R G R R F K S C Q P D G H A S E G P D G S G R G I R R M Y A G I V A V N S M V D A P T
1
A L D W G S R G R R F K S C Q P D G H A S E G P D G S G R G I R R M Y A G I V A V N S M V D A P T
49
54.0%
NZ_SISU01000002.1:
Lanthipeptides: allorf_784456_784641_lanthipeptide
1
A L D W G S R G R R F K S C Q P D G H A S E G P D G S G R G--I R R M Y
35
A L D W G S R G R R F K S C Q P D G H A S E G P+G ++R Y
1
A L D W G S R G R R F K S C Q P D G H A S E G P N G P S E A F F V K R A Y
37
51.0%
NZ_CP033724.1 and 3 others:
NZ_CP085137.1 Lanthipeptides: allorf_2198282_2198461_lanthipeptide NZ_CP085140.1 Lanthipeptides: allorf_2198287_2198466_lanthipeptide NZ_CP095274.1 Lanthipeptides: allorf_2247381_2247521_lanthipeptide
Lanthipeptides: allorf_2198300_2198479_lanthipeptide
1
A L D W G S R G R R F K S C Q P D G H A S E G P D G
26
A L D W G S R G R R F K S C Q P D G H A S E G P G
1
A L D W G S R G R R F K S C Q P D G H A S E G P M G
26
with 4 more sequence matches
51.0%
NZ_CP047051.1 and 1 other:
NZ_CP076352.1 Lanthipeptides: allorf_2115916_2116095_lanthipeptide
Lanthipeptides: allorf_2221797_2221976_lanthipeptide
1
A L D W G S R G R R F K S C Q P D G H A S E G P D G
26
A L D W G S R G R R F K S C Q P D G H A S E G P G
1
A L D W G S R G R R F K S C Q P D G H A S E G P S G
26
20.4%
NZ_AP022871.1:
Lanthipeptides: allorf_10021069_10021233_lanthipeptide
5
G S R G R R F K S C Q P D G H A S E G
23
G+R G R S C P G S G
2
G A R G A R T S S C V P R G S L S G G
20
18.4%
NZ_CP098485.1:
Lanthipeptides: allorf_6386547_6386756_lanthipeptide
16
P D G H A S E G P D G S G R G I R R
33
P G A+ G P +G G I+R
27
P P G R A N R G P S V T G G G I K R
44
15.1%
NZ_CP023465.1:
Lanthipeptides: allorf_4124021_4124236_lanthipeptide
19
H A S E G P D G S G R G I R R M Y A G I
38
H A+E D G + R+ A G+
4
H A A E A I D G Y A K V W S R I R A G V
23

#### MIBiG 4.0 matches for allorf_2147485_2147667

14.3%
BGC0001229.4 (SBI_06989):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
30
G I R R M Y A G I V A V N S M V D A P T
49
G I + A G+ S P T
11
G I V A I Q A G V A V G V S A A F C P T
30
8.2%
BGC0001229.4 (SBI_06990)and 1 other:
BGC0002110.3 (QKV49893.1) Lanthipeptide: birimositide
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
12
K S C Q P D G H
19
K C Q P+ +
32
K E C Q P N C N
39
allorf_2147511_2147642
Leader:
MVAHLTGGQGVAGS
Core:
N P V S P T D M P R K D L M G P A G A F V V C T Q A S L R
Core with dehydrations:
N P V Dha P Dhb D M P R K D L M G P A G A F V V Cys Dhb Q A Dha L R

#### antiSMASH-DB 4.0 matches for allorf_2147511_2147642

100.0%
NZ_JADKRR010000001.1:
Lanthipeptides: allorf_2147511_2147642_lanthipeptide
1
N P V S P T D M P R K D L M G P A G A F V V C T Q A S L R
29
N P V S P T D M P R K D L M G P A G A F V V C T Q A S L R
1
N P V S P T D M P R K D L M G P A G A F V V C T Q A S L R
29
20.0%
NZ_BROP01000004.1:
Lanthipeptides: OPC11_RS12075_lanthipeptide
3
V S P T D M P R K D L M G P A
17
S T+ D L+G P A
6
T S E T E F D E D D L L G P A
20
17.2%
NZ_BJTV01000007.1:
Lanthipeptides: allorf_030107_030208_lanthipeptide
15
G P A G A F V V C T Q A
26
G P+G A+ C +
8
G P S G A W T W C G E G
19
with 2 more sequence matches
16.7%
NZ_CP033724.1 and 3 others:
NZ_CP085137.1 Lanthipeptides: allorf_2198282_2198461_lanthipeptide NZ_CP085140.1 Lanthipeptides: allorf_2198287_2198466_lanthipeptide NZ_CP095274.1 Lanthipeptides: allorf_2247381_2247521_lanthipeptide
Lanthipeptides: allorf_2198300_2198479_lanthipeptide
14
M G P A G A F V V
22
M G P A G A F V+
25
M G P A G A F V I
33
16.7%
NZ_CP047051.1 and 1 other:
NZ_CP076352.1 Lanthipeptides: allorf_2115916_2116095_lanthipeptide
Lanthipeptides: allorf_2221797_2221976_lanthipeptide
15
G P A G A F V V
22
G P A G A F V V
26
G P A G A F V V
33

#### 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:
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.28 out of 26.33
Confidence: medium
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.16 out of 30.11
Confidence: medium
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 23.69 out of 30.11
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47
Confidence: medium
Additional weak hits (2):
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.44 out of 26.85
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84
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.

ITJ40_RS10085 - Class II
  Cleavage pHMM score: -3.60
  RODEO score: 0
  Monoisotopic mass: 2144.0 Da
  Molecular weight: 2145.5 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2163.5 Da N = 1
allorf_2140126_2140302 - Class II
  Cleavage pHMM score: -6.40
  RODEO score: 0
  Monoisotopic mass: 3785.0 Da
  Molecular weight: 3787.3 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3805.3 Da N = 1
    3823.3 Da N = 2
allorf_2147275_2147397 - Class II
  Cleavage pHMM score: -4.10
  RODEO score: 0
  Monoisotopic mass: 2834.4 Da
  Molecular weight: 2836.3 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2854.3 Da N = 1
    2872.4 Da N = 2
allorf_2147485_2147667 - Class II
  Cleavage pHMM score: -5.70
  RODEO score: 0
  Monoisotopic mass: 5079.5 Da
  Molecular weight: 5082.6 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5100.6 Da N = 1
    5118.7 Da N = 2
    5136.7 Da N = 3
    5154.7 Da N = 4
    5172.7 Da N = 5
allorf_2147511_2147642 - Class II
  Cleavage pHMM score: -4.60
  RODEO score: 0
  Monoisotopic mass: 2985.5 Da
  Molecular weight: 2987.5 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3005.5 Da N = 1
    3023.5 Da N = 2
    3041.5 Da N = 3

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CelR | Cellobiose uptake repressor
VqsM | Regulator of quorum-sensing signalling systems

NZ_JADKRR010000002.1 - Region 1 - azole-containing-RiPP
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: 232,150 - 254,551 nt. (total: 22,402 nt) Show pHMM detection rules used
azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
Azole RiPPs
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
ITJ40_RS11485: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Translocases: transporter
ITJ40_RS11505: sugar-binding lipoprotein

smcogs
  SMCOG1143: sugar-binding lipoprotein

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 | azole-containing-RiPP | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002144.3 |  | 0.47 | ribosomal | phazolicin | Rhizobium sp. Pop5
BGC0002013.4 |  | 0.47 | ribosomal | curacozole | Streptomyces curacoi
BGC0000569.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus velezensis FZB42
BGC0000571.3 |  | 0.41 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001928.2 |  | 0.39 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0000515.4 |  | 0.39 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0002346.3 |  | 0.39 | ribosomal | kyamicin | Saccharopolyspora sp.
BGC0000845.5 |  | 0.39 | other (non-nrp beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000537.3 |  | 0.39 | ribosomal | nisin U | Streptococcus uberis
BGC0001789.3 |  | 0.39 | ribosomal | suicin 90-1330 | Streptococcus suis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002144.3 |  | 0.47 | ribosomal | phazolicin | Rhizobium sp. Pop5
BGC0002013.4 |  | 0.47 | ribosomal | curacozole | Streptomyces curacoi
BGC0000569.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus velezensis FZB42
BGC0000571.3 |  | 0.41 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001928.2 |  | 0.39 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0000515.4 |  | 0.39 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0002346.3 |  | 0.39 | ribosomal | kyamicin | Saccharopolyspora sp.
BGC0000845.5 |  | 0.39 | other (non-nrp beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000537.3 |  | 0.39 | ribosomal | nisin U | Streptococcus uberis
BGC0001789.3 |  | 0.39 | ribosomal | suicin 90-1330 | Streptococcus suis

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: 18.46 out of 23.05
Confidence: medium
Additional weak hits (2):
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.54 out of 28.19
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.52 out of 28.19
Confidence: weak
(Thi)azol(in)e containing peptide predictions
Lists the possible core peptides for each biosynthetic enzyme. Predicted tail sequences are also shown, if present.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.
No core peptides found.
TFBS Finder
Azole RiPPs
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production

Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists its possible molecular weights and the scores for cleavage site prediction and RODEO. If relevant, other features, such as macrocycle and amidation, will also be listed.
No core peptides found.
NZ_JADKRR010000002.1 - 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: 338,595 - 363,016 nt. (total: 24,422 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
ITJ40_RS12060: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

Transferases: methyltransferase
ITJ40_RS12075: methyltransferase

smcogs
  SMCOG1248: methyltransferase

Ligases: synthetase
ITJ40_RS12065: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Translocases: transport
ITJ40_RS12090: 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
--- | --- | --- | --- | --- | ---
BGC0000644.3 |  | 0.65 | terpene | carotenoid | Dietzia sp. CQ4
BGC0000637.3 |  | 0.58 | terpene | carotenoid | Corynebacterium glutamicum
BGC0000648.3 |  | 0.56 | terpene | carotenoid | Myxococcus xanthus
BGC0000650.3 |  | 0.51 | terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0000664.5 |  | 0.48 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3 |  | 0.47 | terpene | carotenoid | Brevibacterium linens
BGC0002309.2 |  | 0.46 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3 |  | 0.46 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000643.3 |  | 0.45 | terpene | carotenoid | Brevundimonas vesicularis
BGC0000677.5 |  | 0.45 | terpene | cyclooctatin | Streptomyces melanosporofaciens

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000644.3 |  | 0.65 | terpene | carotenoid | Dietzia sp. CQ4
BGC0000637.3 |  | 0.58 | terpene | carotenoid | Corynebacterium glutamicum
BGC0000648.3 |  | 0.56 | terpene | carotenoid | Myxococcus xanthus
BGC0000650.3 |  | 0.51 | terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0000664.5 |  | 0.48 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3 |  | 0.47 | terpene | carotenoid | Brevibacterium linens
BGC0002309.2 |  | 0.46 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3 |  | 0.46 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000643.3 |  | 0.45 | terpene | carotenoid | Brevundimonas vesicularis
BGC0000677.5 |  | 0.45 | terpene | cyclooctatin | Streptomyces melanosporofaciens

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
--- | --- | --- | --- | --- | ---
tetraterpene | C40 carotenoid |  | C40 | unknown | unknown

Genes with terpene domains:
ITJ40_RS12050: Lycopene_cycl
Domain 1 (1 - 107): Lycopene cyclase

Reactions:
  C40_carotenoid → C40_carotenoid

ITJ40_RS12055: Lycopene_cycl
Domain 1 (4 - 92): Lycopene cyclase

Reactions:
  C40_carotenoid → C40_carotenoid

ITJ40_RS12060: PT_phytoene_like
Domain 1 (33 - 299): Prenyltransferase; Phytoene synthase like
Subtype: unknown

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

ITJ40_RS12065: PT_FPPS_like
Domain 1 (49 - 332): 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:
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.90 out of 30.12
Confidence: medium
Additional weak hits (8):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.03 out of 26.33
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.45 out of 29.25
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.58 out of 27.78
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.95 out of 30.98
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.24 out of 27.04
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.87 out of 24.78
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
--- | ---
OsdR | Development and stress management regulator

NZ_JADKRR010000002.1 - Region 3 - NRPS-like
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 466,791 - 503,716 nt. (total: 36,926 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)

#### 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
ITJ40_RS12725: oxidoreductase

smcogs
  SMCOG1079: oxidoreductase

ITJ40_RS12785: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: PPTase carboxylase
ITJ40_RS12755: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

ITJ40_RS12780: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1060: 4'-phosphopantetheinyl transferase

Hydrolases: dehalogenase hydrolase
ITJ40_RS12700: haloalkane dehalogenase

smcogs
  SMCOG1262: haloalkane dehalogenase

ITJ40_RS12730: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

Lyases: dehydratase
ITJ40_RS12775: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase
ITJ40_RS12685: cobalamin synthesis protein/P47K family protein

smcogs
  SMCOG1178: cobalamin synthesis protein/P47K family protein

Translocases: permease
ITJ40_RS12770: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

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

Reference | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000866.5 |  | 0.50 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0001928.2 |  | 0.47 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0001873.3 |  | 0.46 | NRPS | pyrrolizixenamide A | Xenorhabdus szentirmaii DSM 16338
BGC0002404.2 |  | 0.45 | other (other) | falcarindiol | Solanum lycopersicum
BGC0000234.5 |  | 0.44 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001895.4 |  | 0.44 | PKS | huanglongmycin A, huanglongmycin B, huanglongmycin C | Streptomyces sp. CB09001
BGC0001987.2 |  | 0.44 | PKS | koreenceine A, koreenceine B, koreenceine C, koreenceine D | Pseudomonas koreensis
BGC0002387.2 |  | 0.43 | PKS | yangpumicin A | Micromonospora yangpuensis
BGC0002514.3 |  | 0.43 | PKS | julichrome Q6.6 | Streptomyces sampsonii
BGC0001267.3 |  | 0.43 | terpene | elymoclavine, Agroclavine I | Claviceps fusiformis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000866.5 |  | 0.50 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0001928.2 |  | 0.47 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0001873.3 |  | 0.46 | NRPS | pyrrolizixenamide A | Xenorhabdus szentirmaii DSM 16338
BGC0002404.2 |  | 0.45 | other (other) | falcarindiol | Solanum lycopersicum
BGC0000234.5 |  | 0.44 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001895.4 |  | 0.44 | PKS | huanglongmycin A, huanglongmycin B, huanglongmycin C | Streptomyces sp. CB09001
BGC0001987.2 |  | 0.44 | PKS | koreenceine A, koreenceine B, koreenceine C, koreenceine D | Pseudomonas koreensis
BGC0002387.2 |  | 0.43 | PKS | yangpumicin A | Micromonospora yangpuensis
BGC0002514.3 |  | 0.43 | PKS | julichrome Q6.6 | Streptomyces sampsonii
BGC0001267.3 |  | 0.43 | terpene | elymoclavine, Agroclavine I | Claviceps fusiformis

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:
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.67 out of 20.01
Confidence: medium
Additional weak hits (9):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.55 out of 32.74
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.71 out of 29.38
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.52 out of 21.55
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.33 out of 25.75
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.17 out of 35.63
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: 22.10 out of 30.11
Confidence: weak
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.12 out of 27.78
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 3, location 466790 - 503716:
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).
ITJ40_RS12775: X
AMP-binding (24..457): 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:
    AAALHLTGRSSAVFAAGGERQA-------ICTSA
  Nearest Stachelhaus code(s):
    bOH-Tyr DTSKVAAICK (26% 8Å match)
  Stachelhaus code match:
    60% (weak)

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

Regulator | Description
--- | ---
ArgR | Regulator of arginine biosynthesis genes

NZ_JADKRR010000003.1 - 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: 101,178 - 131,676 nt. (total: 30,499 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: dehydrogenase oxygenase
ITJ40_RS13395: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

ITJ40_RS13410: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

ITJ40_RS13430: lysine/ornithine N-monooxygenase

smcogs
  SMCOG1080: lysine/ornithine N-monooxygenase

ITJ40_RS13465: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: hydrolase
ITJ40_RS13380: alpha/beta hydrolase domain-containing protein

smcogs
  SMCOG1066: alpha/beta hydrolase domain-containing protein

Lyases: decarboxylase
ITJ40_RS13435: 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
--- | --- | --- | --- | --- | ---
BGC0001572.3 |  | 0.72 | other (other) | desferrioxamine E | Pantoea agglomerans
BGC0001478.5 |  | 0.66 | other (other) | desferrioxamine E | Streptomyces sp. ID38640
BGC0000941.3 |  | 0.64 | other (other) | desferrioxamin B | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5 |  | 0.63 | other (other) | desferrioxamine | Streptomyces argillaceus
BGC0002305.2 |  | 0.63 | other (other) | legonoxamine A, desferrioxamine B, legonoxamine B | Streptomyces sp.
BGC0000940.5 |  | 0.63 | other (other) | desferrioxamin B, desferrioxamine E | Streptomyces coelicolor A3(2)
BGC0000244.4 |  | 0.60 | PKS | nonactin, monactin, dinactin, trinactin, tetranactin | Streptomyces griseus subsp. griseus
BGC0002620.2 |  | 0.59 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina
BGC0002073.3 |  | 0.57 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002276.2 |  | 0.56 | NRPS | choline | Aspergillus nidulans FGSC A4

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001572.3 |  | 0.72 | other (other) | desferrioxamine E | Pantoea agglomerans
BGC0001478.5 |  | 0.66 | other (other) | desferrioxamine E | Streptomyces sp. ID38640
BGC0000941.3 |  | 0.64 | other (other) | desferrioxamin B | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5 |  | 0.63 | other (other) | desferrioxamine | Streptomyces argillaceus
BGC0002305.2 |  | 0.63 | other (other) | legonoxamine A, desferrioxamine B, legonoxamine B | Streptomyces sp.
BGC0000940.5 |  | 0.63 | other (other) | desferrioxamin B, desferrioxamine E | Streptomyces coelicolor A3(2)
BGC0000244.4 |  | 0.60 | PKS | nonactin, monactin, dinactin, trinactin, tetranactin | Streptomyces griseus subsp. griseus
BGC0002620.2 |  | 0.59 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina
BGC0002073.3 |  | 0.57 | NRPS | dehydroxynocardamine | Corynebacterium propinquum
BGC0002276.2 |  | 0.56 | NRPS | choline | 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:
DmdR1
Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.88 out of 36.53
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.42 out of 20.47
Confidence: medium
Additional weak hits (7):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.30 out of 21.84
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.52 out of 29.25
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.60 out of 21.84
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.88 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.61 out of 35.63
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.64 out of 28.19
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
DmdR1 | Iron(II)-dependent repressor
VqsM | Regulator of quorum-sensing signalling systems

NZ_JADKRR010000005.1 - 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: 82,808 - 94,384 nt. (total: 11,577 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
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
--- | --- | --- | --- | --- | ---
BGC0001638.4 |  | 0.50 | ribosomal | klebsazolicin | Klebsiella pneumoniae subsp. ozaenae
BGC0002115.3 |  | 0.43 | ribosomal | streptamidine | Streptomyces albidoflavus J1074
BGC0002442.3 |  | 0.37 | ribosomal | toyoncin | Bacillus toyonensis
BGC0000513.3 |  | 0.36 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000551.5 |  | 0.36 | ribosomal | SapB | Streptomyces coelicolor A3(2)
BGC0000504.5 |  | 0.35 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0002698.2 |  | 0.35 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0000500.5 |  | 0.35 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0002447.3 |  | 0.32 | ribosomal | cerecyclin | Bacillus cereus
BGC0000538.3 |  | 0.31 | ribosomal | nisin Z | Lactococcus lactis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001638.4 |  | 0.50 | ribosomal | klebsazolicin | Klebsiella pneumoniae subsp. ozaenae
BGC0002115.3 |  | 0.43 | ribosomal | streptamidine | Streptomyces albidoflavus J1074
BGC0002442.3 |  | 0.37 | ribosomal | toyoncin | Bacillus toyonensis
BGC0000513.3 |  | 0.36 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0000551.5 |  | 0.36 | ribosomal | SapB | Streptomyces coelicolor A3(2)
BGC0000504.5 |  | 0.35 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0002698.2 |  | 0.35 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566
BGC0000500.5 |  | 0.35 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0002447.3 |  | 0.32 | ribosomal | cerecyclin | Bacillus cereus
BGC0000538.3 |  | 0.31 | ribosomal | nisin Z | Lactococcus lactis

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.
No hits above weak threshold.
Weak hits (1):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.92 out of 26.33
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---