Select genomic region:
Overview
6.1
6.2
7.1
8.1
8.2
8.3
11.1
12.1
24.1
25.1
46.1
56.1

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

NZ_NUEG01000030.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 6.1 | betalactone | 28,533 | 53,771 | Low | fengycin | NRPS:Type I
Region 6.2 | NRPS | 72,554 | 131,998 |

NZ_NUEG01000031.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 7.1 | lanthipeptide-class-ii | 71,549 | 94,764 | Low | salivaricin A | ribosomal:RiPP:Lanthipeptide

NZ_NUEG01000032.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 8.1 | RiPP-like | 38,192 | 48,533 |
Region 8.2 | RiPP-like | 116,901 | 127,164 |
Region 8.3 | NRPS | 144,997 | 192,007 |

NZ_NUEG01000001.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 11.1 | NI-siderophore | 229,103 | 260,808 | High | petrobactin | other:other

NZ_NUEG01000010.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 12.1 | azole-containing-RiPP | 113,368 | 128,961 |

NZ_NUEG01000026.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 24.1 | NRP-metallophore,NRPS | 70,093 | 121,851 | High | bacillibactin | NRPS:Type I

NZ_NUEG01000052.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 25.1 | terpene | 70,811 | 92,664 | Low | molybdenum cofactor | other:other

NZ_NUEG01000051.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 46.1 | lassopeptide | 20,303 | 44,214 | High | paeninodin | ribosomal:unmodified

NZ_NUEG01000016.1 (Bacillus wiedmannii)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 56.1 | terpene-precursor | 496,522 | 517,412 |  |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 6.1 | betalactone | 28,533 | 53,771 | Low | fengycin | NRPS:Type I
Region 6.2 | NRPS | 72,554 | 131,998 |
Region 7.1 | lanthipeptide-class-ii | 71,549 | 94,764 | Low | salivaricin A | ribosomal:RiPP:Lanthipeptide
Region 8.1 | RiPP-like | 38,192 | 48,533 |
Region 8.2 | RiPP-like | 116,901 | 127,164 |
Region 8.3 | NRPS | 144,997 | 192,007 |
Region 11.1 | NI-siderophore | 229,103 | 260,808 | High | petrobactin | other:other
Region 12.1 | azole-containing-RiPP | 113,368 | 128,961 |
Region 24.1 | NRP-metallophore,NRPS | 70,093 | 121,851 | High | bacillibactin | NRPS:Type I
Region 25.1 | terpene | 70,811 | 92,664 | Low | molybdenum cofactor | other:other
Region 46.1 | lassopeptide | 20,303 | 44,214 | High | paeninodin | ribosomal:unmodified
Region 56.1 | terpene-precursor | 496,522 | 517,412 |  |

No secondary metabolite regions were found in these records:
  NZ_NUEG01000003.1 (Bacillus wiedmannii)
  NZ_NUEG01000004.1 (Bacillus wiedmannii)
  NZ_NUEG01000027.1 (Bacillus wiedmannii)
  NZ_NUEG01000028.1 (Bacillus wiedmannii)
  NZ_NUEG01000029.1 (Bacillus wiedmannii)
  NZ_NUEG01000008.1 (Bacillus wiedmannii)
  NZ_NUEG01000009.1 (Bacillus wiedmannii)
  NZ_NUEG01000011.1 (Bacillus wiedmannii)
  NZ_NUEG01000012.1 (Bacillus wiedmannii)
  NZ_NUEG01000017.1 (Bacillus wiedmannii)
  NZ_NUEG01000018.1 (Bacillus wiedmannii)
  NZ_NUEG01000019.1 (Bacillus wiedmannii)
  NZ_NUEG01000020.1 (Bacillus wiedmannii)
  NZ_NUEG01000021.1 (Bacillus wiedmannii)
  NZ_NUEG01000022.1 (Bacillus wiedmannii)
  NZ_NUEG01000023.1 (Bacillus wiedmannii)
  NZ_NUEG01000002.1 (Bacillus wiedmannii)
  NZ_NUEG01000025.1 (Bacillus wiedmannii)
  NZ_NUEG01000053.1 (Bacillus wiedmannii)
  NZ_NUEG01000054.1 (Bacillus wiedmannii)
  NZ_NUEG01000056.1 (Bacillus wiedmannii)
  NZ_NUEG01000033.1 (Bacillus wiedmannii)
  NZ_NUEG01000034.1 (Bacillus wiedmannii)
  NZ_NUEG01000013.1 (Bacillus wiedmannii)
  NZ_NUEG01000035.1 (Bacillus wiedmannii)
  NZ_NUEG01000036.1 (Bacillus wiedmannii)
  NZ_NUEG01000037.1 (Bacillus wiedmannii)
  NZ_NUEG01000038.1 (Bacillus wiedmannii)
  NZ_NUEG01000040.1 (Bacillus wiedmannii)
  NZ_NUEG01000041.1 (Bacillus wiedmannii)
  NZ_NUEG01000042.1 (Bacillus wiedmannii)
  NZ_NUEG01000043.1 (Bacillus wiedmannii)
  NZ_NUEG01000044.1 (Bacillus wiedmannii)
  NZ_NUEG01000045.1 (Bacillus wiedmannii)
  NZ_NUEG01000046.1 (Bacillus wiedmannii)
  NZ_NUEG01000047.1 (Bacillus wiedmannii)
  NZ_NUEG01000048.1 (Bacillus wiedmannii)
  NZ_NUEG01000050.1 (Bacillus wiedmannii)
  NZ_NUEG01000057.1 (Bacillus wiedmannii)
  NZ_NUEG01000058.1 (Bacillus wiedmannii)
  NZ_NUEG01000059.1 (Bacillus wiedmannii)
  NZ_NUEG01000015.1 (Bacillus wiedmannii)
  NZ_NUEG01000060.1 (Bacillus wiedmannii)
  NZ_NUEG01000061.1 (Bacillus wiedmannii)
  NZ_NUEG01000062.1 (Bacillus wiedmannii)
  NZ_NUEG01000063.1 (Bacillus wiedmannii)
  NZ_NUEG01000064.1 (Bacillus wiedmannii)
  NZ_NUEG01000070.1 (Bacillus wiedmannii)
  NZ_NUEG01000072.1 (Bacillus wiedmannii)
  NZ_NUEG01000073.1 (Bacillus wiedmannii)
  NZ_NUEG01000074.1 (Bacillus wiedmannii)
  NZ_NUEG01000075.1 (Bacillus wiedmannii)
  NZ_NUEG01000076.1 (Bacillus wiedmannii)
  NZ_NUEG01000078.1 (Bacillus wiedmannii)
  NZ_NUEG01000005.1 (Bacillus wiedmannii)
  NZ_NUEG01000083.1 (Bacillus wiedmannii)
  NZ_NUEG01000084.1 (Bacillus wiedmannii)
  NZ_NUEG01000006.1 (Bacillus wiedmannii)
  NZ_NUEG01000007.1 (Bacillus wiedmannii)

Compact view
NZ_NUEG01000030.1 - Region 1 - betalactone
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: 28,533 - 53,771 nt. (total: 25,239 nt) Show pHMM detection rules used
betalactone: (HMGL-like and AMP-binding)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
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
CN905_RS18245: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

Transferases: acetyltransferase carboxylase transferase
CN905_RS18185: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

CN905_RS18220: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

CN905_RS18240: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: dehalogenase
CN905_RS18175: haloalkane dehalogenase

smcogs
  SMCOG1262: haloalkane dehalogenase

Lyases: hydratase
CN905_RS18225: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase
CN905_RS18215: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

CN905_RS18230: 2-isopropylmalate synthase

smcogs
  SMCOG1271: 2-isopropylmalate synthase

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

Reference | betalactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002284.3 |  | 0.56 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000131.5 |  | 0.46 | PKS | pyrrolomycin | Streptomyces sp. UC 11065
BGC0000706.3 |  | 0.46 | saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000234.5 |  | 0.43 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002034.3 |  | 0.43 | other (other) | perquinoline A, perquinoline B, perquinoline C | Streptomyces sp. IB2014 016-6
BGC0002000.4 |  | 0.43 | PKS | setomimycin | Streptomyces aurantiacus JA 4570
BGC0001464.3 |  | 0.42 | other (other) | tetrabromopyrrole | Pseudoalteromonas sp. PS5
BGC0000623.3 |  | 0.42 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0001463.4 |  | 0.42 | other (other) | 2,3,4,5-tetrabromopyrrole | Pseudoalteromonas piscicida
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002284.3 |  | 0.56 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000131.5 |  | 0.46 | PKS | pyrrolomycin | Streptomyces sp. UC 11065
BGC0000706.3 |  | 0.46 | saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000234.5 |  | 0.43 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002034.3 |  | 0.43 | other (other) | perquinoline A, perquinoline B, perquinoline C | Streptomyces sp. IB2014 016-6
BGC0002000.4 |  | 0.43 | PKS | setomimycin | Streptomyces aurantiacus JA 4570
BGC0001464.3 |  | 0.42 | other (other) | tetrabromopyrrole | Pseudoalteromonas sp. PS5
BGC0000623.3 |  | 0.42 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0001463.4 |  | 0.42 | other (other) | 2,3,4,5-tetrabromopyrrole | Pseudoalteromonas piscicida
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365

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

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.54 out of 18.46
Confidence: medium
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.54 out of 18.46
Confidence: medium
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.68 out of 28.14
Confidence: medium
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 24.07 out of 30.25
Confidence: medium
Additional weak hits (1):
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.05 out of 33.73
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ColR | Phenol-responsive regulator
PerR | Peroxide regulator
RpoN | Regulator of nitrogen assimilation and virulence

NZ_NUEG01000030.1 - Region 2 - 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: 72,554 - 131,998 nt. (total: 59,445 nt) Show pHMM detection rules used
Region on contig edge.
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: PPTase acetyltransferase acyltransferase
CN905_RS18415: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

CN905_RS18445: acyltransferase 3

smcogs
  SMCOG1088: acyltransferase 3

CN905_RS18460: Chloramphenicol acetyltransferase

smcogs
  SMCOG1156: Chloramphenicol acetyltransferase

Hydrolases: deacetylase esterase
CN905_RS18410: thioesterase

smcogs
  SMCOG1004: thioesterase

CN905_RS18475: acetylornithine deacetylase

smcogs
  SMCOG1247: acetylornithine deacetylase

Isomerases: mutase
CN905_RS18500: phosphoglycerate mutase

smcogs
  SMCOG1101: phosphoglycerate mutase

Ligases: ligase
CN905_RS18420: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

CN905_RS18425: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

CN905_RS18430: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

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

Reference | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001833.4 |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0002135.2 |  | 0.75 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001133.4 |  | 0.73 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004
BGC0002286.3 |  | 0.73 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4 |  | 0.73 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001758.4 |  | 0.73 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001135.5 |  | 0.73 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.73 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001825.4 |  | 0.72 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001833.4 |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0002135.2 |  | 0.75 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001133.4 |  | 0.73 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004
BGC0002286.3 |  | 0.73 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4 |  | 0.73 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001758.4 |  | 0.73 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001135.5 |  | 0.73 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.73 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001825.4 |  | 0.72 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

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

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:
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.62 out of 29.38
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.31 out of 23.79
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.36 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.62 out of 26.06
Confidence: medium
Additional weak hits (3):
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.30 out of 29.72
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.02 out of 30.22
Confidence: weak
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.23 out of 25.88
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 72553 - 131998:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-Thr) + (X - Ala) + (Ser - Leu - D-X - Glu)

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).
CN905_RS18420: Ser - Leu - X - Glu
Search NORINE for peptide: strict or relaxed
AMP-binding (496..901): Ser
nrpys: Ser

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    RWMTFDVSVWEWHFFTSGEINLYGPTEATVDVTY
  Nearest Stachelhaus code(s):
    Ser DVWHFSLVDK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1558..1945): Leu
nrpys: Leu

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    MWHAFDSAVQEPFALTGGDINQYGPSENTVVTTD
  Nearest Stachelhaus code(s):
    Leu DAWFLGQVVK (65% 8Å match)
  Stachelhaus code match:
    80% (moderate)

AMP-binding (2600..3000): X
nrpys: Gln, Glu

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LGLAFDASIQQMDILVGGEYNVYGPTECTVDATC
  Nearest Stachelhaus code(s):
    Gln or Glu DAQDLGVVDK (88% 8Å match)
    Ile DAQDLGVVDK (85% 8Å match)
    Gln DAQDLGVVDK (79% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (4115..4515): Glu
nrpys: Glu

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    LGLAFDVSIQQMDMLVGGEYNVYGPTECTVDTTC
  Nearest Stachelhaus code(s):
    Gln or Glu DAQDLGVVDK (88% 8Å match)
    Ile DAQDLGVVDK (82% 8Å match)
    Gln DAQDLGVVDK (74% 8Å match)
  Stachelhaus code match:
    90% (moderate)

CN905_RS18425: X - Ala
Search NORINE for peptide: strict or relaxed
AMP-binding (466..870): X
nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    YWMTFDVSVWEWQFFSGGETNFYGPTEATIYVNA
  Nearest Stachelhaus code(s):
    Glu DVWHFGRINK (71% 8Å match)
    Gln DAWQFGLIDK (65% 8Å match)
  Stachelhaus code match:
    70% (weak)

AMP-binding (1527..1919): Ala
nrpys: Ala

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    MWATFDLSVFEVNTNLAGEYNLYGPSEDTTYSTY
  Nearest Stachelhaus code(s):
    Ala DLFNNALTYK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

CN905_RS18430: Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (457..866): Thr
nrpys: Thr

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

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

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

Regulator | Description
--- | ---
FuR variant 1 | Ferric Uptake Regulator
IolR | Regulator of the inositol catabolism
MogR | Repressor of flagellar motility genes

NZ_NUEG01000031.1 - Region 1 - lanthipeptide-class-ii
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 71,549 - 94,764 nt. (total: 23,216 nt) Show pHMM detection rules used
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Lyases: cyclase
CN905_RS18920: 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
--- | --- | --- | --- | --- | ---
BGC0001210.5 |  | 0.60 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000554.4 |  | 0.57 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000527.5 |  | 0.54 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000516.4 |  | 0.54 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000548.4 |  | 0.53 | ribosomal | salivaricin A | Streptococcus salivarius
BGC0000539.5 |  | 0.52 | ribosomal | nukacin ISK-1 | Staphylococcus warneri
BGC0001787.3 |  | 0.52 | ribosomal | suicin 3908 | Streptococcus suis
BGC0002005.2 |  | 0.51 | ribosomal | RaxX | Xanthomonas oryzae pv. oryzae
BGC0000590.5 |  | 0.51 | ribosomal | microcin N | Escherichia coli
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001210.5 |  | 0.60 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000554.4 |  | 0.57 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000527.5 |  | 0.54 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000516.4 |  | 0.54 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000548.4 |  | 0.53 | ribosomal | salivaricin A | Streptococcus salivarius
BGC0000539.5 |  | 0.52 | ribosomal | nukacin ISK-1 | Staphylococcus warneri
BGC0001787.3 |  | 0.52 | ribosomal | suicin 3908 | Streptococcus suis
BGC0002005.2 |  | 0.51 | ribosomal | RaxX | Xanthomonas oryzae pv. oryzae
BGC0000590.5 |  | 0.51 | ribosomal | microcin N | Escherichia coli
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum

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 CN905_RS18920

CN905_RS18910
Leader:
MEELKSVVMTVTDEELQEAAGA
CN905_RS18915
Leader:
MEELKGVVMTVTDEELQEAAGA
Shared core:
A G C G W L C T V T D D C P N S V F V C C
Core with dehydrations:
A G Cys G W L Cys Dhb V Dhb D D Cys P N Dha V F V Cys Cys

#### antiSMASH-DB 4.0 matches for CN905_RS18910

100.0%
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 G C G W L C T V T D D C P N S V F V C C
21
A G C G W L C T V T D D C P N S V F V C C
1
A G C G W L C T V T D D C P N S V F V C C
21
90.5%
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 G C G W L C T V T D D C P N S V F V C C
21
A G C G W C T+T D D C P N S V F V C C
1
A G C G W A C T I T D D C P N S V F V C C
21
90.5%
NZ_CP048890.1 and 3 others:
NZ_CP071478.1 Lanthipeptides: J0P05_RS32905_lanthipeptide NZ_LUCO01000008.1 Lanthipeptides: BMBG_RS24280_lanthipeptide NZ_NVLN01000014.1 Lanthipeptides: CON11_RS24965_lanthipeptide
Lanthipeptides: BMG_RS30865_lanthipeptide
1
A G C G W L C T V T D D C P N S V F V C C
21
A G C G W C T+T D D C P N S V F V C C
1
A G C G W S C T I T D D C P N S V F V C C
21
with 72 more sequence matches
Only the first 10 are displayed here.
90.5%
NZ_JANHJQ010000013.1:
Lanthipeptides: NON16_RS14160_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G C G W C T V T D D C P N S V F V C C
2
G C G W S C T V T D D C P N S V F V C C
21
72.7%
NC_004070.1 and 26 others:
NC_008024.1 Lanthipeptides: MGAS10750_RS08460_lanthipeptide NZ_CAAHHZ010000002.1 Lanthipeptides: E9518_RS02835_lanthipeptide NZ_CAAHIH010000002.1 Lanthipeptides: E9602_RS03585_lanthipeptide NZ_CAAHIO010000002.1 Lanthipeptides: E9584_RS04360_lanthipeptide NZ_CAAHJE010000002.1 Lanthipeptides: E9605_RS03435_lanthipeptide NZ_CAAHJS010000002.1 Lanthipeptides: E9628_RS02300_lanthipeptide NZ_CAAHKC010000012.1 Lanthipeptides: E9636_RS08085_lanthipeptide NZ_CAAHMR010000003.1 Lanthipeptides: E9727_RS05510_lanthipeptide NZ_CAAHQE010000003.1 Lanthipeptides: E9931_RS04945_lanthipeptide NZ_CAAHQG010000004.1 Lanthipeptides: E9903_RS05690_lanthipeptide NZ_CAAIFD010000008.1 Lanthipeptides: FAG63_RS07845_lanthipeptide NZ_CAAJDK010000010.1 Lanthipeptides: FAO79_RS08000_lanthipeptide NZ_CAAJFI010000003.1 Lanthipeptides: FAP60_RS03740_lanthipeptide NZ_CP008926.1 Lanthipeptides: DP15_RS03855_lanthipeptide NZ_CP035434.1 Lanthipeptides: ETT65_RS08240_lanthipeptide NZ_CP035435.1 Lanthipeptides: ETT64_RS07905_lanthipeptide NZ_CP035447.1 Lanthipeptides: ETT52_RS07920_lanthipeptide NZ_CP035449.1 Lanthipeptides: ETT50_RS08255_lanthipeptide NZ_CP035453.1 Lanthipeptides: ETT46_RS08220_lanthipeptide NZ_CP060646.1 Lanthipeptides: H7789_RS07920_lanthipeptide NZ_CP065054.1 Lanthipeptides: I2432_RS09105_lanthipeptide NZ_LRGW01000003.1 Lanthipeptides: AWU01_RS03260_lanthipeptide NZ_LS483298.1 Lanthipeptides: DQM39_RS08650_lanthipeptide NZ_LS483407.1 Lanthipeptides: DQM86_RS08100_lanthipeptide NZ_LS483425.1 Lanthipeptides: DQN36_RS07865_lanthipeptide NZ_LS483430.1 Lanthipeptides: DQN28_RS07600_lanthipeptide
Lanthipeptides: SPYM3_RS08605_lanthipeptide
1
A G C G W L C T V T D D C P N S V F V C C
21
G G W T+T D D C P N S V F V C C
2
K G S G W F A T I T D D C P N S V F V C C
22
72.7%
NZ_CAJHJN010000010.1 and 4 others:
NZ_CP066093.1 Lanthipeptides: I6I02_RS06995_lanthipeptide NZ_JACLQK010000029.1 Lanthipeptides: H7U04_RS10750_lanthipeptide NZ_JADPEB010000003.1 Lanthipeptides: I4U26_RS02855_lanthipeptide NZ_KV832031.1 Lanthipeptides: HMPREF2637_RS05170_lanthipeptide
Lanthipeptides: JMZ68_RS08975_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G G W T+T D D C P N S V F V C C
3
G T G W F A T I T D D C P N S V F V C C
22
72.7%
NZ_NIHT01000008.1 and 1 other:
NZ_NIHT01000008.1 Lanthipeptides: CDL23_RS06740_lanthipeptide
Lanthipeptides: CDL23_RS06745_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G G W L T+T D D C P N S+F V C C
3
G S G W L P T I T D D C P N S I F V C C
22
72.7%
NZ_PKIA01000004.1:
Lanthipeptides: CYK22_RS03780_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G G W+ T+T D D C P N S V F V C C
3
G P G W I A T I T D D C P N S V F V C C
22
68.2%
NZ_CAAIJM010000014.1:
Lanthipeptides: FAI23_RS09465_lanthipeptide
4
G W L C T V T D D C P N S V F V C C
21
G W T+T D D C P N S V F V C C
5
G W F A T I T D D C P N S V F V C C
22
68.2%
NZ_CP018188.1 and 1 other:
NZ_VDNV01000006.1 Lanthipeptides: FSV44_RS08680_lanthipeptide
Lanthipeptides: BSR19_RS10820_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G G W+ T+T D D C P N S+F V C C
3
G P G W I A T I T D D C P N S I F V C C
22
68.2%
NZ_JAQDVH010000019.1 and 3 others:
NZ_JAQDVH010000019.1 Lanthipeptides: PGU04_RS09335_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06620_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06620_lanthipeptide
Lanthipeptides: PGU04_RS09335_lanthipeptide
1
A G C G W L C T V T D D C P N S V F V C C
21
G G W+ T+T D D C P N S+F V C C
2
K G P G W I A T I T D D C P N S I F V C C
22
66.7%
NZ_MOWR01000001.1:
Lanthipeptides: BMI76_RS01705_lanthipeptide
4
G W L C T V T D D C P N S V F V C C
21
G W T+T D+C P N S V F V C C
4
G W S F T I T D E C P N S V F V C C
21
60.9%
NZ_BMMB01000007.1 and 1 other:
NZ_BMMB01000007.1 Lanthipeptides: IEX62_RS15675_lanthipeptide
Lanthipeptides: IEX62_RS15680_lanthipeptide
2
G C G W L C T V T D D C P N S V F V C C
21
G G W+ T+T D D C P N S+ V C C
4
G D G W I T T L T D D C P N S I I V C C
23
CN905_RS18940
Leader:
MGYGGSCGGGCGFGGGFALLVVLFILLIIVGA
Core:
S C W G G G F G C
Core with dehydrations:
Dha Cys W G G G F G Cys

#### antiSMASH-DB 4.0 matches for CN905_RS18940

100.0%
NZ_CP036073.1 and 8 others:
NZ_NUAK01000016.1 Lanthipeptides: CN576_RS13080_lanthipeptide NZ_NUCU01000039.1 Lanthipeptides: CN607_RS27990_lanthipeptide NZ_NUEG01000031.1 Lanthipeptides: CN905_RS18940_lanthipeptide NZ_NURM01000051.1 Lanthipeptides: COE96_RS27400_lanthipeptide NZ_NUSP01000054.1 Lanthipeptides: COF57_RS29820_lanthipeptide NZ_NVFC01000019.1 Lanthipeptides: COL36_RS16700_lanthipeptide NZ_NVHZ01000022.1 Lanthipeptides: COM04_RS18290_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: C6359_RS05235_lanthipeptide
Lanthipeptides: EXW45_RS04960_lanthipeptide
1
S C W G G G F G C
9
S C W G G G F G C
1
S C W G G G F G C
9
CN905_RS18965
Leader:
MGFGGSCGGSCGFSGGFALLVVLFILLIIVGA
CN905_RS18995
Leader:
MGFGGSCSSNCGGGFALLVVLFILLIIVGA
Shared core:
S C F C
Core with dehydrations:
Dha Cys F Cys
allorf_074021_074089
Leader:
MFHGYTSLNELGFILLM
Core:
T V Y C C
Core with dehydrations:
Dhb V Y Cys Cys
allorf_081010_081162
Leader:
MIARFIINNFKLATYKYA
Core:
I X X X X X C N S S S V T V I T T L F N S S I P S P P L I P N I
Core with dehydrations:
I X X X X X Cys N Dha Dha Dha V Dhb V I Dhb Dhb L F N Dha Dha I P Dha P P L I P N I

#### antiSMASH-DB 4.0 matches for allorf_081010_081162

81.2%
NZ_NUEG01000031.1:
Lanthipeptides: allorf_081010_081162_lanthipeptide
7
C N S S S V T V I T T L F N S S I P S P P L I P N I
32
C N S S S V T V I T T L F N S S I P S P P L I P N I
7
C N S S S V T V I T T L F N S S I P S P P L I P N I
32
27.3%
NZ_CP050974.1:
Lanthipeptides: allorf_00475317_00475475_lanthipeptide
7
C N S S S V T V I T T L F N S S I P S P P L I P N
31
C S S + +S P S P P N
7
C P S P S S K A L K P A R R A S T P S P P R R Q N
31
allorf_089042_089194
Leader:
MLHIYRLYDVNLIYFSCLLFVLIHLLILFFESPIDGA
Core:
F F Y N C F K A E T S E A
Core with dehydrations:
F F Y N Cys F K A E Dhb Dha E A

#### antiSMASH-DB 4.0 matches for allorf_089042_089194

100.0%
NZ_CP036073.1 and 8 others:
NZ_NUAK01000016.1 Lanthipeptides: allorf_38413_38565_lanthipeptide NZ_NUCU01000039.1 Lanthipeptides: allorf_39033_39185_lanthipeptide NZ_NUEG01000031.1 Lanthipeptides: allorf_089042_089194_lanthipeptide NZ_NURM01000051.1 Lanthipeptides: allorf_07704_07856_lanthipeptide NZ_NUSP01000054.1 Lanthipeptides: allorf_07704_07856_lanthipeptide NZ_NVFC01000019.1 Lanthipeptides: allorf_28375_28527_lanthipeptide NZ_NVHZ01000022.1 Lanthipeptides: allorf_35615_35767_lanthipeptide NZ_PVRT01000001.1 Lanthipeptides: allorf_0971257_0971409_lanthipeptide
Lanthipeptides: allorf_0972713_0972865_lanthipeptide
1
F F Y N C F K A E T S E A
13
F F Y N C F K A E T S E A
1
F F Y N C F K A E T S E A
13
allorf_091125_091334
Leader:
MFFNGFYLLYVLTHKREQVLLKIKKDTLRCLYPALMGSKTPPQNSAKAKNLGGG
Core:
R A A H K S P I X S F T L C N
Core with dehydrations:
R A A H K Dha P I X Dha F Dhb L Cys N

#### antiSMASH-DB 4.0 matches for allorf_091125_091334

100.0%
NZ_NUEG01000031.1:
Lanthipeptides: allorf_091125_091334_lanthipeptide
1
R A A H K S P I X S F T L C N
15
R A A H K S P I X S F T L C N
1
R A A H K S P I X S F T L C N
15

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 25.42 out of 26.06
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.30 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.70 out of 26.06
Confidence: medium
Additional weak hits (2):
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.24 out of 27.18
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 18.69 out of 30.12
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.

CN905_RS18910 - Class II
  Cleavage pHMM score: 0.60
  RODEO score: 0
  Monoisotopic mass: 2137.9 Da
  Molecular weight: 2139.5 Da
  Number of bridges: 3
CN905_RS18915 - Class II
  Cleavage pHMM score: 0.60
  RODEO score: 0
  Monoisotopic mass: 2137.9 Da
  Molecular weight: 2139.5 Da
  Number of bridges: 3
CN905_RS18940 - Class II
  Cleavage pHMM score: -3.70
  RODEO score: 0
  Monoisotopic mass: 854.3 Da
  Molecular weight: 854.9 Da
  Number of bridges: 1
CN905_RS18965 - Class II
  Cleavage pHMM score: -3.70
  RODEO score: 0
  Monoisotopic mass: 440.1 Da
  Molecular weight: 440.5 Da
  Number of bridges: 1
CN905_RS18995 - Class II
  Cleavage pHMM score: -3.70
  RODEO score: 0
  Monoisotopic mass: 440.1 Da
  Molecular weight: 440.5 Da
  Number of bridges: 1
allorf_074021_074089 - Class II
  Cleavage pHMM score: -6.70
  RODEO score: 0
  Monoisotopic mass: 569.2 Da
  Molecular weight: 569.7 Da
  Number of bridges: 1
allorf_081010_081162 - Class II
  Cleavage pHMM score: -5.70
  RODEO score: 0
  Monoisotopic mass: 2651.5 Da
  Molecular weight: 2653.1 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2671.1 Da N = 1
    2689.1 Da N = 2
    2707.1 Da N = 3
    2725.1 Da N = 4
    2743.2 Da N = 5
    2761.2 Da N = 6
    2779.2 Da N = 7
    2797.2 Da N = 8
allorf_089042_089194 - Class II
  Cleavage pHMM score: -6.90
  RODEO score: 0
  Monoisotopic mass: 1519.7 Da
  Molecular weight: 1520.7 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1538.7 Da N = 1
allorf_091125_091334 - Class II
  Cleavage pHMM score: -4.70
  RODEO score: 0
  Monoisotopic mass: 1489.8 Da
  Molecular weight: 1490.7 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1508.7 Da N = 1
    1526.8 Da N = 2

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
MogR | Repressor of flagellar motility genes

NZ_NUEG01000032.1 - 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: 38,192 - 48,533 nt. (total: 10,342 nt) Show pHMM detection rules used
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
Transferases: aminotransferase
CN905_RS19410: aminotransferase

smcogs
  SMCOG1019: aminotransferase

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

Reference | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000883.5 |  | 0.30 | other (other) | arginomycin | Streptomyces arginensis
BGC0000721.4 |  | 0.26 | saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0001964.2 |  | 0.25 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium
BGC0000172.5 |  | 0.23 | PKS | Basiliskamide A, Basiliskamide B | Brevibacillus laterosporus PE36
BGC0000381.5 |  | 0.23 | NRPS | lichenysin | Bacillus licheniformis DSM 13 = ATCC 14580
BGC0000433.5 |  | 0.22 | NRPS | surfactin | Bacillus velezensis FZB42
BGC0000455.6 |  | 0.22 | NRPS, saccharide | vancomycin | Amycolatopsis orientalis HCCB10007 (ATCC43491)
BGC0002588.2 |  | 0.22 | other (other) | enduracididine | uncultured bacterium
BGC0001233.5 |  | 0.21 | NRPS | feglymycin | Streptomyces sp. DSM 11171
BGC0001461.5 |  | 0.21 | NRPS | Actinoidin B | Amycolatopsis keratiniphila subsp. nogabecina

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000883.5 |  | 0.30 | other (other) | arginomycin | Streptomyces arginensis
BGC0000721.4 |  | 0.26 | saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0001964.2 |  | 0.25 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium
BGC0000172.5 |  | 0.23 | PKS | Basiliskamide A, Basiliskamide B | Brevibacillus laterosporus PE36
BGC0000381.5 |  | 0.23 | NRPS | lichenysin | Bacillus licheniformis DSM 13 = ATCC 14580
BGC0000433.5 |  | 0.22 | NRPS | surfactin | Bacillus velezensis FZB42
BGC0000455.6 |  | 0.22 | NRPS, saccharide | vancomycin | Amycolatopsis orientalis HCCB10007 (ATCC43491)
BGC0002588.2 |  | 0.22 | other (other) | enduracididine | uncultured bacterium
BGC0001233.5 |  | 0.21 | NRPS | feglymycin | Streptomyces sp. DSM 11171
BGC0001461.5 |  | 0.21 | NRPS | Actinoidin B | Amycolatopsis keratiniphila subsp. nogabecina

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:
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.47 out of 21.55
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.67 out of 26.06
Confidence: medium
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.85 out of 30.25
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.59 out of 32.93
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.56 out of 32.93
Confidence: medium
Additional weak hits (4):
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.27 out of 25.75
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 22.53 out of 33.73
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 17.35 out of 30.12
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.77 out of 33.14
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
ColR | Phenol-responsive regulator
LexA variant 3 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes

NZ_NUEG01000032.1 - Region 2 - 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: 116,901 - 127,164 nt. (total: 10,264 nt) Show pHMM detection rules used
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
Transferases: aminotransferase
CN905_RS19815: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Hydrolases: hydrolase
CN905_RS19845: beta-lactamase

smcogs
  SMCOG1053: beta-lactamase

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
--- | --- | --- | --- | --- | ---
BGC0002458.3 |  | 0.44 | NRPS | alazopeptin | Streptacidiphilus griseoplanus
BGC0001994.4 |  | 0.40 | other (other) | β-ethynylserine | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001964.2 |  | 0.28 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium
BGC0002536.3 |  | 0.28 | NRPS | alazopeptin | Kitasatospora azatica KCTC 9699
BGC0002440.3 |  | 0.24 | NRPS | longicatenamide B, longicatenamide C, longicatenamide A, longicatenamide D | Streptomyces sp.
BGC0000388.5 |  | 0.24 | NRPS | mannopeptimycin | Streptomyces hygroscopicus
BGC0001814.5 |  | 0.23 | NRPS | ulleungmycin | Streptomyces sp. KCB13F003
BGC0002314.3 |  | 0.22 | NRPS | corbomycin | Streptomyces sp. WAC 01529
BGC0001406.5 |  | 0.22 | NRPS | telomycin | Streptomyces canus
BGC0000993.4 |  | 0.22 | NRPS, PKS | FR901228 | Chromobacterium violaceum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002458.3 |  | 0.44 | NRPS | alazopeptin | Streptacidiphilus griseoplanus
BGC0001994.4 |  | 0.40 | other (other) | β-ethynylserine | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001964.2 |  | 0.28 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium
BGC0002536.3 |  | 0.28 | NRPS | alazopeptin | Kitasatospora azatica KCTC 9699
BGC0002440.3 |  | 0.24 | NRPS | longicatenamide B, longicatenamide C, longicatenamide A, longicatenamide D | Streptomyces sp.
BGC0000388.5 |  | 0.24 | NRPS | mannopeptimycin | Streptomyces hygroscopicus
BGC0001814.5 |  | 0.23 | NRPS | ulleungmycin | Streptomyces sp. KCB13F003
BGC0002314.3 |  | 0.22 | NRPS | corbomycin | Streptomyces sp. WAC 01529
BGC0001406.5 |  | 0.22 | NRPS | telomycin | Streptomyces canus
BGC0000993.4 |  | 0.22 | NRPS, PKS | FR901228 | Chromobacterium violaceum

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):
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.49 out of 31.73
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---

NZ_NUEG01000032.1 - Region 3 - 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: 144,997 - 192,007 nt. (total: 47,011 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase
CN905_RS20015: FAD dependent oxidoreductase

smcogs
  SMCOG1103: FAD dependent oxidoreductase

CN905_RS20150: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs
  SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: aminotransferase
CN905_RS20140: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Hydrolases: esterase glucanase hydrolase
CN905_RS20040: HAD-superfamily hydrolase, subfamily IA, variant

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

CN905_RS20080: alpha/beta hydrolase domain-containing protein

smcogs
  SMCOG1066: alpha/beta hydrolase domain-containing protein

CN905_RS20100: Pullulanase, type I

smcogs
  SMCOG1297: Pullulanase, type I

CN905_RS20115: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

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

CN905_RS20155: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

Lyases: decarboxylase
CN905_RS20085: Decarboxylase, pyridoxal-dependent

smcogs
  SMCOG1180: Decarboxylase, pyridoxal-dependent

Ligases: ligase
CN905_RS20090: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

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

Reference | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001249.5 |  | 0.72 | NRPS | dimethylcoprogen | Alternaria alternata
BGC0001261.3 |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.65 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.64 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  | 0.64 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.64 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.64 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002135.2 |  | 0.63 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0000357.5 |  | 0.62 | NRPS | cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val) | Penicillium rubens Wisconsin 54-1255
BGC0001641.4 |  | 0.62 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001249.5 |  | 0.72 | NRPS | dimethylcoprogen | Alternaria alternata
BGC0001261.3 |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.65 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.64 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  | 0.64 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.64 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.64 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002135.2 |  | 0.63 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0000357.5 |  | 0.62 | NRPS | cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val) | Penicillium rubens Wisconsin 54-1255
BGC0001641.4 |  | 0.62 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

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

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:
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.71 out of 26.33
Confidence: medium
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 24.13 out of 29.25
Confidence: medium
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 28.23 out of 31.73
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.81 out of 20.97
Confidence: medium
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.24 out of 30.25
Confidence: medium
Additional weak hits (3):
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.10 out of 39.62
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.36 out of 33.73
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.63 out of 29.65
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 3, location 144996 - 192007:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X - 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).
CN905_RS20090: X - Cys
Search NORINE for peptide: strict or relaxed
AMP-binding (266..656): X
nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    FVMAFDISLLELESLLAGELNIYGPTETTICATV
  Nearest Stachelhaus code(s):
    Ala DILICALICK (44% 8Å match)
  Stachelhaus code match:
    70% (weak)

AMP-binding (1303..1683): 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:
    TDISFDLSVYDGNTLHSGDVSLGGATEASIWSIY
  Nearest Stachelhaus code(s):
    Cys DLYNLSLIWK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

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

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CcpA | Catabolite control protein A
ColR | Phenol-responsive regulator
HexR | Glucose-responsive regulator
SypG | Regulator of biofilm formation and host colonization

NZ_NUEG01000001.1 - 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: 229,103 - 260,808 nt. (total: 31,706 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
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
Transferases: aminotransferase
CN905_RS01240: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Hydrolases: deacetylase
CN905_RS01305: polysaccharide deacetylase

smcogs
  SMCOG1235: polysaccharide deacetylase

Ligases: ligase synthase
CN905_RS01275: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

CN905_RS01345: cysteine synthase

smcogs
  SMCOG1081: cysteine synthase

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

Reference | NI-siderophore | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000942.4 |  | 0.91 | other (other) | petrobactin | Bacillus anthracis str. Ames
BGC0002469.2 |  | 0.54 | other (other) | woodybactin A, woodybactin B, woodybactin C, woodybactin D | Shewanella woodyi ATCC 51908
BGC0000295.5 |  | 0.51 | NRPS | acinetoferrin | Acinetobacter haemolyticus
BGC0002620.2 |  | 0.50 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina
BGC0002692.2 |  | 0.50 | other (other) | speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B | Kribbella speibonae
BGC0001531.5 |  | 0.50 | other (other) | bisucaberin B | Tenacibaculum mesophilum
BGC0002464.3 |  | 0.48 | other (other) | alcaligin | Bordetella pertussis Tohama I
BGC0002471.3 |  | 0.47 | other (other) | baumannoferrin A, baumannoferrin B | Acinetobacter baumannii AYE
BGC0001498.5 |  | 0.47 | other (other) | aerobactin | Xenorhabdus szentirmaii DSM 16338
BGC0002683.2 |  | 0.46 | NRPS | schizokinen | Nostoc sp. PCC 7120 = FACHB-418

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000942.4 |  | 0.91 | other (other) | petrobactin | Bacillus anthracis str. Ames
BGC0002469.2 |  | 0.54 | other (other) | woodybactin A, woodybactin B, woodybactin C, woodybactin D | Shewanella woodyi ATCC 51908
BGC0000295.5 |  | 0.51 | NRPS | acinetoferrin | Acinetobacter haemolyticus
BGC0002620.2 |  | 0.50 | other (other) | fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4 | Fulvivirga marina
BGC0002692.2 |  | 0.50 | other (other) | speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B | Kribbella speibonae
BGC0001531.5 |  | 0.50 | other (other) | bisucaberin B | Tenacibaculum mesophilum
BGC0002464.3 |  | 0.48 | other (other) | alcaligin | Bordetella pertussis Tohama I
BGC0002471.3 |  | 0.47 | other (other) | baumannoferrin A, baumannoferrin B | Acinetobacter baumannii AYE
BGC0001498.5 |  | 0.47 | other (other) | aerobactin | Xenorhabdus szentirmaii DSM 16338
BGC0002683.2 |  | 0.46 | NRPS | schizokinen | Nostoc sp. PCC 7120 = FACHB-418

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 15.13 out of 18.16
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.38 out of 29.38
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.40 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.93 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.11 out of 28.19
Confidence: medium
Additional weak hits (3):
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 25.60 out of 36.54
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.50 out of 32.74
Confidence: weak
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.58 out of 19.52
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
FuR variant 1 | Ferric Uptake Regulator
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_NUEG01000010.1 - 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: 113,368 - 128,961 nt. (total: 15,594 nt) Show pHMM detection rules used
Region on contig edge.
azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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: oxidoreductase
CN905_RS09750: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

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
--- | --- | --- | --- | --- | ---
BGC0002013.4 |  | 0.44 | ribosomal | curacozole | Streptomyces curacoi
BGC0000607.5 |  | 0.43 | ribosomal | micrococcin P1 | Macrococcus caseolyticus
BGC0000569.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus velezensis FZB42
BGC0001146.5 |  | 0.41 | ribosomal | cyclothiazomycin C | Streptomyces sp. NRRL WC-3908
BGC0001173.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus pumilus ATCC 7061
BGC0000606.5 |  | 0.39 | ribosomal | lactazole | Streptomyces lactacystinaeus
BGC0001145.5 |  | 0.38 | ribosomal | cyclothiazomycin b1 | Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0001640.3 |  | 0.38 | ribosomal | kocurin | Kocuria rosea
BGC0000603.5 |  | 0.38 | ribosomal | cyclothiazomycin | Streptomyces hygroscopicus
BGC0000605.5 |  | 0.38 | ribosomal | GE37468 | Streptomyces sp. ATCC 55365

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002013.4 |  | 0.44 | ribosomal | curacozole | Streptomyces curacoi
BGC0000607.5 |  | 0.43 | ribosomal | micrococcin P1 | Macrococcus caseolyticus
BGC0000569.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus velezensis FZB42
BGC0001146.5 |  | 0.41 | ribosomal | cyclothiazomycin C | Streptomyces sp. NRRL WC-3908
BGC0001173.5 |  | 0.41 | ribosomal | plantazolicin | Bacillus pumilus ATCC 7061
BGC0000606.5 |  | 0.39 | ribosomal | lactazole | Streptomyces lactacystinaeus
BGC0001145.5 |  | 0.38 | ribosomal | cyclothiazomycin b1 | Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0001640.3 |  | 0.38 | ribosomal | kocurin | Kocuria rosea
BGC0000603.5 |  | 0.38 | ribosomal | cyclothiazomycin | Streptomyces hygroscopicus
BGC0000605.5 |  | 0.38 | ribosomal | GE37468 | Streptomyces sp. ATCC 55365

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:
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.43 out of 32.93
Confidence: medium
Additional weak hits (1):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.85 out of 29.38
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.
RREFinder
TFBS Finder
Azole RiPPs
RRE predictions
RREfinder results sidepanel.

azole-containing-RiPP protocluster (113367...128961)
CN905_RS09775
  RRE type: Heterocycloanthracin_C_RRE
  Location: 0 - 100
  Score: 180.9
  RRE type: Thiopeptide_F_RRE
  Location: 10 - 89
  Score: 40.2

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
LexA variant 3 | Repressor of DNA damage response

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_NUEG01000026.1 - 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: 70,093 - 121,851 nt. (total: 51,759 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
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxygenase
CN905_RS16835: Antibiotic biosynthesis monooxygenase

smcogs
  SMCOG1258: Antibiotic biosynthesis monooxygenase

CN905_RS16910: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

CN905_RS16970: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

CN905_RS16975: 3-hydroxyisobutyrate dehydrogenase

smcogs
  SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

CN905_RS16980: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

Transferases: PPTase
CN905_RS16875: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: hydrolase
CN905_RS16895: isochorismatase

smcogs
  SMCOG1027: isochorismatase

Lyases: hydratase
CN905_RS16960: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Isomerases: isomerase
CN905_RS16905: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: ligase synthase
CN905_RS16830: Pseudouridine synthase

smcogs
  SMCOG1154: Pseudouridine synthase

CN905_RS16890: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

CN905_RS16900: 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
--- | --- | --- | --- | --- | --- | ---
BGC0001185.5 |  |  | 1.05 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000309.5 |  |  | 0.92 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0000401.5 |  |  | 0.89 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0000343.5 |  |  | 0.86 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0002075.3 |  |  | 0.86 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  |  | 0.77 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  |  | 0.75 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  |  | 0.74 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002695.2 |  |  | 0.73 | NRPS | bacillibactin, bacillibactin E, bacillibactin F | Bacillus sp. WMMC1349

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001185.5 |  | 0.80 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000309.5 |  | 0.76 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0000401.5 |  | 0.75 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0000343.5 |  | 0.74 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0002075.3 |  | 0.74 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  | 0.71 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.70 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002695.2 |  | 0.69 | NRPS | bacillibactin, bacillibactin E, bacillibactin F | Bacillus sp. WMMC1349

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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.53 out of 26.06
Confidence: strong
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.21 out of 30.25
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.93 out of 26.06
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.80 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.28 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.40 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.11 out of 29.38
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.83 out of 27.78
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.71 out of 27.78
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.76 out of 29.38
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.82 out of 26.06
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.65 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.53 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.75 out of 28.19
Confidence: medium
CatR
Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 20.57 out of 25.31
Confidence: medium
Additional weak hits (10):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.54 out of 30.25
Confidence: weak
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.31 out of 29.72
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.53 out of 30.25
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.52 out of 32.74
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.92 out of 29.38
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 24.90 out of 36.54
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 24.74 out of 36.54
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.73 out of 30.25
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.73 out of 30.98
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.87 out of 33.14
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 1, location 70092 - 121851:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Gly - Thr)

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).
CN905_RS16890: Gly - Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (465..865): Gly
nrpys: Gly

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    FAMTFDISALELQALVGGETNLYGPTETTIWSTF
  Nearest Stachelhaus code(s):
    Gly DILQLGLIWK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1525..1938): Thr
nrpys: Thr

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

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

CN905_RS16900: diOH-Bz
Search NORINE for peptide: strict or relaxed
AMP-binding (31..435): diOH-Bz
nrpys: diOH-Bz

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    SVSLYPMSSPGGALQVGGAQQVFGMAEGLVNYTR
  Nearest Stachelhaus code(s):
    diOH-Bz PMPAQGVVNK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

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

Regulator | Description
--- | ---
CatR | H2O2-responsive repressor
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ColR | Phenol-responsive regulator
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_NUEG01000052.1 - Region 1 - terpene
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 70,811 - 92,664 nt. (total: 21,854 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
CN905_RS26220: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

CN905_RS26225: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Lyases: lyase
CN905_RS26195: argininosuccinate lyase/adenylosuccinate lyase

smcogs
  SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

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
--- | --- | --- | --- | --- | ---
BGC0000917.3 |  | 0.52 | other (other) | molybdenum cofactor | Rhodobacter capsulatus
BGC0000888.5 |  | 0.48 | other (other) | bacilysin | Bacillus sp. CS93
BGC0001928.2 |  | 0.46 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0000916.5 |  | 0.46 | other (other) | molybdenum cofactor | Staphylococcus carnosus
BGC0000812.3 |  | 0.45 | other (other) | huperzine A | Shiraia sp. slf14
BGC0000231.5 |  | 0.42 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0001605.3 |  | 0.42 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001197.5 |  | 0.42 | PKS | frankiamicin | Frankia sp. EAN1pec
BGC0000234.5 |  | 0.41 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002138.2 |  | 0.40 | PKS | fuelimycin A, fuelimicin B, fuelimicin C | Streptomyces albireticuli NRRL B-1670

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000917.3 |  | 0.52 | other (other) | molybdenum cofactor | Rhodobacter capsulatus
BGC0000888.5 |  | 0.48 | other (other) | bacilysin | Bacillus sp. CS93
BGC0001928.2 |  | 0.46 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0000916.5 |  | 0.46 | other (other) | molybdenum cofactor | Staphylococcus carnosus
BGC0000812.3 |  | 0.45 | other (other) | huperzine A | Shiraia sp. slf14
BGC0000231.5 |  | 0.42 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0001605.3 |  | 0.42 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001197.5 |  | 0.42 | PKS | frankiamicin | Frankia sp. EAN1pec
BGC0000234.5 |  | 0.41 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0002138.2 |  | 0.40 | PKS | fuelimycin A, fuelimicin B, fuelimicin C | Streptomyces albireticuli NRRL B-1670

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

No significant matches found.

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

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
triterpene | hopanoid |  | C30 | hopanoid skeleton | unknown
triterpene | polypodane |  | C30 | polypodane skeleton | unknown

Genes with terpene domains:
CN905_RS26235: T2TS
Domain 1 (4 - 614): Type 2 terpene synthase
Subtype: Squalene substrate

Reactions:
  squalene → hopanoid
  squalene → polypodane

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
No hits above weak threshold.
Weak hits (1):
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.85 out of 30.22
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.
No acronyms to display
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---

NZ_NUEG01000051.1 - Region 1 - lassopeptide
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: 20,303 - 44,214 nt. (total: 23,912 nt) Show pHMM detection rules used
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lasso peptides
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: aminotransferase glycosyltransferase
CN905_RS25730: glycosyl transferase group 1

smcogs
  SMCOG1045: glycosyl transferase group 1

CN905_RS25750: sugar transferase

smcogs
  SMCOG1146: sugar transferase

CN905_RS25760: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs
  SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

Hydrolases: esterase hydrolase
CN905_RS25765: asparagine synthase (glutamine-hydrolyzing)

smcogs
  SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

CN905_RS25825: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

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

Ligases: synthase
CN905_RS25735: polyprenol-monophosphomannose synthase ppm1

smcogs
  SMCOG1123: polyprenol-monophosphomannose synthase ppm1

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 | lassopeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001356.4 |  | 0.69 | ribosomal | paeninodin | Paenibacillus dendritiformis C454
BGC0002312.2 |  | 0.53 | ribosomal | ubonodin | Burkholderia ubonensis
BGC0001634.3 |  | 0.52 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0000571.3 |  | 0.51 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002825.2 |  | 0.49 | ribosomal | nocapeptin A | Nocardia terpenica IFM 0406
BGC0001410.3 |  | 0.48 | saccharide | polysaccharide A | Bacteroides fragilis
BGC0000800.5 |  | 0.48 | saccharide | xanthan | Xanthomonas campestris
BGC0000868.5 |  | 0.47 | other (other) | teichuronic acid | Bacillus subtilis subsp. subtilis str. 168
BGC0001639.3 |  | 0.47 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000764.3 |  | 0.46 | saccharide | exopolysaccharide | Lactococcus lactis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001356.4 |  | 0.69 | ribosomal | paeninodin | Paenibacillus dendritiformis C454
BGC0002312.2 |  | 0.53 | ribosomal | ubonodin | Burkholderia ubonensis
BGC0001634.3 |  | 0.52 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0000571.3 |  | 0.51 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002825.2 |  | 0.49 | ribosomal | nocapeptin A | Nocardia terpenica IFM 0406
BGC0001410.3 |  | 0.48 | saccharide | polysaccharide A | Bacteroides fragilis
BGC0000800.5 |  | 0.48 | saccharide | xanthan | Xanthomonas campestris
BGC0000868.5 |  | 0.47 | other (other) | teichuronic acid | Bacillus subtilis subsp. subtilis str. 168
BGC0001639.3 |  | 0.47 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000764.3 |  | 0.46 | saccharide | exopolysaccharide | 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.
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.

Lasso peptide predictions
Lists the possible core peptides for each biosynthetic enzyme. Each core peptide shows the leader and core peptide sequences.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.
Lassopeptides - No core peptides found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.08 out of 23.79
Confidence: medium
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.33 out of 21.55
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 22.42 out of 24.78
Confidence: strong
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.98 out of 24.78
Confidence: medium
Additional weak hits (2):
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 24.35 out of 33.73
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
Lasso peptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of disulfide bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
No core peptides found.
RRE predictions
RREfinder results sidepanel.

lassopeptide protocluster (20302...44214)
CN905_RS25775
  RRE type: Stand_Alone_Lasso_RRE
  Location: 13 - 96
  Score: 90.3

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
IolR | Regulator of the inositol catabolism
LexA variant 2 | Repressor of DNA damage response

NZ_NUEG01000016.1 - Region 1 - terpene-precursor
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 496,522 - 517,412 nt. (total: 20,891 nt) Show pHMM detection rules used
terpene-precursor: (PT_FPPS_like and not PT_HPP)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: carboxylase
CN905_RS13985: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: synthase synthetase
CN905_RS13950: 1-deoxy-D-xylulose-5-phosphate synthase

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

CN905_RS13955: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

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

Reference | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002219.2 |  | 0.39 | terpene | (-)-(R)-nephthenol | Stereum hirsutum FP-91666 SS1
BGC0000665.5 |  | 0.38 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000642.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC413

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002219.2 |  | 0.39 | terpene | (-)-(R)-nephthenol | Stereum hirsutum FP-91666 SS1
BGC0000665.5 |  | 0.38 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000642.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC413

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

Genes with terpene domains:
CN905_RS13955: PT_FPPS_like
Domain 1 (32 - 295): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:
  DMAPP, IPP → FPP

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.49 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.66 out of 26.06
Confidence: medium
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.53 out of 25.88
Confidence: medium
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.28 out of 26.33
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.30 out of 28.19
Confidence: medium
Additional weak hits (2):
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 25.40 out of 33.14
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.42 out of 35.63
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

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

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
MogR | Repressor of flagellar motility genes
PsrA | Oleic acid responsive regulator
ZuR variant 1 | Zinc-responsive repressor