Select genomic region:
Overview
1.1
1.2

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

NZ_CP028106.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | NRPS-like | 1,116,033 | 1,157,330 |
Region 2 | NRPS-like | 1,214,002 | 1,256,506 |

NZ_CP028106.1 - Region 1 - NRPS-like
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,116,033 - 1,157,330 nt. (total: 41,298 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
NRPS/PKS domains
MIBiG comparison
KnownClusterBlast
NRPS/PKS modules
Pfam domains
TIGRFAM domains
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 glossary is available here.
Selected features only
Show module domains
Similar gene clusters
Shows careas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000938.1 |  | 0.20 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0001591.1 |  | 0.19 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.19 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000410.1 |  | 0.17 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001636.1 |  | 0.17 | NRP | KK-1 | Curvularia clavata
BGC0000487.1 |  | 0.17 | RiPP | carnocyclin | Carnobacterium maltaromaticum
BGC0000423.1 |  | 0.17 | NRP | scabichelin | Streptomyces scabiei 87.22
BGC0000780.1 |  | 0.17 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0001526.1 |  | 0.17 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001525.1 |  | 0.17 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000938.1 |  | 0.52 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0001591.1 |  | 0.51 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.51 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000410.1 |  | 0.49 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001636.1 |  | 0.49 | NRP | KK-1 | Curvularia clavata
BGC0000487.1 |  | 0.48 | RiPP | carnocyclin | Carnobacterium maltaromaticum
BGC0000423.1 |  | 0.48 | NRP | scabichelin | Streptomyces scabiei 87.22
BGC0000780.1 |  | 0.48 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0001526.1 |  | 0.48 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001525.1 |  | 0.48 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155

Similar known gene clusters
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

Module view
Shows module structures for each candidate 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.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS monomers
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 1116032 - 1157330:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS monomer predictions
Shows the predicted monomers for each adynelation 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).

ctg1_1114: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (8..409): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      pLgivGGPmK
    Nearest Stachelhaus code:
      ala
    Stachelhaus code match:
      50% (weak)

NZ_CP028106.1 - Region 2 - NRPS-like
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,214,002 - 1,256,506 nt. (total: 42,505 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
NRPS/PKS domains
MIBiG comparison
KnownClusterBlast
NRPS/PKS modules
Pfam domains
TIGRFAM domains
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 glossary is available here.
Selected features only
Show module domains
Similar gene clusters
Shows careas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001591.1 |  | 0.19 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.19 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001636.1 |  | 0.19 | NRP | KK-1 | Curvularia clavata
BGC0001343.1 |  | 0.19 | Polyketide | aurachin A, aurachin D | Stigmatella aurantiaca Sg a15
BGC0000287.1 |  | 0.18 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001699.1 |  | 0.17 | Polyketide | nidulanin A | Aspergillus nidulans FGSC A4
BGC0001120.1 |  | 0.17 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001525.1 |  | 0.16 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0000501.1 |  | 0.16 | RiPP | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001526.1 |  | 0.16 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001591.1 |  | 0.51 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.51 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001636.1 |  | 0.51 | NRP | KK-1 | Curvularia clavata
BGC0001343.1 |  | 0.50 | Polyketide | aurachin A, aurachin D | Stigmatella aurantiaca Sg a15
BGC0000287.1 |  | 0.50 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001699.1 |  | 0.48 | Polyketide | nidulanin A | Aspergillus nidulans FGSC A4
BGC0001120.1 |  | 0.48 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001525.1 |  | 0.47 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0000501.1 |  | 0.47 | RiPP | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001526.1 |  | 0.47 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099

Similar known gene clusters
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

Module view
Shows module structures for each candidate 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.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS monomers
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 1214001 - 1256506:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS monomer predictions
Shows the predicted monomers for each adynelation 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).

ctg1_1209: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (10..412): X
  NRPSPredictor2: hydrophobic-aliphatic
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      pLFivGGPiK
    Nearest Stachelhaus code:
      ala
    Stachelhaus code match:
      60% (weak)