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Overview
1.1
1.2

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

NZ_CP028103.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | RiPP-like | 2,701,183 | 2,711,968 |
Region 1.2 | NRPS-like | 3,232,906 | 3,279,714 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | RiPP-like | 2,701,183 | 2,711,968 |
Region 1.2 | NRPS-like | 3,232,906 | 3,279,714 |

No secondary metabolite regions were found in these records:
  NZ_CP028104.1

Compact view
NZ_CP028103.1 - 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: 2,701,183 - 2,711,968 nt. (total: 10,786 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)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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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
MIBiG comparison
KnownClusterBlast
Pfam domains
TIGRFAM 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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001484.1 |  | 0.13 | Other | 2'-chloropentostatin, 2'-amino-2'-deoxyadenosine | Actinomadura sp. ATCC 39365
BGC0000936.1 |  | 0.12 | Other | pyocyanine | Pseudomonas aeruginosa PAO1
BGC0000863.1 |  | 0.09 | Other | eicosapentaenoic acid | Pseudoalteromonas sp. DS-12
BGC0000934.1 |  | 0.08 | Other (Phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714
BGC0001221.1 |  | 0.08 | Other (Phenazine) | marinophenazine A, phenaziterpene A | Streptomyces sp. CNQ-509
BGC0001080.1 |  | 0.07 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001484.1 |  | 0.42 | Other | 2'-chloropentostatin, 2'-amino-2'-deoxyadenosine | Actinomadura sp. ATCC 39365
BGC0000936.1 |  | 0.39 | Other | pyocyanine | Pseudomonas aeruginosa PAO1
BGC0000863.1 |  | 0.32 | Other | eicosapentaenoic acid | Pseudoalteromonas sp. DS-12
BGC0000934.1 |  | 0.31 | Other (Phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714
BGC0001221.1 |  | 0.31 | Other (Phenazine) | marinophenazine A, phenaziterpene A | Streptomyces sp. CNQ-509
BGC0001080.1 |  | 0.28 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus

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.

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
NZ_CP028103.1 - 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: 3,232,906 - 3,279,714 nt. (total: 46,809 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 | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000228.1 |  |  | 0.45 | Polyketide | granaticin | Streptomyces violaceoruber
BGC0000679.1 |  |  | 0.39 | Terpene | diazepinomicin | Micromonospora sp. M42
BGC0001897.1 |  |  | 0.38 | Polyketide | cepacin A | Burkholderia ambifaria IOP40-10
BGC0001575.1 |  |  | 0.38 | NRP | dipeptide aldehydes | Ruminococcus sp. 5_1_39BFAA
BGC0001185.1 |  |  | 0.37 | NRP | bacillibactin | Bacillus velezensis FZB42
BGC0000507.1 |  |  | 0.37 | RiPP | epicidin | Staphylococcus epidermidis
BGC0000509.1 |  |  | 0.36 | RiPP | epilancin 15x | Staphylococcus epidermidis
BGC0001848.1 |  |  | 0.36 | Other | diazaquinomycin H, diazaquinomycin J | Micromonospora sp. B006
BGC0001615.1 |  |  | 0.35 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10
BGC0000401.1 |  |  | 0.35 | NRP | paenibactin | Paenibacillus elgii B69

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000228.1 |  | 0.56 | Polyketide | granaticin | Streptomyces violaceoruber
BGC0001897.1 |  | 0.52 | Polyketide | cepacin A | Burkholderia ambifaria IOP40-10
BGC0001575.1 |  | 0.52 | NRP | dipeptide aldehydes | Ruminococcus sp. 5_1_39BFAA
BGC0000679.1 |  | 0.52 | Terpene | diazepinomicin | Micromonospora sp. M42
BGC0000509.1 |  | 0.51 | RiPP | epilancin 15x | Staphylococcus epidermidis
BGC0001185.1 |  | 0.50 | NRP | bacillibactin | Bacillus velezensis FZB42
BGC0000507.1 |  | 0.50 | RiPP | epicidin | Staphylococcus epidermidis
BGC0001848.1 |  | 0.49 | Other | diazaquinomycin H, diazaquinomycin J | Micromonospora sp. B006
BGC0002000.1 |  | 0.49 | Polyketide | setomimycin | Streptomyces aurantiacus JA 4570
BGC0001615.1 |  | 0.49 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10

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 3232905 - 3279714:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 3232905 - 3274665:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 3237212 - 3279714:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X) + (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_2938: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (6..406): 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)
ctg1_2941: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (7..408): 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:
      pLiiaGGPiK
    Nearest Stachelhaus code:
      ala
    Stachelhaus code match:
      50% (weak)