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Overview
1.1
1.2

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

NZ_AP019823.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | T3PKS | 1,463,715 | 1,504,926 |
Region 1.2 | NRPS-like | 2,285,578 | 2,328,058 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | T3PKS | 1,463,715 | 1,504,926 |
Region 1.2 | NRPS-like | 2,285,578 | 2,328,058 |

No secondary metabolite regions were found in these records:
  NZ_AP019824.1
  NZ_AP019825.1
  NZ_AP019826.1

Compact view
NZ_AP019823.1 - Region 1 - T3PKS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,463,715 - 1,504,926 nt. (total: 41,212 nt) Show pHMM detection rules used
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001361.1 |  | 0.25 | Terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0000286.1 |  | 0.19 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0001594.1 |  | 0.18 | Alkaloid | fischerindole L | Fischerella muscicola UTEX 1829
BGC0001525.1 |  | 0.17 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001526.1 |  | 0.17 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000774.1 |  | 0.16 | Saccharide | lipopolysaccharide | Xanthomonas campestris pv. campestris
BGC0000500.1 |  | 0.16 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000554.1 |  | 0.16 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000558.1 |  | 0.16 | RiPP | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000504.1 |  | 0.16 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001361.1 |  | 0.58 | Terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0000286.1 |  | 0.51 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0001594.1 |  | 0.50 | Alkaloid | fischerindole L | Fischerella muscicola UTEX 1829
BGC0001525.1 |  | 0.48 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001526.1 |  | 0.48 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000774.1 |  | 0.47 | Saccharide | lipopolysaccharide | Xanthomonas campestris pv. campestris
BGC0000500.1 |  | 0.47 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000554.1 |  | 0.47 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000558.1 |  | 0.46 | RiPP | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000504.1 |  | 0.46 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1

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_AP019823.1 - 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: 2,285,578 - 2,328,058 nt. (total: 42,481 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
--- | --- | --- | --- | --- | ---
BGC0000410.1 |  | 0.20 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0000851.1 |  | 0.16 | Other | albonoursin | Streptomyces noursei ATCC 11455
BGC0001579.1 |  | 0.16 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000486.1 |  | 0.16 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000600.1 |  | 0.16 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001222.1 |  | 0.16 | RiPP | acidocin B | Lactobacillus acidophilus
BGC0000539.1 |  | 0.16 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000491.1 |  | 0.16 | RiPP | gassericin A | Lactobacillus gasseri
BGC0000521.1 |  | 0.16 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0001660.1 |  | 0.16 | RiPP | mathermycin | Marinactinospora thermotolerans

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000410.1 |  | 0.52 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0000851.1 |  | 0.47 | Other | albonoursin | Streptomyces noursei ATCC 11455
BGC0001579.1 |  | 0.47 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000486.1 |  | 0.46 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000600.1 |  | 0.46 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001222.1 |  | 0.46 | RiPP | acidocin B | Lactobacillus acidophilus
BGC0000539.1 |  | 0.46 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000491.1 |  | 0.46 | RiPP | gassericin A | Lactobacillus gasseri
BGC0000521.1 |  | 0.46 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0001660.1 |  | 0.46 | RiPP | mathermycin | Marinactinospora thermotolerans

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 2285577 - 2328058:
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_2167: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (5..415): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      vlaIVGgpVK
    Nearest Stachelhaus code:
      lys-b
    Stachelhaus code match:
      50% (weak)