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Overview
1.1
1.2

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

NZ_CP065670.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 2,044,467 | 2,072,571 | zeaxanthin | Terpene | 100%
Region 1.2 | NRPS-like | 2,177,518 | 2,220,046 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 2,044,467 | 2,072,571 | zeaxanthin | Terpene | 100%
Region 1.2 | NRPS-like | 2,177,518 | 2,220,046 |

No secondary metabolite regions were found in these records:
  NZ_CP065669.1
  NZ_CP065671.1
  NZ_CP065672.1

Compact view
NZ_CP065670.1 - 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: 2,044,467 - 2,072,571 nt. (total: 28,105 nt) Show pHMM detection rules used
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000656.1 |  | 0.41 | Terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0000647.1 |  | 0.35 | Terpene | carotenoid | Rhodobacter sphaeroides
BGC0000640.1 |  | 0.28 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000630.1 |  | 0.28 | Terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000641.1 |  | 0.25 | Terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000639.1 |  | 0.25 | Terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000638.1 |  | 0.25 | Terpene | carotenoid | Pantoea ananatis
BGC0000645.1 |  | 0.24 | Terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000646.1 |  | 0.24 | Terpene | β-carotein | uncultured bacterium
BGC0000642.1 |  | 0.24 | Terpene | carotenoid | Enterobacteriaceae bacterium DC413

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000656.1 |  | 0.72 | Terpene | zeaxanthin | Xanthobacter autotrophicus Py2
BGC0000647.1 |  | 0.68 | Terpene | carotenoid | Rhodobacter sphaeroides
BGC0000640.1 |  | 0.62 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000630.1 |  | 0.62 | Terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000641.1 |  | 0.58 | Terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000639.1 |  | 0.58 | Terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000638.1 |  | 0.58 | Terpene | carotenoid | Pantoea ananatis
BGC0000645.1 |  | 0.58 | Terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000646.1 |  | 0.57 | Terpene | β-carotein | uncultured bacterium
BGC0000642.1 |  | 0.57 | Terpene | carotenoid | Enterobacteriaceae bacterium DC413

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.
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_CP065670.1 - 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: 2,177,518 - 2,220,046 nt. (total: 42,529 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
TTA codons
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
--- | --- | --- | --- | --- | ---
BGC0000957.1 |  | 0.23 | NRP, Polyketide | mycotrienin I | Streptomyces sp. XZQH13
BGC0000375.1 |  | 0.22 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.21 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000343.1 |  | 0.21 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001399.1 |  | 0.21 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001844.1 |  | 0.19 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.19 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.1 |  | 0.19 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001767.1 |  | 0.19 | NRP | salinichelins | Salinispora pacifica CNY331
BGC0001132.1 |  | 0.19 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000957.1 |  | 0.56 | NRP, Polyketide | mycotrienin I | Streptomyces sp. XZQH13
BGC0000375.1 |  | 0.55 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.54 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000343.1 |  | 0.54 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001399.1 |  | 0.54 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001844.1 |  | 0.51 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.51 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.1 |  | 0.51 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001767.1 |  | 0.51 | NRP | salinichelins | Salinispora pacifica CNY331
BGC0001132.1 |  | 0.51 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

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 2177517 - 2220046:
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_2014: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (22..409): X
  NRPSPredictor2: val, leu, ile, abu, iva
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      val, leu, ile, abu, iva
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DlpQLGiVWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      70% (weak)