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Overview
1.1
1.2
1.3

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

NZ_CP008889.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | RiPP-like | 324,695 | 335,567 | asukamycin | Polyketide:Type II | 4%
Region 1.2 | terpene | 493,595 | 514,554 | carotenoid | Terpene | 21%
Region 1.3 | NAPAA | 566,786 | 600,961 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | RiPP-like | 324,695 | 335,567 | asukamycin | Polyketide:Type II | 4%
Region 1.2 | terpene | 493,595 | 514,554 | carotenoid | Terpene | 21%
Region 1.3 | NAPAA | 566,786 | 600,961 |

No secondary metabolite regions were found in these records:
  NZ_CP008890.1

Compact view
NZ_CP008889.1 - 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: 324,695 - 335,567 nt. (total: 10,873 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
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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000703.1 |  | 0.15 | Saccharide | kanamycin | Streptomyces kanamyceticus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000703.1 |  | 0.45 | Saccharide | kanamycin | Streptomyces kanamyceticus

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_CP008889.1 - Region 2 - 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: 493,595 - 514,554 nt. (total: 20,960 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
--- | --- | --- | --- | --- | ---
BGC0000646.1 |  | 0.20 | Terpene | β-carotein | uncultured bacterium
BGC0000648.1 |  | 0.20 | Terpene | carotenoid | Myxococcus xanthus
BGC0000640.1 |  | 0.19 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000664.1 |  | 0.18 | Terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000639.1 |  | 0.18 | Terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000641.1 |  | 0.18 | Terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000644.1 |  | 0.17 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0001903.1 |  | 0.17 | Other | neocarazostatin A | Streptomyces sp. MA37
BGC0000637.1 |  | 0.17 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0001911.1 |  | 0.17 | Terpene | raimonol | Streptomyces anulatus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000646.1 |  | 0.53 | Terpene | β-carotein | uncultured bacterium
BGC0000648.1 |  | 0.53 | Terpene | carotenoid | Myxococcus xanthus
BGC0000640.1 |  | 0.51 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000664.1 |  | 0.50 | Terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000639.1 |  | 0.50 | Terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000641.1 |  | 0.49 | Terpene | carotenoid | Enterobacteriaceae bacterium DC416
BGC0000644.1 |  | 0.49 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0001903.1 |  | 0.48 | Other | neocarazostatin A | Streptomyces sp. MA37
BGC0000637.1 |  | 0.48 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0001911.1 |  | 0.48 | Terpene | raimonol | 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.
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_CP008889.1 - Region 3 - NAPAA
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: 566,786 - 600,961 nt. (total: 34,176 nt) Show pHMM detection rules used
NAPAA: (AMP-binding and PP-binding and TIGR02353)

#### 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 | NAPAA | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.21 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001399.1 |  | 0.20 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001120.1 |  | 0.18 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001641.1 |  | 0.18 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001900.1 |  | 0.18 | NRP | fragin | Burkholderia cenocepacia H111
BGC0001758.1 |  | 0.18 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001168.1 |  | 0.18 | NRP | livipeptin | Streptomyces lividans 1326
BGC0001479.1 |  | 0.18 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001135.1 |  | 0.18 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001844.1 |  | 0.18 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.53 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001399.1 |  | 0.53 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001120.1 |  | 0.50 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001641.1 |  | 0.50 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001900.1 |  | 0.50 | NRP | fragin | Burkholderia cenocepacia H111
BGC0001758.1 |  | 0.49 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001168.1 |  | 0.49 | NRP | livipeptin | Streptomyces lividans 1326
BGC0001479.1 |  | 0.49 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001135.1 |  | 0.49 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001844.1 |  | 0.49 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454

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 3, location 566785 - 600961:
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_535: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (47..426): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAESIGtVvK
    Nearest Stachelhaus code:
      lys
    Stachelhaus code match:
      80% (moderate)