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Overview
1.1
1.2
1.3

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

NC_017448.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | arylpolyene | 281,595 | 325,281 | APE Ec | Other | 31%
Region 2 | terpene | 434,812 | 455,894 |
Region 3 | NRPS | 3,435,751 | 3,478,720 |

NC_017448.1 - Region 1 - arylpolyene
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: 281,595 - 325,281 nt. (total: 43,687 nt) Show pHMM detection rules used
arylpolyene: (APE_KS1 or APE_KS2)

#### 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 | arylpolyene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001538.1 |  | 0.25 | NRP, Polyketide | caboxamycin | Streptomyces sp. NTK 937
BGC0000231.1 |  | 0.24 | Polyketide | griseusin | Streptomyces griseus
BGC0001444.1 |  | 0.23 | Other | caboxamycin | Streptomyces sp. NTK 937
BGC0000228.1 |  | 0.22 | Polyketide | granaticin | Streptomyces violaceoruber
BGC0001197.1 |  | 0.22 | Polyketide | frankiamicin | Frankia sp. EAN1pec
BGC0000837.1 |  | 0.22 | Other | APE Vf | Aliivibrio fischeri ES114
BGC0000248.1 |  | 0.21 | Polyketide | naphtocyclinone | Streptomyces arenae
BGC0000889.1 |  | 0.21 | Other | bagremycin A, bagremycin B | Streptomyces sp. WK-5344
BGC0000272.1 |  | 0.21 | Polyketide | spore pigment | Streptomyces collinus
BGC0002008.1 |  | 0.20 | Other | aryl polyenes | Xenorhabdus doucetiae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001538.1 |  | 0.59 | NRP, Polyketide | caboxamycin | Streptomyces sp. NTK 937
BGC0000231.1 |  | 0.57 | Polyketide | griseusin | Streptomyces griseus
BGC0001444.1 |  | 0.56 | Other | caboxamycin | Streptomyces sp. NTK 937
BGC0000228.1 |  | 0.55 | Polyketide | granaticin | Streptomyces violaceoruber
BGC0001197.1 |  | 0.55 | Polyketide | frankiamicin | Frankia sp. EAN1pec
BGC0000837.1 |  | 0.55 | Other | APE Vf | Aliivibrio fischeri ES114
BGC0000248.1 |  | 0.54 | Polyketide | naphtocyclinone | Streptomyces arenae
BGC0000889.1 |  | 0.54 | Other | bagremycin A, bagremycin B | Streptomyces sp. WK-5344
BGC0000272.1 |  | 0.54 | Polyketide | spore pigment | Streptomyces collinus
BGC0002008.1 |  | 0.53 | Other | aryl polyenes | Xenorhabdus doucetiae

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
NC_017448.1 - 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: 434,812 - 455,894 nt. (total: 21,083 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
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
--- | --- | --- | --- | --- | ---
BGC0001839.1 |  | 0.32 | Terpene | squalestatin S1 | Aspergillus sp. Z5
BGC0000896.1 |  | 0.16 | Other | cycloserine | Streptomyces lavendulae subsp. lavendulae
BGC0001104.1 |  | 0.08 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0001941.1 |  | 0.06 | NRP, Polyketide | fulvuthiacene A, fulvuthiacene B | Myxococcus fulvus
BGC0001025.1 |  | 0.04 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0001961.1 |  | 0.04 | NRP | ashimides | Streptomyces sp.
BGC0000385.1 |  | 0.03 | NRP | lysobactin | Lysobacter sp. ATCC 53042

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001839.1 |  | 0.66 | Terpene | squalestatin S1 | Aspergillus sp. Z5
BGC0000896.1 |  | 0.46 | Other | cycloserine | Streptomyces lavendulae subsp. lavendulae
BGC0001104.1 |  | 0.31 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0001941.1 |  | 0.25 | NRP, Polyketide | fulvuthiacene A, fulvuthiacene B | Myxococcus fulvus
BGC0001025.1 |  | 0.19 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0001961.1 |  | 0.19 | NRP | ashimides | Streptomyces sp.
BGC0000385.1 |  | 0.16 | NRP | lysobactin | Lysobacter sp. ATCC 53042

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
NC_017448.1 - Region 3 - NRPS
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: 3,435,751 - 3,478,720 nt. (total: 42,970 nt) Show pHMM detection rules used
NRPS: cds(Condensation 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 | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.27 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.25 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001561.1 |  | 0.23 | NRP | curacomycin | Streptomyces curacoi
BGC0001641.1 |  | 0.21 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.1 |  | 0.20 | NRP | xenematide | Xenorhabdus nematophila AN6/1
BGC0000342.1 |  | 0.20 | NRP | enniatin | Fusarium equiseti
BGC0001220.1 |  | 0.20 | NRP | aculeacin A | Aspergillus japonicus
BGC0001168.1 |  | 0.17 | NRP | livipeptin | Streptomyces lividans 1326
BGC0001900.1 |  | 0.17 | NRP | fragin | Burkholderia cenocepacia H111
BGC0000349.1 |  | 0.16 | NRP | erythrochelin | Saccharopolyspora erythraea NRRL 2338

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.61 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.59 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001561.1 |  | 0.56 | NRP | curacomycin | Streptomyces curacoi
BGC0001641.1 |  | 0.53 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.1 |  | 0.53 | NRP | xenematide | Xenorhabdus nematophila AN6/1
BGC0000342.1 |  | 0.53 | NRP | enniatin | Fusarium equiseti
BGC0001220.1 |  | 0.52 | NRP | aculeacin A | Aspergillus japonicus
BGC0001168.1 |  | 0.48 | NRP | livipeptin | Streptomyces lividans 1326
BGC0001900.1 |  | 0.48 | NRP | fragin | Burkholderia cenocepacia H111
BGC0000349.1 |  | 0.47 | NRP | erythrochelin | Saccharopolyspora erythraea NRRL 2338

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 3435750 - 3478720:
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_2843: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (39..394): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      vGyFFGiytK
    Nearest Stachelhaus code:
      ile
    Stachelhaus code match:
      50% (weak)