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Overview
1.1
1.2
1.3

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

NZ_CP068162.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 10,352 | 31,149 |
Region 1.2 | T1PKS | 270,131 | 314,753 |
Region 1.3 | NRPS | 2,321,570 | 2,376,917 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene | 10,352 | 31,149 |
Region 1.2 | T1PKS | 270,131 | 314,753 |
Region 1.3 | NRPS | 2,321,570 | 2,376,917 |

No secondary metabolite regions were found in these records:
  NZ_CP068163.1

Compact view
NZ_CP068162.1 - 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: 10,352 - 31,149 nt. (total: 20,798 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
--- | --- | --- | --- | --- | ---
BGC0000650.1 |  | 0.22 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0001579.1 |  | 0.16 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000563.1 |  | 0.16 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0000616.1 |  | 0.16 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000486.1 |  | 0.16 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0001684.1 |  | 0.15 | Other | N-acyloxyacyl glutamine | Klebsiella variicola
BGC0000643.1 |  | 0.15 | Terpene | carotenoid | Brevundimonas vesicularis
BGC0000243.1 |  | 0.14 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0001514.1 |  | 0.14 | Other | aristeromycin | Streptomyces citricolor
BGC0001887.1 |  | 0.14 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000650.1 |  | 0.55 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0001579.1 |  | 0.47 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000563.1 |  | 0.47 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0000616.1 |  | 0.46 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000486.1 |  | 0.46 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0001684.1 |  | 0.45 | Other | N-acyloxyacyl glutamine | Klebsiella variicola
BGC0000643.1 |  | 0.44 | Terpene | carotenoid | Brevundimonas vesicularis
BGC0000243.1 |  | 0.44 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0001514.1 |  | 0.44 | Other | aristeromycin | Streptomyces citricolor
BGC0001887.1 |  | 0.43 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1

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_CP068162.1 - Region 2 - T1PKS
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: 270,131 - 314,753 nt. (total: 44,623 nt) Show pHMM detection rules used
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

#### 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.32 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0000099.1 |  | 0.26 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0000027.1 |  | 0.25 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0001338.1 |  | 0.25 | Polyketide | citrinin | Monascus ruber
BGC0001831.1 |  | 0.24 | Polyketide | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0000154.1 |  | 0.24 | Polyketide | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0001163.1 |  | 0.23 | Polyketide | 1-heptadecene | Moorea producens 3L
BGC0001162.1 |  | 0.23 | Polyketide | 1-heptadecene | Moorea producens JHB
BGC0001161.1 |  | 0.23 | Polyketide | 1-heptadecene | Moorea bouillonii PNG
BGC0000862.1 |  | 0.23 | Other | eicosapentaenoic acid | Shewanella pneumatophori

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.66 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0000099.1 |  | 0.60 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0000027.1 |  | 0.58 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0001338.1 |  | 0.58 | Polyketide | citrinin | Monascus ruber
BGC0001831.1 |  | 0.58 | Polyketide | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0000154.1 |  | 0.57 | Polyketide | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0001163.1 |  | 0.57 | Polyketide | 1-heptadecene | Moorea producens 3L
BGC0001162.1 |  | 0.56 | Polyketide | 1-heptadecene | Moorea producens JHB
BGC0001161.1 |  | 0.56 | Polyketide | 1-heptadecene | Moorea bouillonii PNG
BGC0000862.1 |  | 0.56 | Other | eicosapentaenoic acid | Shewanella pneumatophori

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 270130 - 314753:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (mal)

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_272: pk
  CAL_domain (69..517): pk
  minowa: NH2
  Prediction, score:
    NH2: 48.7
    Acetyl-CoA: 23.1
    AHBA: 14.2
    shikimic_acid: 0.0
    fatty_acid: 0.0
ctg1_273: mal
  PKS_AT (620..897): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 62.5%
  minowa: fatty_acid
  Prediction, score:
    fatty_acid: 105.4
    Methylmalonyl-CoA: 61.2
    Methoxymalonyl-CoA: 60.1
    Malonyl-CoA: 51.3
    Ethylmalonyl-CoA: 36.4
    Acetyl-CoA: 34.5
    Propionyl-CoA: 33.4
    trans-1,2-CPDA: 31.4
    2-Methylbutyryl-CoA: 29.6
    Isobutyryl-CoA: 27.5
    CHC-CoA: 24.3
    inactive: 13.5
    Benzoyl-CoA: 7.7
    3-Methylbutyryl-CoA: 0.0

NZ_CP068162.1 - 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: 2,321,570 - 2,376,917 nt. (total: 55,348 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
--- | --- | --- | --- | --- | ---
BGC0000389.1 |  | 0.26 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0000412.1 |  | 0.24 | NRP | pyochelin | Pseudomonas aeruginosa PAO1
BGC0001636.1 |  | 0.22 | NRP | KK-1 | Curvularia clavata
BGC0001699.1 |  | 0.21 | Polyketide | nidulanin A | Aspergillus nidulans FGSC A4
BGC0000287.1 |  | 0.21 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001657.1 |  | 0.21 | NRP | lysocin | Lysobacter sp. RH2180-5
BGC0000347.1 |  | 0.21 | NRP | equibactin | Streptococcus equi subsp. equi
BGC0000449.1 |  | 0.21 | NRP | tridecaptin | Paenibacillus terrae
BGC0001758.1 |  | 0.21 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0000351.1 |  | 0.21 | NRP | exochelin | Mycolicibacterium smegmatis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000389.1 |  | 0.59 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0000412.1 |  | 0.58 | NRP | pyochelin | Pseudomonas aeruginosa PAO1
BGC0001636.1 |  | 0.55 | NRP | KK-1 | Curvularia clavata
BGC0001699.1 |  | 0.54 | Polyketide | nidulanin A | Aspergillus nidulans FGSC A4
BGC0000287.1 |  | 0.54 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001657.1 |  | 0.54 | NRP | lysocin | Lysobacter sp. RH2180-5
BGC0000347.1 |  | 0.54 | NRP | equibactin | Streptococcus equi subsp. equi
BGC0000449.1 |  | 0.53 | NRP | tridecaptin | Paenibacillus terrae
BGC0001758.1 |  | 0.53 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0000351.1 |  | 0.53 | NRP | exochelin | Mycolicibacterium smegmatis

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 2321569 - 2376917:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Me-cys) + (cys - cys)

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_2085: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (528..922): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLYNMSlIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
ctg1_2087: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (32..437): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      dhb, sal
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      alpaIGGTtK
    Nearest Stachelhaus code:
      val
    Stachelhaus code match:
      50% (weak)
ctg1_2088: cys - cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (559..948): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLYNLSmIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (1949..2344): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLYNLSaIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)