Select genomic region:
Overview
1.1
1.2

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

NZ_LS483346.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | NRPS,T1PKS | 1,534,907 | 1,590,594 |
Region 2 | T3PKS | 2,093,723 | 2,134,901 |

NZ_LS483346.1 - Region 1 - NRPS,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: 1,534,907 - 1,590,594 nt. (total: 55,688 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX))
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 | NRPS | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001909.1 |  |  | 0.64 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0001399.1 |  |  | 0.61 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000099.1 |  |  | 0.60 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0000410.1 |  |  | 0.56 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001338.1 |  |  | 0.55 | Polyketide | citrinin | Monascus ruber
BGC0000027.1 |  |  | 0.55 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0001574.1 |  |  | 0.55 | NRP | diisonitrile antibiotic SF2768 | Streptomyces thioluteus
BGC0001637.1 |  |  | 0.55 | NRP | kleboxymycin | Klebsiella oxytoca
BGC0001872.1 |  |  | 0.53 | Polyketide | fabclavine-polyamine | Xenorhabdus bovienii SS-2004
BGC0001497.1 |  |  | 0.53 | Polyketide | actinonin | Streptomyces sp.

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.65 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0001399.1 |  | 0.64 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000099.1 |  | 0.64 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0000410.1 |  | 0.62 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001637.1 |  | 0.62 | NRP | kleboxymycin | Klebsiella oxytoca
BGC0001574.1 |  | 0.61 | NRP | diisonitrile antibiotic SF2768 | Streptomyces thioluteus
BGC0001338.1 |  | 0.61 | Polyketide | citrinin | Monascus ruber
BGC0000027.1 |  | 0.61 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0001497.1 |  | 0.61 | Polyketide | actinonin | Streptomyces sp.
BGC0001442.1 |  | 0.61 | NRP | actinonin | Streptomyces sp. strain ATCC 14903

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 1, location 1534906 - 1590594:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (mal - val - X) + (ser)

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_1458: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (23..442): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DMGitnaliK
    Nearest Stachelhaus code:
      val
    Stachelhaus code match:
      40% (weak)
ctg1_1464: ser
  Search NORINE for peptide: strict or relaxed
  AMP-binding (445..843): ser
  NRPSPredictor2: ser
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      ser, thr, dhpg, hpg
    Small clusters prediction:
      ser
    Single AA prediction:
      ser
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVWHISLIDK
    Nearest Stachelhaus code:
      ser
    Stachelhaus code match:
      100% (strong)
ctg1_1466: mal - val - X
  Search NORINE for peptide: strict or relaxed
  PKS_AT (605..877): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 75.0%
    Isobutyryl-CoA: 66.7%
    Methylmalonyl-CoA: 66.7%
  minowa: Malonyl-CoA
  Prediction, score:
    Malonyl-CoA: 82.7
    Methylmalonyl-CoA: 78.0
    Methoxymalonyl-CoA: 75.9
    Isobutyryl-CoA: 60.7
    Propionyl-CoA: 38.5
    Ethylmalonyl-CoA: 35.4
    inactive: 34.7
    CHC-CoA: 28.8
    Benzoyl-CoA: 28.7
    fatty_acid: 23.8
    3-Methylbutyryl-CoA: 21.6
    Acetyl-CoA: 20.6
    trans-1,2-CPDA: 19.5
    2-Methylbutyryl-CoA: 18.4
  AMP-binding (1514..1892): val
  NRPSPredictor2: val
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      phe, trp
    Single AA prediction:
      val
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAFTVAAiwK
    Nearest Stachelhaus code:
      phe
    Stachelhaus code match:
      80% (moderate)
  AMP-binding (2561..2924): 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:
      DPRnfGyqGK
    Nearest Stachelhaus code:
      glu
    Stachelhaus code match:
      60% (weak)

NZ_LS483346.1 - Region 2 - 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: 2,093,723 - 2,134,901 nt. (total: 41,179 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
NRPS/PKS domains
MIBiG comparison
KnownClusterBlast
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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000286.1 |  | 0.18 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0000255.1 |  | 0.17 | Polyketide | pederin | Uncultured bacterium
BGC0000205.1 |  | 0.16 | Polyketide | bryostatin | Candidatus Endobugula sertula
BGC0001080.1 |  | 0.13 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0001076.1 |  | 0.13 | Other (Nucleoside) | liposidomycin B, liposidomycin A, liposidomycin C, liposidomycin Z, liposidomycin H, liposidomycin G, liposidomycin L, liposidomycin M, liposidomycin K, liposidomycin N | Streptomyces sp. SN-1061M
BGC0001104.1 |  | 0.13 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0000872.1 |  | 0.13 | Other | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405
BGC0001078.1 |  | 0.12 | Terpene, Polyketide | furaquinocin B | Streptomyces sp. KO-3988
BGC0000679.1 |  | 0.11 | Terpene | diazepinomicin | Micromonospora sp. M42
BGC0000934.1 |  | 0.11 | Other (Phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000286.1 |  | 0.49 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0000255.1 |  | 0.48 | Polyketide | pederin | Uncultured bacterium
BGC0000205.1 |  | 0.46 | Polyketide | bryostatin | Candidatus Endobugula sertula
BGC0001080.1 |  | 0.41 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0001076.1 |  | 0.41 | Other (Nucleoside) | liposidomycin B, liposidomycin A, liposidomycin C, liposidomycin Z, liposidomycin H, liposidomycin G, liposidomycin L, liposidomycin M, liposidomycin K, liposidomycin N | Streptomyces sp. SN-1061M
BGC0001104.1 |  | 0.41 | NRP, Polyketide | myxovirescin A1 | Myxococcus xanthus DK 1622
BGC0000872.1 |  | 0.41 | Other | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405
BGC0001078.1 |  | 0.39 | Terpene, Polyketide | furaquinocin B | Streptomyces sp. KO-3988
BGC0000679.1 |  | 0.39 | Terpene | diazepinomicin | Micromonospora sp. M42
BGC0000934.1 |  | 0.38 | Other (Phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714

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