Select genomic region:
Overview
1.1
1.2
1.3
2.1
3.1
14.1

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

NZ_JHYF01000001 (original name was: NZ_JHYF01000001.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 52,073 | 73,696 |
Region 1.2 | transAT-PKS,NRPS-like,NRPS | 131,825 | 199,455 | chondrochloren A | NRP + Polyketide:Modular type I | 22%
Region 1.3 | NRPS | 227,319 | 302,594 |

NZ_JHYF01000002 (original name was: NZ_JHYF01000002.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 2.1 | RiPP-like | 13,872 | 24,708 |

NZ_JHYF01000003 (original name was: NZ_JHYF01000003.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 3.1 | resorcinol | 83,950 | 125,062 | S-layer glycan | Saccharide | 20%

NZ_JHYF01000017 (original name was: NZ_JHYF01000017.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 14.1 | NRPS | 17,740 | 88,588 | zwittermicin A | NRP + Polyketide | 7%

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 52,073 | 73,696 |
Region 1.2 | transAT-PKS,NRPS-like,NRPS | 131,825 | 199,455 | chondrochloren A | NRP + Polyketide:Modular type I | 22%
Region 1.3 | NRPS | 227,319 | 302,594 |
Region 2.1 | RiPP-like | 13,872 | 24,708 |
Region 3.1 | resorcinol | 83,950 | 125,062 | S-layer glycan | Saccharide | 20%
Region 14.1 | NRPS | 17,740 | 88,588 | zwittermicin A | NRP + Polyketide | 7%

No secondary metabolite regions were found in these records:
  NZ_KK211286.1
  NZ_JHYF01000006 (original name was: NZ_JHYF01000006.1)
  NZ_KK211287.1
  NZ_JHYF01000009 (original name was: NZ_JHYF01000009.1)
  NZ_KK211288.1
  NZ_JHYF01000012 (original name was: NZ_JHYF01000012.1)
  NZ_JHYF01000013 (original name was: NZ_JHYF01000013.1)
  NZ_JHYF01000014 (original name was: NZ_JHYF01000014.1)
  NZ_JHYF01000015 (original name was: NZ_JHYF01000015.1)
  NZ_JHYF01000016 (original name was: NZ_JHYF01000016.1)
  NZ_JHYF01000018 (original name was: NZ_JHYF01000018.1)
  NZ_JHYF01000019 (original name was: NZ_JHYF01000019.1)
  NZ_JHYF01000020 (original name was: NZ_JHYF01000020.1)
  NZ_JHYF01000021 (original name was: NZ_JHYF01000021.1)
  NZ_JHYF01000022 (original name was: NZ_JHYF01000022.1)
  NZ_JHYF01000023 (original name was: NZ_JHYF01000023.1)
  NZ_JHYF01000024 (original name was: NZ_JHYF01000024.1)
  NZ_JHYF01000025 (original name was: NZ_JHYF01000025.1)
  NZ_JHYF01000026 (original name was: NZ_JHYF01000026.1)
  NZ_JHYF01000027 (original name was: NZ_JHYF01000027.1)
  NZ_JHYF01000028 (original name was: NZ_JHYF01000028.1)
  NZ_JHYF01000029 (original name was: NZ_JHYF01000029.1)
  NZ_JHYF01000030 (original name was: NZ_JHYF01000030.1)
  NZ_JHYF01000031 (original name was: NZ_JHYF01000031.1)
  NZ_JHYF01000032 (original name was: NZ_JHYF01000032.1)
  NZ_JHYF01000033 (original name was: NZ_JHYF01000033.1)
  NZ_JHYF01000034 (original name was: NZ_JHYF01000034.1)
  NZ_JHYF01000035 (original name was: NZ_JHYF01000035.1)
  NZ_JHYF01000036 (original name was: NZ_JHYF01000036.1)
  NZ_JHYF01000037 (original name was: NZ_JHYF01000037.1)
  NZ_JHYF01000038 (original name was: NZ_JHYF01000038.1)
  NZ_JHYF01000039 (original name was: NZ_JHYF01000039.1)
  NZ_JHYF01000040 (original name was: NZ_JHYF01000040.1)
  NZ_JHYF01000041 (original name was: NZ_JHYF01000041.1)
  NZ_JHYF01000042 (original name was: NZ_JHYF01000042.1)
  NZ_JHYF01000043 (original name was: NZ_JHYF01000043.1)
  NZ_JHYF01000044 (original name was: NZ_JHYF01000044.1)
  NZ_JHYF01000045 (original name was: NZ_JHYF01000045.1)
  NZ_JHYF01000046 (original name was: NZ_JHYF01000046.1)
  NZ_JHYF01000047 (original name was: NZ_JHYF01000047.1)

Compact view
c00001_NZ_JHYF.. - Region 1 - ranthipeptide
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: 52,073 - 73,696 nt. (total: 21,624 nt) Show pHMM detection rules used
ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or YcaO or TIGR03882)))

#### 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 | ranthipeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.18 | Other | nucleocidin | Streptomyces calvus
BGC0000695.1 |  | 0.09 | Saccharide | fortimicin | Micromonospora olivasterospora
BGC0001935.1 |  | 0.07 | Other | 3,7-dihydroxytropolone | Streptomyces cyaneofuscatus
BGC0001487.1 |  | 0.07 | Other | 3,7-dihydroxytropolone | Streptomyces cyaneofuscatus
BGC0001943.1 |  | 0.04 | NRP | vioprolides A, vioprolides B, vioprolides C, vioprolides D | Cystobacter sp.
BGC0001822.1 |  | 0.04 | NRP | vioprolide A | Cystobacter sp.
BGC0001704.1 |  | 0.04 | Other | nocuolin A | Nodularia sp. HBU26
BGC0001358.1 |  | 0.03 | Polyketide | leucinostatin A, leucinostatin B | Purpureocillium lilacinum
BGC0001591.1 |  | 0.03 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.03 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.49 | Other | nucleocidin | Streptomyces calvus
BGC0000695.1 |  | 0.32 | Saccharide | fortimicin | Micromonospora olivasterospora
BGC0001935.1 |  | 0.27 | Other | 3,7-dihydroxytropolone | Streptomyces cyaneofuscatus
BGC0001487.1 |  | 0.27 | Other | 3,7-dihydroxytropolone | Streptomyces cyaneofuscatus
BGC0001943.1 |  | 0.19 | NRP | vioprolides A, vioprolides B, vioprolides C, vioprolides D | Cystobacter sp.
BGC0001822.1 |  | 0.19 | NRP | vioprolide A | Cystobacter sp.
BGC0001704.1 |  | 0.18 | Other | nocuolin A | Nodularia sp. HBU26
BGC0001358.1 |  | 0.17 | Polyketide | leucinostatin A, leucinostatin B | Purpureocillium lilacinum
BGC0001591.1 |  | 0.16 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.16 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2

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
c00001_NZ_JHYF.. - Region 2 - NRPS,NRPS-like,transAT-PKS
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: 131,825 - 199,455 nt. (total: 67,631 nt) Show pHMM detection rules used
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))
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 | transAT-PKS | NRPS-like | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | ---
BGC0001909.1 |  |  |  | 0.95 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0001831.1 |  |  |  | 0.68 | Polyketide | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0001264.1 |  |  |  | 0.59 | Polyketide | betaenone A, betaenone B, betaenone C | Phoma betae
BGC0001280.1 |  |  |  | 0.59 | Polyketide | betaenone C, betaenone A | Phoma betae
BGC0001524.1 |  |  |  | 0.59 | NRP, Polyketide | barnesin A | Sulfurospirillum barnesii SES-3
BGC0001203.1 |  |  |  | 0.59 | NRP, Polyketide | clarexpoxcin | uncultured bacterium AR_456
BGC0001897.1 |  |  |  | 0.59 | Polyketide | cepacin A | Burkholderia ambifaria IOP40-10
BGC0001458.1 |  |  |  | 0.58 | Other (Aminocoumarin) | salinipostin G | Salinispora tropica CNB-440
BGC0001161.1 |  |  |  | 0.58 | Polyketide | 1-heptadecene | Moorea bouillonii PNG
BGC0000999.1 |  |  |  | 0.58 | NRP, Polyketide | heat-stable antifungal factor | Lysobacter enzymogenes

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.65 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0001796.1 |  | 0.63 | NRP | tauramamide | Brevibacillus laterosporus DSM 25
BGC0001671.1 |  | 0.62 | NRP | monobactam | Agrobacterium tumefaciens
BGC0001502.1 |  | 0.61 | NRP | amonabactin P 750 | Aeromonas hydrophila subsp. hydrophila ATCC 7966
BGC0000349.1 |  | 0.61 | NRP | erythrochelin | Saccharopolyspora erythraea NRRL 2338
BGC0000297.1 |  | 0.60 | NRP, Polyketide, Saccharide | aeruginoside 126B, aeruginoside 126A | Planktothrix agardhii NIVA-CYA 126
BGC0001479.1 |  | 0.60 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000298.1 |  | 0.59 | NRP | aeruginosin 98-A, aeruginosin 98-B, aeruginosin 98-C | Microcystis aeruginosa NIES-98
BGC0000426.1 |  | 0.58 | NRP | sevadicin | Paenibacillus larvae
BGC0000335.1 |  | 0.58 | NRP | cystomanamide A, cystomanamide B, cystomanamide C, cystomanamide D | Cystobacter fuscus

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.
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 131824 - 199455:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-ile - D-phe - lys)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 131824 - 177000:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-ile - D-phe - lys)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 142369 - 199455:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-ile - D-phe - lys)

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_145: pk
  CAL_domain (33..475): pk
  minowa: fatty_acid
  Prediction, score:
    fatty_acid: 218.5
    NH2: 18.8
    shikimic_acid: 0.0
    Acetyl-CoA: 0.0
    AHBA: 0.0
ctg1_146: mal
  PKS_AT (39..321): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 66.7%
    inactive: 58.3%
    2-Rhyd-Malonyl-CoA: 54.2%
  minowa: Malonyl-CoA
  Prediction, score:
    Malonyl-CoA: 67.6
    inactive: 35.1
    Methoxymalonyl-CoA: 20.4
    Methylmalonyl-CoA: 14.6
    Propionyl-CoA: 10.5
    trans-1,2-CPDA: 0.0
    fatty_acid: 0.0
    Isobutyryl-CoA: 0.0
    Ethylmalonyl-CoA: 0.0
    CHC-CoA: 0.0
    Benzoyl-CoA: 0.0
    Acetyl-CoA: 0.0
    3-Methylbutyryl-CoA: 0.0
    2-Methylbutyryl-CoA: 0.0
ctg1_152: ile - phe - lys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (1873..2268): ile
  NRPSPredictor2: ile
  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:
      ile
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DGFFLGVVYK
    Nearest Stachelhaus code:
      ile
    Stachelhaus code match:
      100% (strong)
  AMP-binding (3391..3780): phe
  NRPSPredictor2: phe
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aromatic
    Large clusters prediction:
      phe, trp, phg, tyr, bht
    Small clusters prediction:
      phe, trp
    Single AA prediction:
      phe
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAWTIAAICK
    Nearest Stachelhaus code:
      phe
    Stachelhaus code match:
      100% (strong)
  AMP-binding (4900..5290): lys
  NRPSPredictor2: lys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      orn, lys, arg
    Small clusters prediction:
      N/A
    Single AA prediction:
      lys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DtESIGSVCK
    Nearest Stachelhaus code:
      lys
    Stachelhaus code match:
      90% (moderate)

c00001_NZ_JHYF.. - 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: 227,319 - 302,594 nt. (total: 75,276 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
--- | --- | --- | --- | --- | ---
BGC0001050.1 |  | 0.39 | NRP, Polyketide | thalassospiramide A | Tistrella bauzanensis
BGC0000427.1 |  | 0.35 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001479.1 |  | 0.35 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000426.1 |  | 0.34 | NRP | sevadicin | Paenibacillus larvae
BGC0001615.1 |  | 0.33 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10
BGC0001135.1 |  | 0.33 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001833.1 |  | 0.33 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.1 |  | 0.32 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.1 |  | 0.32 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0000389.1 |  | 0.32 | NRP | massetolide A | Pseudomonas fluorescens SS101

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001050.1 |  | 0.71 | NRP, Polyketide | thalassospiramide A | Tistrella bauzanensis
BGC0000427.1 |  | 0.68 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001479.1 |  | 0.68 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000426.1 |  | 0.67 | NRP | sevadicin | Paenibacillus larvae
BGC0001615.1 |  | 0.66 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10
BGC0001135.1 |  | 0.66 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001833.1 |  | 0.66 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.1 |  | 0.66 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.1 |  | 0.65 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0000389.1 |  | 0.65 | NRP | massetolide A | Pseudomonas fluorescens SS101

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 5, location 227318 - 302594:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (his) + (mal) + (X - X) + (D-asn - leu - ile - 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_221: his
  Search NORINE for peptide: strict or relaxed
  AMP-binding (465..858): his
  NRPSPredictor2: his
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      phe, trp, phg, tyr, bht
    Small clusters prediction:
      tyr, bht
    Single AA prediction:
      tyr
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DSELTAEVCK
    Nearest Stachelhaus code:
      his
    Stachelhaus code match:
      100% (strong)
ctg1_223: X - X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (276..685): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVtaFGyIyK
    Nearest Stachelhaus code:
      glu
    Stachelhaus code match:
      60% (weak)
  AMP-binding (1327..1723): X
  NRPSPredictor2: phe, trp, phg, tyr, bht
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      phe, trp, phg, tyr, bht
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DgfLVgIiCK
    Nearest Stachelhaus code:
      4ppro
    Stachelhaus code match:
      60% (weak)
ctg1_230: asn - leu - ile - X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (897..1291): asn
  NRPSPredictor2: asn
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      asp, asn
    Single AA prediction:
      asn
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLTKIGEVGK
    Nearest Stachelhaus code:
      asn
    Stachelhaus code match:
      100% (strong)
  AMP-binding (2408..2790): leu
  NRPSPredictor2: leu
  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:
      leu
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAWyLGNVVK
    Nearest Stachelhaus code:
      leu
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (3434..3828): ile
  NRPSPredictor2: ile
  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:
      ile
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DGFFLGVVYK
    Nearest Stachelhaus code:
      ile
    Stachelhaus code match:
      100% (strong)
  AMP-binding (4473..4862): X
  NRPSPredictor2: orn, lys, arg
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      orn, lys, arg
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVeqtGhVDK
    Nearest Stachelhaus code:
      orn
    Stachelhaus code match:
      60% (weak)

c00002_NZ_JHYF.. - 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: 13,872 - 24,708 nt. (total: 10,837 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
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
--- | --- | --- | --- | --- | ---
BGC0001565.1 |  | 0.08 | NRP | cyclosporin C | Beauveria felina
BGC0000306.1 |  | 0.07 | NRP | arylomycin | Streptomyces filamentosus NRRL 11379
BGC0001190.1 |  | 0.06 | Polyketide | fusaric acid | Fusarium verticillioides 7600
BGC0000260.1 |  | 0.05 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0000395.1 |  | 0.05 | NRP | nocardicin A | Nocardia uniformis subsp. tsuyamanensis
BGC0000721.1 |  | 0.05 | Saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0000326.1 |  | 0.04 | NRP | isocomplestatin | Streptomyces lavendulae
BGC0000299.1 |  | 0.04 | NRP | alterochromide A, bromoalterochromide A, dibromoalterochromide A, alterochromide B, bromoalterochromide B, dibromoalterochromide B, alterochromide A', bromoalterochromide A', dibromoalterochromide A', alterochromide B', bromoalterochromide B', dibromoalterochromide B', alterochromide A'', bromoalterochromide A'', alterochromide B'', bromoalterochromide B'' | Pseudoalteromonas piscicida JCM 20779
BGC0001230.1 |  | 0.04 | NRP, Polyketide | salinamide A, salinamide B, salinamide C, salinamide D, salinamide E, salinamide F, desmethylsalinamide C, desmethylsalinamide E | Streptomyces sp. CNB091
BGC0001766.1 |  | 0.04 | NRP | salinamide A | Streptomyces sp. CNB091

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001565.1 |  | 0.31 | NRP | cyclosporin C | Beauveria felina
BGC0000306.1 |  | 0.28 | NRP | arylomycin | Streptomyces filamentosus NRRL 11379
BGC0001190.1 |  | 0.24 | Polyketide | fusaric acid | Fusarium verticillioides 7600
BGC0000260.1 |  | 0.24 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0000395.1 |  | 0.22 | NRP | nocardicin A | Nocardia uniformis subsp. tsuyamanensis
BGC0000721.1 |  | 0.22 | Saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0000326.1 |  | 0.21 | NRP | isocomplestatin | Streptomyces lavendulae
BGC0000299.1 |  | 0.20 | NRP | alterochromide A, bromoalterochromide A, dibromoalterochromide A, alterochromide B, bromoalterochromide B, dibromoalterochromide B, alterochromide A', bromoalterochromide A', dibromoalterochromide A', alterochromide B', bromoalterochromide B', dibromoalterochromide B', alterochromide A'', bromoalterochromide A'', alterochromide B'', bromoalterochromide B'' | Pseudoalteromonas piscicida JCM 20779
BGC0001230.1 |  | 0.20 | NRP, Polyketide | salinamide A, salinamide B, salinamide C, salinamide D, salinamide E, salinamide F, desmethylsalinamide C, desmethylsalinamide E | Streptomyces sp. CNB091
BGC0001766.1 |  | 0.20 | NRP | salinamide A | Streptomyces sp. CNB091

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
c00003_NZ_JHYF.. - Region 1 - resorcinol
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: 83,950 - 125,062 nt. (total: 41,113 nt) Show pHMM detection rules used
resorcinol: DarB

#### 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 | resorcinol | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000907.1 |  | 0.25 | Other | lincomycin | Streptomyces lincolnensis
BGC0000880.1 |  | 0.23 | Other (Nucleoside) | tunicamycin B1 | Streptomyces chartreusis NRRL 3882
BGC0001526.1 |  | 0.23 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001591.1 |  | 0.23 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.23 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000938.1 |  | 0.22 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0001525.1 |  | 0.21 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001369.1 |  | 0.20 | Polyketide | metatricycloene | uncultured bacterium
BGC0001730.1 |  | 0.20 | Polyketide | paramagnetoquinone 1, paramagnetoquinone 2 | Actinoallomurus sp.
BGC0000692.1 |  | 0.20 | Saccharide | apramycin | Streptoalloteichus hindustanus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000907.1 |  | 0.59 | Other | lincomycin | Streptomyces lincolnensis
BGC0000880.1 |  | 0.57 | Other (Nucleoside) | tunicamycin B1 | Streptomyces chartreusis NRRL 3882
BGC0001526.1 |  | 0.56 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001591.1 |  | 0.56 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.56 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000938.1 |  | 0.55 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0001525.1 |  | 0.54 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001369.1 |  | 0.53 | Polyketide | metatricycloene | uncultured bacterium
BGC0001730.1 |  | 0.52 | Polyketide | paramagnetoquinone 1, paramagnetoquinone 2 | Actinoallomurus sp.
BGC0000692.1 |  | 0.52 | Saccharide | apramycin | Streptoalloteichus hindustanus

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
c00014_NZ_JHYF.. - Region 1 - 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: 17,740 - 88,588 nt. (total: 70,849 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
--- | --- | --- | --- | --- | ---
BGC0001615.1 |  | 0.34 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10
BGC0001844.1 |  | 0.34 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0000426.1 |  | 0.34 | NRP | sevadicin | Paenibacillus larvae
BGC0000389.1 |  | 0.33 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0001131.1 |  | 0.32 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001833.1 |  | 0.32 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0000417.1 |  | 0.32 | NRP | rhodochelin | Rhodococcus jostii RHA1
BGC0001758.1 |  | 0.31 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001185.1 |  | 0.31 | NRP | bacillibactin | Bacillus velezensis FZB42
BGC0000396.1 |  | 0.30 | NRP | nodularin | Nostoc sp. 73.1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001615.1 |  | 0.67 | NRP | hexose-palythine-serine, hexose-shinorine | Heteroscytonema crispum UCFS10
BGC0001844.1 |  | 0.67 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0000426.1 |  | 0.67 | NRP | sevadicin | Paenibacillus larvae
BGC0000389.1 |  | 0.66 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0001131.1 |  | 0.66 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001833.1 |  | 0.65 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0000417.1 |  | 0.65 | NRP | rhodochelin | Rhodococcus jostii RHA1
BGC0001758.1 |  | 0.64 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001185.1 |  | 0.64 | NRP | bacillibactin | Bacillus velezensis FZB42
BGC0000396.1 |  | 0.64 | NRP | nodularin | Nostoc sp. 73.1

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.
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 17739 - 88588:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-asn) + (ser - X - cys - asp - X - gly)

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).

ctg14_39: ser - X - cys - asp - X - gly
  Search NORINE for peptide: strict or relaxed
  AMP-binding (485..889): 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:
      DVWHFSLVDK
    Nearest Stachelhaus code:
      ser
    Stachelhaus code match:
      100% (strong)
  AMP-binding (1533..1930): X
  NRPSPredictor2: hydrophobic-aliphatic
  SVM prediction details:
    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:
      DVinIGiIyK
    Nearest Stachelhaus code:
      orn
    Stachelhaus code match:
      60% (weak)
  AMP-binding (2570..2969): 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:
      DLYNLSgIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (3612..4012): asp
  NRPSPredictor2: asp
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      asp, asn
    Single AA prediction:
      asp
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLTKiGHIGK
    Nearest Stachelhaus code:
      asp
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (4654..5048): X
  NRPSPredictor2: orn, lys, arg
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      orn, lys, arg
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVeqIGntDK
    Nearest Stachelhaus code:
      orn
    Stachelhaus code match:
      60% (weak)
  AMP-binding (5692..6091): gly
  NRPSPredictor2: gly
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      N/A
    Single AA prediction:
      gly
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DILQmGMIWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      90% (moderate)
ctg14_44: pk - asn
  Search NORINE for peptide: strict or relaxed
  CAL_domain (38..483): pk
  minowa: fatty_acid
  Prediction, score:
    fatty_acid: 202.2
    NH2: 26.8
    shikimic_acid: 0.0
    Acetyl-CoA: 0.0
    AHBA: 0.0
  AMP-binding (1120..1514): asn
  NRPSPredictor2: asn
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      asp, asn
    Single AA prediction:
      asn
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLTKIGEVGK
    Nearest Stachelhaus code:
      asn
    Stachelhaus code match:
      100% (strong)