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Overview
1.1

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

BGC0002376 (Streptomyces sp)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1 | T1PKS,transAT-PKS | 1 | 113,079 | High | bombyxamycin A/bombyxamycin B | PKS

BGC0002376 - Region 1 - T1PKS,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
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Location: 1 - 113,079 nt. (total: 113,079 nt) Show pHMM detection rules used
Region on contig edge.
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
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)))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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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
Gene overview
MIBiG
Tailoring
MIBiG comparison
KnownClusterBlast
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
External annotation
This annotation was made externally by 'MIBiG' and not by antiSMASH

Name |  | MIBiG
Version |  | 4.0alpha

Type |  | Subregion
Location |  | 1 - 113,080
Label |  | BGC0002376

Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: oxidoreductase oxygenase
bomA: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

bomF: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

bomK: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

bomN: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

bomO: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

Transferases: PPTase acylase transferase
QBL56176.1: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1060: 4'-phosphopantetheinyl transferase

QBL56200.1: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

bomM: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: dehalogenase esterase
bomC: haloalkane dehalogenase

smcogs
  SMCOG1262: haloalkane dehalogenase

bomR9: thioesterase

smcogs
  SMCOG1004: thioesterase

Lyases: decarboxylase
bomI: diaminopimelate decarboxylase

smcogs
  SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase synthase
QBL56161.1: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

bomE: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

bomJ: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

bomP1: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

bomP2: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

bomP3: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

bomP4: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

bomP5: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

bomP6: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters
Shows areas 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 | transAT-PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0002376.2 |  |  | 1.38 | PKS | bombyxamycin A, bombyxamycin B | Streptomyces sp.
BGC0001273.3 |  |  | 0.91 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  |  | 0.91 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001244.3 |  |  | 0.89 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0001276.3 |  |  | 0.78 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0002191.2 |  |  | 0.66 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  |  | 0.65 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0002175.3 |  |  | 0.65 | PKS | YWA1 | Aspergillus oryzae RIB40
BGC0001164.3 |  |  | 0.63 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001160.5 |  |  | 0.63 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002376.2 |  | 0.99 | PKS | bombyxamycin A, bombyxamycin B | Streptomyces sp.
BGC0001273.3 |  | 0.76 | PKS | asperlactone | Aspergillus ochraceus
BGC0001275.3 |  | 0.76 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001276.3 |  | 0.76 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0001244.3 |  | 0.75 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0002154.2 |  | 0.66 | PKS | 1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene | Pyricularia oryzae 70-15
BGC0001257.3 |  | 0.66 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Nodulisporium sp. ATCC74245
BGC0002191.2 |  | 0.66 | PKS | prolipyrone B, gibepyrone D | Fusarium graminearum PH-1
BGC0001284.4 |  | 0.66 | PKS | alternariol | Parastagonospora nodorum SN15
BGC0001258.3 |  | 0.66 | PKS | 1,3,6,8-tetrahydroxynaphthalene | Glarea lozoyensis

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
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 8411 - 113079:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (ccmal - ccmal - ccmal) + (ccmal) + (ccmal - ccmal) + (ohmal) + (pk - ccmal) + (ccmal - ccmal)
Non-colinear ordering:
  bomP6 + bomP5 + bomP4 + bomP3 + bomP2 + bomP1

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
QBL56161.1: X
AMP-binding (24..436): X
nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    TVMYVSLGIK
  Nearest Stachelhaus code(s):
  Stachelhaus code match:
    0% (weak)

bomP1: mal - mal
PKS_AT (552..840): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 195.3
  inactive: 99.0
  Methoxymalonyl-CoA: 60.1
  Methylmalonyl-CoA: 53.5
  Propionyl-CoA: 41.8
  Ethylmalonyl-CoA: 32.1
  Acetyl-CoA: 32.0
  Isobutyryl-CoA: 23.4
  2-Methylbutyryl-CoA: 22.5
  Benzoyl-CoA: 21.6
  trans-1,2-CPDA: 17.5
  fatty_acid: 13.3
  CHC-CoA: 12.8
  3-Methylbutyryl-CoA: 0.0

PKS_AT (2254..2542): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 192.0
  inactive: 99.2
  Methoxymalonyl-CoA: 58.1
  Methylmalonyl-CoA: 51.6
  Propionyl-CoA: 42.6
  Ethylmalonyl-CoA: 32.4
  2-Methylbutyryl-CoA: 27.9
  Acetyl-CoA: 26.1
  Benzoyl-CoA: 21.6
  Isobutyryl-CoA: 20.5
  fatty_acid: 16.8
  trans-1,2-CPDA: 15.5
  CHC-CoA: 13.8
  3-Methylbutyryl-CoA: 0.0

bomP2: pk - mal
PKS_AT (594..892): pk
ATSignature: Methylmalonyl-CoA

Top 3 matches:
  Methylmalonyl-CoA: 95.8%
  Methoxymalonyl-CoA: 91.7%
  Ethylmalonyl-CoA: 87.5%

minowa: Ethylmalonyl-CoA

Prediction, score:
  Ethylmalonyl-CoA: 224.4
  Methylmalonyl-CoA: 221.0
  Methoxymalonyl-CoA: 187.8
  2-Methylbutyryl-CoA: 143.7
  trans-1,2-CPDA: 129.2
  Propionyl-CoA: 116.8
  Malonyl-CoA: 111.6
  Benzoyl-CoA: 97.5
  CHC-CoA: 95.4
  Isobutyryl-CoA: 91.0
  Acetyl-CoA: 58.3
  3-Methylbutyryl-CoA: 45.2
  inactive: 44.2
  fatty_acid: 38.5

PKS_AT (2318..2606): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 192.1
  inactive: 95.8
  Methoxymalonyl-CoA: 60.9
  Methylmalonyl-CoA: 54.9
  Propionyl-CoA: 45.0
  Ethylmalonyl-CoA: 37.1
  Acetyl-CoA: 29.8
  2-Methylbutyryl-CoA: 25.9
  trans-1,2-CPDA: 21.0
  Isobutyryl-CoA: 19.1
  Benzoyl-CoA: 17.8
  CHC-CoA: 15.7
  fatty_acid: 14.0
  3-Methylbutyryl-CoA: 0.0

bomP3: mal
PKS_AT (562..855): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 208.6
  inactive: 106.6
  Methoxymalonyl-CoA: 41.7
  Methylmalonyl-CoA: 28.8
  Propionyl-CoA: 20.2
  Isobutyryl-CoA: 18.0
  Acetyl-CoA: 16.9
  Benzoyl-CoA: 5.9
  CHC-CoA: 2.3
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Ethylmalonyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

bomP4: mal - mal
PKS_AT (557..845): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 192.0
  inactive: 99.2
  Methoxymalonyl-CoA: 58.1
  Methylmalonyl-CoA: 51.6
  Propionyl-CoA: 42.6
  Ethylmalonyl-CoA: 32.4
  2-Methylbutyryl-CoA: 27.9
  Acetyl-CoA: 26.1
  Benzoyl-CoA: 21.6
  Isobutyryl-CoA: 20.5
  fatty_acid: 16.8
  trans-1,2-CPDA: 15.5
  CHC-CoA: 13.8
  3-Methylbutyryl-CoA: 0.0

PKS_AT (2277..2568): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 95.8%
  inactive: 79.2%
  Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 191.7
  inactive: 99.4
  Methoxymalonyl-CoA: 61.6
  Methylmalonyl-CoA: 53.8
  Propionyl-CoA: 33.6
  Isobutyryl-CoA: 33.0
  Ethylmalonyl-CoA: 19.0
  Acetyl-CoA: 15.4
  CHC-CoA: 12.8
  fatty_acid: 12.3
  2-Methylbutyryl-CoA: 10.7
  3-Methylbutyryl-CoA: 7.1
  trans-1,2-CPDA: 0.0
  Benzoyl-CoA: 0.0

bomE: Ala
Search NORINE for peptide: strict or relaxed
AMP-binding (16..419): Ala
nrpys: Ala

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    DCFFFALITK
  Nearest Stachelhaus code(s):
    Ala DCFFFALITK (91% 8Å match)
    bMe-Asp DCFFFALITK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

bomP5: mal
PKS_AT (552..840): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 195.6
  inactive: 96.8
  Methoxymalonyl-CoA: 60.9
  Methylmalonyl-CoA: 55.0
  Propionyl-CoA: 45.4
  Ethylmalonyl-CoA: 37.1
  Acetyl-CoA: 29.8
  2-Methylbutyryl-CoA: 26.4
  trans-1,2-CPDA: 20.9
  Isobutyryl-CoA: 19.1
  Benzoyl-CoA: 17.8
  CHC-CoA: 15.7
  fatty_acid: 14.2
  3-Methylbutyryl-CoA: 0.0

bomP6: mal - mal - mal
PKS_AT (670..967): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 217.7
  inactive: 120.6
  Methoxymalonyl-CoA: 72.6
  Methylmalonyl-CoA: 59.8
  Propionyl-CoA: 49.0
  Isobutyryl-CoA: 28.4
  Acetyl-CoA: 21.4
  Ethylmalonyl-CoA: 21.3
  Benzoyl-CoA: 17.9
  2-Methylbutyryl-CoA: 16.7
  CHC-CoA: 6.6
  trans-1,2-CPDA: 6.2
  fatty_acid: 0.0
  3-Methylbutyryl-CoA: 0.0

PKS_AT (2388..2679): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 196.9
  inactive: 97.7
  Methoxymalonyl-CoA: 63.5
  Methylmalonyl-CoA: 54.9
  Propionyl-CoA: 43.2
  Ethylmalonyl-CoA: 36.7
  Acetyl-CoA: 31.2
  2-Methylbutyryl-CoA: 25.9
  trans-1,2-CPDA: 19.6
  Benzoyl-CoA: 18.3
  CHC-CoA: 17.3
  fatty_acid: 14.4
  Isobutyryl-CoA: 13.9
  3-Methylbutyryl-CoA: 0.0

PKS_AT (4102..4394): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 91.7%
  inactive: 75.0%
  2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 206.9
  inactive: 108.0
  Methoxymalonyl-CoA: 44.7
  Methylmalonyl-CoA: 32.0
  Propionyl-CoA: 23.4
  Isobutyryl-CoA: 21.3
  Acetyl-CoA: 17.9
  Benzoyl-CoA: 5.9
  CHC-CoA: 2.9
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Ethylmalonyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

bomJ: X
AMP-binding (24..419): X
nrpys: (unknown)

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    DYYPTTQRVK
  Nearest Stachelhaus code(s):
    3S-Abu DYYPTTQRIK (88% 8Å match)
    Asp DYYPTTMRVK (76% 8Å match)
  Stachelhaus code match:
    90% (moderate)

bomM: pk
PKS_AT (11..285): pk
ATSignature: (unknown)
No matches above 50%
minowa: Isobutyryl-CoA

Prediction, score:
  Isobutyryl-CoA: 11.4
  Propionyl-CoA: 9.9
  trans-1,2-CPDA: 0.0
  inactive: 0.0
  fatty_acid: 0.0
  Methylmalonyl-CoA: 0.0
  Methoxymalonyl-CoA: 0.0
  Malonyl-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

Link to PARAS substrate predictor