Select genomic region:
Overview
1.1

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

BGC0001331 (Salinispora arenicola CNR107)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1 | NRPS,T1PKS,NRPS-like | 1 | 52,394 | High | BE-43547A1/BE-43547A2/BE-43547B1/BE-43547B2/BE-43547B3/BE-43547C1/BE-43547C2 | NRPS:Type I+PKS:Type I

BGC0001331 - Region 1 - NRPS,NRPS-like,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 - 52,394 nt. (total: 52,394 nt) Show pHMM detection rules used
Region on contig edge.
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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
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 - 52,395
Label |  | BGC0001331

Tailoring functions
Tailoring enzymes detected in this region
Transferases: acyltransferase methyltransferase
F583_RS01000000127205: methyltransferase

smcogs
  SMCOG1089: methyltransferase

F583_RS01000000127210: polyketide synthase associated protein papA3

smcogs
  SMCOG1209: polyketide synthase associated protein papA3

Hydrolases: esterase
F583_RS0124820: thioesterase

smcogs
  SMCOG1004: thioesterase

Ligases: synthase
F583_RS01000000127215: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

F583_RS0124830: Beta-ketoacyl synthase

smcogs
  SMCOG1093: Beta-ketoacyl synthase

F583_RS0124840: 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 | NRPS | T1PKS | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | ---
BGC0001331.5 |  |  |  | 2.68 | NRPS, PKS | BE-43547A1, BE-43547A2, BE-43547B1, BE-43547B2, BE-43547B3, BE-43547C1, BE-43547C2 | Salinispora arenicola CNR107
BGC0002135.2 |  |  |  | 1.31 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001163.3 |  |  |  | 1.22 | PKS | 1-heptadecene | Moorea producens 3L
BGC0001132.4 |  |  |  | 1.22 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  |  |  | 1.22 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001160.5 |  |  |  | 1.22 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001135.5 |  |  |  | 1.21 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001261.3 |  |  |  | 1.21 | NRPS | AM-toxin | Alternaria alternata
BGC0001164.3 |  |  |  | 1.20 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001128.4 |  |  |  | 1.19 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001331.5 |  | 0.99 | NRPS, PKS | BE-43547A1, BE-43547A2, BE-43547B1, BE-43547B2, BE-43547B3, BE-43547C1, BE-43547C2 | Salinispora arenicola CNR107
BGC0000342.4 |  | 0.76 | NRPS | enniatin | Fusarium equiseti
BGC0002135.2 |  | 0.75 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001330.5 |  | 0.74 | NRPS, PKS | BE-43547A1, BE-43547A2, BE-43547B1, BE-43547B2, BE-43547B3, BE-43547C1, BE-43547C2 | Micromonospora sp. RV43
BGC0001132.4 |  | 0.73 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.73 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001163.3 |  | 0.72 | PKS | 1-heptadecene | Moorea producens 3L
BGC0001128.4 |  | 0.72 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5 |  | 0.72 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001160.5 |  | 0.72 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002

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 0 - 52394:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (NH2 - Me-ohmal) + (mal) + (Gly - Ser) + (ccmal) + (NMe-Gly)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 296 - 52394:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (NH2 - Me-ohmal) + (mal) + (Gly - Ser) + (ccmal) + (NMe-Gly)

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).
F583_RS01000000127205: Gly
Search NORINE for peptide: strict or relaxed
AMP-binding (487..877): Gly
nrpys: Gly

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:
    Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
  Single AA prediction:
    gly (Gly)

Stachelhaus prediction details:
  Stachelhaus sequence:
    DILQLGMIWK
  Nearest Stachelhaus code(s):
    Gly DILQLGMIWK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

F583_RS0124830: mal
PKS_AT (530..817): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 79.2%
  2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 155.7
  inactive: 76.9
  Methoxymalonyl-CoA: 55.6
  Methylmalonyl-CoA: 51.2
  Propionyl-CoA: 29.5
  2-Methylbutyryl-CoA: 27.1
  Isobutyryl-CoA: 23.6
  Ethylmalonyl-CoA: 19.6
  Benzoyl-CoA: 18.9
  CHC-CoA: 18.3
  Acetyl-CoA: 17.5
  fatty_acid: 14.7
  trans-1,2-CPDA: 0.0
  3-Methylbutyryl-CoA: 0.0

F583_RS01000000127210: Gly - Ser
Search NORINE for peptide: strict or relaxed
AMP-binding (484..873): Gly
nrpys: Gly

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:
    Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
  Single AA prediction:
    gly (Gly)

Stachelhaus prediction details:
  Stachelhaus sequence:
    DILQLGMVWK
  Nearest Stachelhaus code(s):
    Gly DILQLGMVWK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1526..1926): Ser
nrpys: Ser

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:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    ser (Ser)
  Single AA prediction:
    ser (Ser)

Stachelhaus prediction details:
  Stachelhaus sequence:
    DVWHLSLVDK
  Nearest Stachelhaus code(s):
    Ser DVWHLSLVDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

F583_RS0124840: mal
PKS_AT (551..747): mal
ATSignature: (unknown)
No matches above 50%
minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 67.4
  Methoxymalonyl-CoA: 47.4
  Methylmalonyl-CoA: 46.2
  2-Methylbutyryl-CoA: 36.8
  Propionyl-CoA: 34.8
  Ethylmalonyl-CoA: 34.6
  inactive: 34.4
  trans-1,2-CPDA: 33.8
  CHC-CoA: 31.6
  Acetyl-CoA: 24.7
  Isobutyryl-CoA: 22.0
  fatty_acid: 21.5
  Benzoyl-CoA: 19.3
  3-Methylbutyryl-CoA: 10.4

F583_RS01000000127215: NH2 - mmal
CAL_domain (41..485): NH2
minowa: NH2

Prediction, score:
  NH2: 175.7
  Acetyl-CoA: 60.4
  AHBA: 11.7
  shikimic_acid: 0.0
  fatty_acid: 0.0

PKS_AT (1208..1507): mmal
ATSignature: Malonyl-CoA, Methylmalonyl-CoA

Top 3 matches:
  Malonyl-CoA: 79.2%
  Methylmalonyl-CoA: 79.2%
  Propionyl-CoA: 70.8%

minowa: Methylmalonyl-CoA

Prediction, score:
  Methylmalonyl-CoA: 142.9
  Methoxymalonyl-CoA: 113.0
  Malonyl-CoA: 95.4
  Ethylmalonyl-CoA: 94.5
  Benzoyl-CoA: 90.9
  Isobutyryl-CoA: 88.7
  Propionyl-CoA: 75.8
  trans-1,2-CPDA: 63.6
  2-Methylbutyryl-CoA: 61.7
  3-Methylbutyryl-CoA: 58.5
  fatty_acid: 49.8
  Acetyl-CoA: 46.2
  CHC-CoA: 36.4
  inactive: 32.5

Link to PARAS substrate predictor