BGC0001054 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0001054 (Xenorhabdus nematophila ATCC 19061)

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	T1PKS,NRPS-like,NRPS	1	41,309	zwittermicin A	NRP + Polyketide	11%

BGC0001054 - Region 1 - NRPS,NRPS-like,T1PKS

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Location: 1 - 41,309 nt. (total: 41,309 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))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))
NRPS: cds(Condensation and (AMP-binding or A-OX))

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

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Gene details

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MIBiG

NRPS/PKS domains

MIBiG comparison

KnownClusterBlast

NRPS/PKS modules

External annotation

Name		MIBiG
Version		3.0

Type		Subregion
Location		1 - 41,310
Label		BGC0001054

Detailed domain annotation

Selected features only

Show module domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001054.1	2.24	NRP, Polyketide	xenocoumacin 1, xenocoumacin II	Xenorhabdus nematophila ATCC 19061
BGC0001160.1	0.79	Polyketide	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001876.1	0.77	NRP	thalassospiramide A	Thalassospira sp. CNJ-328
BGC0001132.1	0.73	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0000979.1	0.72	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E9
BGC0000980.1	0.72	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 22D11
BGC0001050.1	0.67	NRP, Polyketide	thalassospiramide A	Tistrella bauzanensis
BGC0001185.1	0.66	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0001641.1	0.65	NRP	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.1	0.65	NRP	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001054.1	1.00	NRP, Polyketide	xenocoumacin 1, xenocoumacin II	Xenorhabdus nematophila ATCC 19061
BGC0000979.1	0.69	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E9
BGC0000980.1	0.69	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 22D11
BGC0001050.1	0.69	NRP, Polyketide	thalassospiramide A	Tistrella bauzanensis
BGC0001876.1	0.66	NRP	thalassospiramide A	Thalassospira sp. CNJ-328
BGC0000427.1	0.66	NRP	shinorine, 4-deoxygadusol, mycosporine glycine	Trichormus variabilis ATCC 29413
BGC0000900.1	0.64	Other	ferrichrome	Aspergillus oryzae
BGC0001163.1	0.64	Polyketide	1-heptadecene	Moorea producens 3L
BGC0001160.1	0.63	Polyketide	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000375.1	0.62	NRP	indigoidine	Streptomyces chromofuscus

Similar known gene clusters

Module view

Legend

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 0 - 41309:

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

Polymer prediction:: (asn - X) + (ohmal - mal) + (ohmal) + (glu) + (ohmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 13290 - 41309:

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

Polymer prediction:: (asn - X) + (ohmal - mal) + (ohmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

XNC1_1700

PKS_AT (534..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: 112.1
inactive: 85.0
Methoxymalonyl-CoA: 44.6
Methylmalonyl-CoA: 41.3
Propionyl-CoA: 22.8
2-Methylbutyryl-CoA: 20.8
Benzoyl-CoA: 15.1
Isobutyryl-CoA: 13.7
CHC-CoA: 13.1
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Ethylmalonyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

XNC1_1701

Search NORINE for peptide: strict or relaxed

AMP-binding (243..643): glu

NRPSPredictor2: glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: glu, gln
Single AA prediction:: glu

Stachelhaus prediction details:

Stachelhaus sequence:: DAQDmGaVqK
Nearest Stachelhaus code:: gln
Stachelhaus code match:: 70% (weak)

XNC1_1704

PKS_AT (523..808): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 79.2%; inactive: 66.7%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 88.5
Methoxymalonyl-CoA: 63.4
inactive: 63.1
Methylmalonyl-CoA: 40.4
Propionyl-CoA: 16.0
Isobutyryl-CoA: 14.5
fatty_acid: 13.7
2-Methylbutyryl-CoA: 3.5
trans-1,2-CPDA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

XNC1_1706

PKS_AT (1113..1407): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; inactive: 75.0%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 125.5
inactive: 104.1
Methoxymalonyl-CoA: 47.5
Methylmalonyl-CoA: 38.1
Propionyl-CoA: 25.1
Isobutyryl-CoA: 15.8
fatty_acid: 10.6
Ethylmalonyl-CoA: 10.6
CHC-CoA: 9.1
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

PKS_AT (2608..2892): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 79.2%; inactive: 70.8%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 128.1
inactive: 88.0
Methoxymalonyl-CoA: 62.7
Methylmalonyl-CoA: 56.0
Propionyl-CoA: 33.2
Ethylmalonyl-CoA: 28.1
Isobutyryl-CoA: 23.7
fatty_acid: 18.5
2-Methylbutyryl-CoA: 16.2
CHC-CoA: 10.1
Benzoyl-CoA: 9.4
trans-1,2-CPDA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

XNC1_1711

Search NORINE for peptide: strict or relaxed

AMP-binding (490..899): 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 (2055..2444): X

NRPSPredictor2: asp, asn

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: asp, asn
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DpenIGhVDK
Nearest Stachelhaus code:: glu
Stachelhaus code match:: 60% (weak)