BGC0001425 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0001425 (Myxococcus xanthus DK 1622)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1	NRPS,T1PKS	1	44,135	High	myxochromide A	NRPS:Type I+PKS:Iterative type I

BGC0001425 - Region 1 - NRPS,T1PKS

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Location: 1 - 44,135 nt. (total: 44,135 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))

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Gene details

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Gene overview

MIBiG

Tailoring

MIBiG comparison

KnownClusterBlast

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

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

External annotation

Name		MIBiG
Version		4.0alpha

Type		Subregion
Location		1 - 44,136
Label		BGC0001425

Tailoring functions

Hydrolases: back translocase

APZ78772.1: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Ligases: ligase synthase

mchA: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

mchB: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

mchC: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001425.4	1.48	NRPS, PKS	myxochromide A	Myxococcus xanthus DK 1622
BGC0001426.4	1.28	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001427.4	1.23	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001428.4	1.03	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001423.4	1.02	NRPS, PKS	myxochromide C	Myxococcus hansupus
BGC0001424.4	0.98	NRPS, PKS	myxochromide C	Myxococcus virescens
BGC0001421.4	0.96	NRPS, PKS	myxochromide B	Myxococcus sp.
BGC0001422.4	0.88	NRPS, PKS	myxochromide A	Myxococcus fulvus HW-1
BGC0001023.5	0.84	NRPS, PKS	myxochromide S1	Stigmatella aurantiaca
BGC0000342.4	0.78	NRPS	enniatin	Fusarium equiseti

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001425.4	0.98	NRPS, PKS	myxochromide A	Myxococcus xanthus DK 1622
BGC0001426.4	0.93	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001427.4	0.92	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001428.4	0.86	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001423.4	0.85	NRPS, PKS	myxochromide C	Myxococcus hansupus
BGC0001424.4	0.84	NRPS, PKS	myxochromide C	Myxococcus virescens
BGC0001421.4	0.84	NRPS, PKS	myxochromide B	Myxococcus sp.
BGC0001023.5	0.82	NRPS, PKS	myxochromide S1	Stigmatella aurantiaca
BGC0001422.4	0.79	NRPS, PKS	myxochromide A	Myxococcus fulvus HW-1
BGC0001833.4	0.75	NRPS	icosalide A, icosalide B	Burkholderia gladioli

Similar known clusters from MIBiG 4.0

Module view

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Detailed domain annotation

Selected features only

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 44135:

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

Polymer prediction:: (pk) + (NMe-Thr - D-Ala) + (Leu - Pro - Ala - Gln)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

mchA: pk

PKS_AT (544..840): pk

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; CE-Malonyl-CoA: 62.5%; Methylmalonyl-CoA: 54.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 112.8
Malonyl-CoA: 103.8
Isobutyryl-CoA: 98.1
Methoxymalonyl-CoA: 93.4
Ethylmalonyl-CoA: 81.0
2-Methylbutyryl-CoA: 51.5
Propionyl-CoA: 51.3
Benzoyl-CoA: 46.0
trans-1,2-CPDA: 40.5
CHC-CoA: 40.1
Acetyl-CoA: 31.2
3-Methylbutyryl-CoA: 24.3
inactive: 22.9
fatty_acid: 19.9

mchB: Thr - Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (508..912): Thr

nrpys: Thr

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:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: DFWNIGMVHK
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2007..2397): 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:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: pro (Pro)

Stachelhaus prediction details:

Stachelhaus sequence:: DVWVIAAVIK
Nearest Stachelhaus code(s):: Ala DVWVIAAVIK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

mchC: Leu - Pro - Ala - Gln

Search NORINE for peptide: strict or relaxed

AMP-binding (470..856): Leu

nrpys: Leu

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:: leu (Leu)

Stachelhaus prediction details:

Stachelhaus sequence:: DAWFLGNVVK
Nearest Stachelhaus code(s):: Leu DAWFLGNVVK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1505..1900): Pro

nrpys: Pro

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:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: pro (Pro)
Single AA prediction:: pro (Pro)

Stachelhaus prediction details:

Stachelhaus sequence:: DVQFIAHVVK
Nearest Stachelhaus code(s):: Pro DVQFIAHVVK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2554..2944): 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:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVWVTAAIIK
Nearest Stachelhaus code(s):: Ala DVWVTAAIIK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (3597..3988): Gln

nrpys: Gln

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAWQCGLIDK
Nearest Stachelhaus code(s):: Gln DAWQCGLIDK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor