BGC0001039 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0001039 (Streptomyces pyridomyceticus)

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	NRPS,T1PKS	1	42,448	pyridomycin	NRPS:Type I+PKS	100%

BGC0001039 - Region 1 - NRPS,T1PKS

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Location: 1 - 42,448 nt. (total: 42,448 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX))
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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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

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Gene details

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Gene overview

MIBiG

NRPS/PKS domains

MIBiG comparison

KnownClusterBlast

NRPS/PKS modules

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 - 42,449
Label		BGC0001039

Detailed domain annotation

Selected features only

Show module domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001039	1.98	NRP, Polyketide	pyridomycin	Streptomyces pyridomyceticus
BGC0001137	0.79	Alkaloid	marinacarboline A, marinacarboline B, marinacarboline C, marinacarboline D	Marinactinospora thermotolerans
BGC0000343	0.75	NRP	enterobactin	Pseudomonas sp. J465
BGC0002474	0.74	NRP	agrobactin	Agrobacterium tumefaciens
BGC0001444	0.74	Other (shikimate derived)	caboxamycin	Streptomyces sp. NTK 937
BGC0002493	0.73	NRP	parabactin	Paracoccus denitrificans PD1222
BGC0001206	0.71	Other	indolmycin	Streptomyces griseus subsp. griseus
BGC0001826	0.66	NRP	xeneprotides A-C	Xenorhabdus sp. KJ12.1
BGC0001023	0.65	NRP, Polyketide	myxochromide S1	Stigmatella aurantiaca
BGC0002631	0.65	RiPP	myxarylin	Pyxidicoccus fallax

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001039	1.00	NRP, Polyketide	pyridomycin	Streptomyces pyridomyceticus
BGC0001137	0.72	Alkaloid	marinacarboline A, marinacarboline B, marinacarboline C, marinacarboline D	Marinactinospora thermotolerans
BGC0000343	0.70	NRP	enterobactin	Pseudomonas sp. J465
BGC0002474	0.70	NRP	agrobactin	Agrobacterium tumefaciens
BGC0001444	0.69	Other (shikimate derived)	caboxamycin	Streptomyces sp. NTK 937
BGC0002493	0.69	NRP	parabactin	Paracoccus denitrificans PD1222
BGC0001206	0.69	Other	indolmycin	Streptomyces griseus subsp. griseus
BGC0000894	0.66	Other	citrinin	Monascus aurantiacus
BGC0001826	0.66	NRP	xeneprotides A-C	Xenorhabdus sp. KJ12.1
BGC0001023	0.66	NRP, Polyketide	myxochromide S1	Stigmatella aurantiaca

Similar known gene clusters from MIBiG 4.0

Module view

Legend

NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 42448:

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

Polymer prediction:: (Thr - X) + (Me-mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

pyrA

AMP-binding (31..441): 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:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: pip (Hpr)

Stachelhaus prediction details:

Stachelhaus sequence:: TWPSQGVLTK
Nearest Stachelhaus code(s):: Hpa TWPSQGVLCK (91% 8Å match)
Stachelhaus code match:: 90% (moderate)

pyrE

Search NORINE for peptide: strict or relaxed

AMP-binding (453..867): 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:: DFWNVGMVHK
Nearest Stachelhaus code(s):: Thr DFWNVGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1530..1928): X

nrpys: pyrAla

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAWTVASVSK
Nearest Stachelhaus code(s):: pyrAla DAWTVASVSK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

pyrF

PKS_AT (535..811): mal

ATSignature: Malonyl-CoA, inactive

Top 3 matches:: Malonyl-CoA: 54.2%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 92.6
Methoxymalonyl-CoA: 46.1
inactive: 34.6
Methylmalonyl-CoA: 33.1
Propionyl-CoA: 24.9
Ethylmalonyl-CoA: 16.1
fatty_acid: 12.5
trans-1,2-CPDA: 0.0
Isobutyryl-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

pyrG

AMP-binding (495..846): 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:: ERWILL-VYK
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

CAL_domain (1054..1468): pk

minowa: fatty_acid

Prediction, score:

fatty_acid: 28.7
Acetyl-CoA: 12.3
NH2: 11.9
shikimic_acid: 0.0
AHBA: 0.0