BGC0000291 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0000291 (Streptomyces fradiae)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1	NRPS-like,NRPS	1	126,933	High	A54145	NRPS:Type I

BGC0000291 - Region 1 - NRPS,NRPS-like

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Location: 1 - 126,933 nt. (total: 126,933 nt) Show pHMM detection rules used

Region on contig edge.

NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

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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 - 126,934
Label		BGC0000291

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

AAZ23049.1: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

AAZ23052.1: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

lptJ: Dioxygenase TauD/TfdA

smcogs: SMCOG1046: Dioxygenase TauD/TfdA

Transferases: acyltransferase kinase

AAZ23051.1: glycerol kinase

smcogs: SMCOG1210: glycerol kinase

lptA: polyketide synthase associated protein papA3

smcogs: SMCOG1209: polyketide synthase associated protein papA3

Hydrolases: dehalogenase hydrolase

AAZ23048.1: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

AAZ23055.1: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

lptH: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: decarboxylase

AAZ23063.1: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase

lptB: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

lptC: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

lptD: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

lptEF: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000291.5	1.17	NRPS	A54145	Streptomyces fradiae
BGC0002135.2	0.94	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.90	NRPS	enniatin	Fusarium equiseti
BGC0001833.4	0.88	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001135.5	0.87	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001825.4	0.86	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.86	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001128.4	0.83	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.82	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.81	NRPS	HC-toxin	Alternaria jesenskae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000291.5	0.99	NRPS	A54145	Streptomyces fradiae
BGC0001758.4	0.77	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.77	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002135.2	0.77	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001825.4	0.76	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002075.3	0.76	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001135.5	0.75	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000342.4	0.75	NRPS	enniatin	Fusarium equiseti
BGC0001133.4	0.75	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0001128.4	0.75	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

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 23615 - 114121:

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

Polymer prediction:: (NH2) + (Trp - D-Glu - X - Thr - NMe-Gly) + (Ala - Asp) + (D-Lys - X - Gly - D-Asn) + (X - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 23615 - 65814:

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

Polymer prediction:: (NH2) + (Trp - D-Glu - X - Thr - NMe-Gly) + (Ala - Asp)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 25923 - 114121:

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

Polymer prediction:: (NH2) + (Trp - D-Glu - X - Thr - NMe-Gly) + (Ala - Asp) + (D-Lys - X - Gly - D-Asn) + (X - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

lptEF: NH2

CAL_domain (90..525): NH2

minowa: NH2

Prediction, score:

NH2: 120.7
Acetyl-CoA: 48.3
fatty_acid: 26.5
AHBA: 5.1
shikimic_acid: 3.3

lptA: Trp - Glu - X - Thr - Gly

Search NORINE for peptide: strict or relaxed

AMP-binding (482..875): Trp

nrpys: Trp

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVALVGVVQK
Nearest Stachelhaus code(s):: Trp DVALVGVVQK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1543..1944): Glu

nrpys: Glu

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: DLVKVASVNK
Nearest Stachelhaus code(s):: Glu DLVKVASVNK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (3097..3501): X

nrpys: OH-Asn

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:: asp,asn (Asp, Asn)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKVGDVNK
Nearest Stachelhaus code(s):: OH-Asn DLTKVGDVNK (100% 8Å match); Asn or Asp DLTKVGDVNK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (4185..4601): 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:: DFWSVGMVHK
Nearest Stachelhaus code(s):: Thr DFWSVGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (5260..5656): 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:: DILQLGVIWK
Nearest Stachelhaus code(s):: Gly DILQLGVIWK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

lptB: Ala - Asp

Search NORINE for peptide: strict or relaxed

AMP-binding (463..870): 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:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: N/A

Stachelhaus prediction details:

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

AMP-binding (1556..1951): Asp

nrpys: Asp

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:: asp,asn (Asp, Asn)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKVGAVNK
Nearest Stachelhaus code(s):: Asp DLTKVGAVNK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

lptC: Lys - X - Gly - Asn

Search NORINE for peptide: strict or relaxed

AMP-binding (482..892): Lys

nrpys: Lys

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DADDAGTVDK
Nearest Stachelhaus code(s):: Lys DADDAGTVDK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2031..2428): X

nrpys: OH-Asp, OMe-Asp

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:: asp,asn (Asp, Asn)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKIGAVNK
Nearest Stachelhaus code(s):: OH-Asp or OMe-Asp DLTKIGAVNK (100% 8Å match); Asp DLTKIGAVNK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (3096..3508): 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:: DILQLGLVWK
Nearest Stachelhaus code(s):: Gly DILQLGLVWK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (4181..4580): Asn

nrpys: Asn

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:: asp,asn (Asp, Asn)
Single AA prediction:: asn (Asn)

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKVGDVSK
Nearest Stachelhaus code(s):: Asn DLTKVGDVSK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

lptD: X - X

AMP-binding (465..863): X

nrpys: 3Me-Glu, Glu

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 with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: asp,asn (Asp, Asn)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLGKTGVVNK
Nearest Stachelhaus code(s):: 3Me-Glu or Glu DLGKTGVVNK (100% 8Å match); Glu DLGKTGVVNK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1535..1929): X

nrpys: Ile, Val

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:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DGLFVGIAVK
Nearest Stachelhaus code(s):: Ile or Val DGLFVGIAVK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor