BGC0000411 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0000411 (Pseudomonas putida)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1	NRPS	1	46,846	High	viscosinamide A/pseudodesmin A	NRPS:Type I

BGC0000411 - Region 1 - NRPS

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Location: 1 - 46,846 nt. (total: 46,846 nt) Show pHMM detection rules used

Region on contig edge.

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

other genes

resistance

TTA codons

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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 - 46,847
Label		BGC0000411

Tailoring functions

Ligases: ligase

psoA: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

psoB: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

psoC: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000411.5	0.98	NRPS	putisolvin	Pseudomonas putida
BGC0002521.3	0.84	NRPS	putisolvin III, putisolvin VI, putisolvin V	Pseudomonas putida
BGC0002522.3	0.80	NRPS	viscosinamide A, pseudodesmin A	Pseudomonas sp.
BGC0002092.3	0.79	NRPS	stechlisin B2, stechlisin C3, stechlisin D3, tensin, stechlisin E2, stechlisin F	Pseudomonas sp.
BGC0002548.2	0.79	NRPS	bananamide F, bananamide D, bananamide G, bananamide E	Pseudomonas sp.
BGC0001346.4	0.79	NRPS	bananamide 1, bananamide 2, bananamide 3	Pseudomonas fluorescens
BGC0001842.4	0.79	NRPS	gacamide A	Pseudomonas fluorescens Pf0-1
BGC0002752.2	0.79	NRPS	prosekin	Pseudomonas prosekii LMG 26867
BGC0002071.2	0.78	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0001758.4	0.77	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000411.5	0.98	NRPS	putisolvin	Pseudomonas putida
BGC0002521.3	0.84	NRPS	putisolvin III, putisolvin VI, putisolvin V	Pseudomonas putida
BGC0002522.3	0.80	NRPS	viscosinamide A, pseudodesmin A	Pseudomonas sp.
BGC0002092.3	0.79	NRPS	stechlisin B2, stechlisin C3, stechlisin D3, tensin, stechlisin E2, stechlisin F	Pseudomonas sp.
BGC0002548.2	0.79	NRPS	bananamide F, bananamide D, bananamide G, bananamide E	Pseudomonas sp.
BGC0001346.4	0.79	NRPS	bananamide 1, bananamide 2, bananamide 3	Pseudomonas fluorescens
BGC0001842.4	0.79	NRPS	gacamide A	Pseudomonas fluorescens Pf0-1
BGC0002752.2	0.79	NRPS	prosekin	Pseudomonas prosekii LMG 26867
BGC0002071.2	0.78	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0001758.4	0.77	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

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 - 46846:

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

Polymer prediction:: (Leu - Glu) + (Leu - X - Gln - Ser - Val - Ile - Ser) + (Leu - X - Ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

psoA: Leu - Glu

Search NORINE for peptide: strict or relaxed

AMP-binding (467..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 (1526..1926): Glu

nrpys: Glu

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:: asp (Asp)

Stachelhaus prediction details:

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

psoB: Leu - X - Gln - Ser - Val - Ile - Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (583..970): 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); Leu or Ile DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1645..2032): X

nrpys: Leu, Ile

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 or Ile DAWFLGNVVK (100% 8Å match); Leu DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2688..3088): 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:: asp,asn (Asp, Asn)
Single AA prediction:: N/A

Stachelhaus prediction details:

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

AMP-binding (3746..4139): 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)

AMP-binding (4791..5183): Val

nrpys: 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:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: DALWIGGTFK
Nearest Stachelhaus code(s):: Val DALWIGGTFK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (5862..6249): Ile

nrpys: Ile

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):: Ile DAWFLGNVVK (100% 8Å match); Leu DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (6907..7300): 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)

psoC: Leu - X - Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (552..938): 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); Leu or Ile DAWFLGNVVK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1591..1986): X

nrpys: Leu, Ile

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:: val (Val)

Stachelhaus prediction details:

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

AMP-binding (2641..3034): 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)

Link to PARAS substrate predictor