GCF_000006925.2_ASM692v2_genomic - 3 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_004337.2

Region	Type	From	To	Most similar known cluster		Similarity
Region 1.1	NRPS	496,881	540,726	colicin V	RiPP	4%
Region 1.2	thiopeptide	922,758	949,050	O-antigen	Saccharide	14%
Region 1.3	siderophore	3,815,849	3,830,263	aerobactin	Other	100%

No secondary metabolite regions were found in these records:: NC_004851.1

Compact view

NC_004337.2 - Region 1 - NRPS

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Location: 496,881 - 540,726 nt. (total: 43,846 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

Select a gene to view the details available for it

NRPS/PKS domains

MIBiG comparison

KnownClusterBlast

NRPS/PKS modules

Pfam domains

TIGRFAM domains

Detailed domain annotation

Selected features only

Show module domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001185.1	0.34	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0001615.1	0.32	NRP	hexose-palythine-serine, hexose-shinorine	Heteroscytonema crispum UCFS10
BGC0000401.1	0.28	NRP	paenibactin	Paenibacillus elgii B69
BGC0001132.1	0.25	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.1	0.24	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001131.1	0.24	NRP	ambactin	Xenorhabdus miraniensis
BGC0001844.1	0.23	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454
BGC0001149.1	0.23	NRP, Saccharide	brabantamide A	Pseudomonas sp. SHC52
BGC0001128.1	0.23	NRP	luminmide	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.1	0.23	NRP	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001185.1	0.67	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0001615.1	0.66	NRP	hexose-palythine-serine, hexose-shinorine	Heteroscytonema crispum UCFS10
BGC0000401.1	0.62	NRP	paenibactin	Paenibacillus elgii B69
BGC0001132.1	0.58	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.1	0.58	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001131.1	0.57	NRP	ambactin	Xenorhabdus miraniensis
BGC0001844.1	0.57	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454
BGC0001149.1	0.56	NRP, Saccharide	brabantamide A	Pseudomonas sp. SHC52
BGC0001128.1	0.56	NRP	luminmide	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.1	0.56	NRP	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known gene clusters

Module view

Legend

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 496880 - 540726:

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

Polymer prediction:: (ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_510

Search NORINE for peptide: strict or relaxed

AMP-binding (465..867): ser

NRPSPredictor2: ser

SVM prediction details:

NOTE: outside applicability domain

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: ser, thr, dhpg, hpg
Small clusters prediction:: ser
Single AA prediction:: ser

Stachelhaus prediction details:

Stachelhaus sequence:: DVWHFSLVDK
Nearest Stachelhaus code:: ser
Stachelhaus code match:: 100% (strong)

ctg1_521

Search NORINE for peptide: strict or relaxed

AMP-binding (34..437): dhb

NRPSPredictor2: dhb

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic
Large clusters prediction:: dhb, sal
Small clusters prediction:: dhb, sal
Single AA prediction:: dhb

Stachelhaus prediction details:

Stachelhaus sequence:: AMPAQGVVNK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 100% (strong)

NC_004337.2 - Region 2 - thiopeptide

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Location: 922,758 - 949,050 nt. (total: 26,293 nt) Show pHMM detection rules used

thiopeptide: ((YcaO or TIGR03882) and ((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or PF07366 or PF06968 or PF04055) or thiostrepton)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

Select a gene to view the details available for it

MIBiG comparison

KnownClusterBlast

Thiopeptides

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000784.1	0.25	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0000780.1	0.18	Saccharide	O&K-antigen	Vibrio parahaemolyticus
BGC0001286.1	0.17	Other	itaconic acid	Ustilago maydis
BGC0000781.1	0.16	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0001809.1	0.16	Other	trans-aconitic acid	Bacillus thuringiensis serovar chinensis CT-43
BGC0001285.1	0.07	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000981.1	0.04	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E6
BGC0001302.1	0.04	Other	lomofungin	Streptomyces lomondensis
BGC0002012.1	0.04	Polyketide	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0001283.1	0.04	Polyketide	arsono-polyketide	Streptomyces lividans 1326

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000784.1	0.59	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0000780.1	0.49	Saccharide	O&K-antigen	Vibrio parahaemolyticus
BGC0001286.1	0.48	Other	itaconic acid	Ustilago maydis
BGC0000781.1	0.47	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0001809.1	0.47	Other	trans-aconitic acid	Bacillus thuringiensis serovar chinensis CT-43
BGC0001285.1	0.29	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000981.1	0.20	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E6
BGC0001302.1	0.20	Other	lomofungin	Streptomyces lomondensis
BGC0002012.1	0.20	Polyketide	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0001283.1	0.19	Polyketide	arsono-polyketide	Streptomyces lividans 1326

Similar known gene clusters

Thiopeptide predictions

No core peptides found.

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

Thiopeptides

Core peptide predictions

No core peptides found.

NC_004337.2 - Region 3 - siderophore

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Location: 3,815,849 - 3,830,263 nt. (total: 14,415 nt) Show pHMM detection rules used

siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

MIBiG comparison

KnownClusterBlast

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001499.1	0.61	Other	aerobactin	Pantoea ananatis
BGC0001498.1	0.35	Other	aerobactin	Xenorhabdus szentirmaii DSM 16338
BGC0001555.1	0.32	RiPP	colicin V	Escherichia coli chi7122
BGC0001572.1	0.29	Other	desferrioxamine E	Pantoea agglomerans
BGC0001713.1	0.28	Other	ochrobactin	Ochrobactrum anthropi
BGC0000939.1	0.26	Other	aerobactin	Grimontia hollisae
BGC0000942.1	0.25	Other	petrobactin	Bacillus anthracis str. Ames
BGC0001478.1	0.22	Other	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.1	0.21	Other	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.1	0.21	Other	desferrioxamine	Streptomyces argillaceus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001499.1	0.85	Other	aerobactin	Pantoea ananatis
BGC0001498.1	0.68	Other	aerobactin	Xenorhabdus szentirmaii DSM 16338
BGC0001555.1	0.65	RiPP	colicin V	Escherichia coli chi7122
BGC0001572.1	0.63	Other	desferrioxamine E	Pantoea agglomerans
BGC0001713.1	0.62	Other	ochrobactin	Ochrobactrum anthropi
BGC0000939.1	0.59	Other	aerobactin	Grimontia hollisae
BGC0000942.1	0.59	Other	petrobactin	Bacillus anthracis str. Ames
BGC0001478.1	0.55	Other	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.1	0.54	Other	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.1	0.54	Other	desferrioxamine	Streptomyces argillaceus

Similar known gene clusters

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names