GCF_003812925.1_ASM381292v1_genomic - 5 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_CP033844.1

Region	Type	From	To	Most similar known cluster		Similarity
Region 1.1	NRPS,T1PKS	621,631	676,684	yersiniabactin	NRP + Polyketide	16%
Region 1.2	RiPP-like	3,569,048	3,579,671
Region 1.3	ladderane	4,881,935	4,924,496	12-epi-hapalindole C isonitrile / 12-epi-hapalindole E / 12-epi-fischerindole U isonitrile / fischerindole L / 12-epi-fischerindole I isonitrile / welwitindolinone A isonitrile / welwitindolinone B isothiocyanate / welwitindolinone C isothiocyanate / N-methylwelwitindolinone C isothiocyanate / N-methylwelwitinsolinone C isonitrile / 3-epi-welwitindolinone B isothiocyanate / 3-(Z-2'-isocyanoethenyl)-indole	Terpene + Alkaloid	6%
Region 1.4	NRPS	5,205,689	5,249,570	turnerbactin	NRP	30%
Region 1.5	thiopeptide	5,609,811	5,636,093	O-antigen	Saccharide	14%

No secondary metabolite regions were found in these records:: NZ_CP033845.1; NZ_CP033846.1

Compact view

NZ_CP033844.1 - Region 1 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 621,631 - 676,684 nt. (total: 55,054 nt) Show pHMM detection rules used

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))

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

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
BGC0000467.1	1.28	NRP	yersiniabactin	Yersinia enterocolitica
BGC0001055.1	0.59	NRP, Polyketide	yersiniabactin	Escherichia coli
BGC0000373.1	0.50	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0001560.1	0.50	NRP, Polyketide	cryptomaldamide	Moorea producens JHB
BGC0001185.1	0.49	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0001444.1	0.48	Other	caboxamycin	Streptomyces sp. NTK 937
BGC0001538.1	0.48	NRP, Polyketide	caboxamycin	Streptomyces sp. NTK 937
BGC0001415.1	0.47	NRP	althiomycin	Serratia marcescens subsp. marcescens Db11
BGC0001469.1	0.43	NRP	marthiapeptide A	Brevibacillus sp. Leaf182
BGC0000225.1	0.42	Polyketide	frenolicin B	Streptomyces roseofulvus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000467.1	0.86	NRP	yersiniabactin	Yersinia enterocolitica
BGC0001055.1	0.62	NRP, Polyketide	yersiniabactin	Escherichia coli
BGC0001444.1	0.60	Other	caboxamycin	Streptomyces sp. NTK 937
BGC0001538.1	0.60	NRP, Polyketide	caboxamycin	Streptomyces sp. NTK 937
BGC0000373.1	0.60	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0001560.1	0.58	NRP, Polyketide	cryptomaldamide	Moorea producens JHB
BGC0001185.1	0.58	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0001285.1	0.57	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0001415.1	0.57	NRP	althiomycin	Serratia marcescens subsp. marcescens Db11
BGC0001964.1	0.56	Polyketide	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium

Similar known gene clusters

Module view

Legend

Detailed Pfam domain annotation

Selected features only

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 621630 - 676684:

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

Polymer prediction:: (cys) + (Me-ohmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 621630 - 666717:

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

Polymer prediction:: (cys) + (Me-ohmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 627207 - 676684:

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

Polymer prediction:: (cys) + (Me-ohmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_610

Search NORINE for peptide: strict or relaxed

AMP-binding (573..966): cys

NRPSPredictor2: cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: cys
Small clusters prediction:: cys
Single AA prediction:: cys

Stachelhaus prediction details:

Stachelhaus sequence:: DLYNMSMIWK
Nearest Stachelhaus code:: cys
Stachelhaus code match:: 100% (strong)

ctg1_611

PKS_AT (552..842): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 148.7
Methoxymalonyl-CoA: 64.9
Methylmalonyl-CoA: 59.9
inactive: 47.1
Benzoyl-CoA: 46.0
Isobutyryl-CoA: 43.8
Propionyl-CoA: 33.0
2-Methylbutyryl-CoA: 27.8
Acetyl-CoA: 25.7
fatty_acid: 24.6
3-Methylbutyryl-CoA: 22.8
Ethylmalonyl-CoA: 21.8
CHC-CoA: 21.3
trans-1,2-CPDA: 9.5

ctg1_614

Search NORINE for peptide: strict or relaxed

AMP-binding (22..422): 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:: PLPAQGVLCK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 100% (strong)

NZ_CP033844.1 - Region 2 - RiPP-like

Download region GenBank file

Download region SVG

Location: 3,569,048 - 3,579,671 nt. (total: 10,624 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193)

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:

No matches found.

Similar known gene clusters

No matches 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

NZ_CP033844.1 - Region 3 - ladderane

Download region GenBank file

Download region SVG

Location: 4,881,935 - 4,924,496 nt. (total: 42,562 nt) Show pHMM detection rules used

ladderane: ladderane

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
BGC0001361.1	0.28	Terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000044.1	0.24	Polyketide	dawenol	Stigmatella aurantiaca DW4/3-1
BGC0001591.1	0.23	Other	fatty acid enol ester	uncultured bacterium CSLC2
BGC0001688.1	0.23	Other	N-tetradecanoyl tyrosine	uncultured bacterium CSLC2
BGC0001197.1	0.23	Polyketide	frankiamicin	Frankia sp. EAN1pec
BGC0001723.1	0.22	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0000234.1	0.20	Polyketide	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000219.1	0.20	Polyketide, Saccharide	elloramycin	Streptomyces olivaceus
BGC0000678.1	0.19	Terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000228.1	0.19	Polyketide	granaticin	Streptomyces violaceoruber

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001361.1	0.62	Terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000044.1	0.58	Polyketide	dawenol	Stigmatella aurantiaca DW4/3-1
BGC0001591.1	0.56	Other	fatty acid enol ester	uncultured bacterium CSLC2
BGC0001688.1	0.56	Other	N-tetradecanoyl tyrosine	uncultured bacterium CSLC2
BGC0001197.1	0.56	Polyketide	frankiamicin	Frankia sp. EAN1pec
BGC0001723.1	0.55	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0000234.1	0.53	Polyketide	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000219.1	0.52	Polyketide, Saccharide	elloramycin	Streptomyces olivaceus
BGC0000678.1	0.52	Terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000228.1	0.51	Polyketide	granaticin	Streptomyces violaceoruber

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

NZ_CP033844.1 - Region 4 - NRPS

Download region GenBank file

Download region SVG

Location: 5,205,689 - 5,249,570 nt. (total: 43,882 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

reset view

zoom to selection

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	0.36	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0000401.1	0.30	NRP	paenibactin	Paenibacillus elgii B69
BGC0001833.1	0.24	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.1	0.23	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001844.1	0.23	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000228.1	0.23	Polyketide	granaticin	Streptomyces violaceoruber
BGC0002008.1	0.23	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0001302.1	0.23	Other	lomofungin	Streptomyces lomondensis
BGC0001149.1	0.23	NRP, Saccharide	brabantamide A	Pseudomonas sp. SHC52
BGC0001758.1	0.23	NRP	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001185.1	0.69	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0000401.1	0.64	NRP	paenibactin	Paenibacillus elgii B69
BGC0001833.1	0.58	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.1	0.57	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001844.1	0.56	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000228.1	0.56	Polyketide	granaticin	Streptomyces violaceoruber
BGC0002008.1	0.56	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0001302.1	0.56	Other	lomofungin	Streptomyces lomondensis
BGC0001149.1	0.56	NRP, Saccharide	brabantamide A	Pseudomonas sp. SHC52
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

Expand to show all names

Detailed TIGRFAM domain annotation

Selected features only

Expand to show all names

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 6, location 5205688 - 5249570:

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_4788

Search NORINE for peptide: strict or relaxed

AMP-binding (461..862): 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_4796

Search NORINE for peptide: strict or relaxed

AMP-binding (33..436): 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:: AMPsQGVVNK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 90% (moderate)

NZ_CP033844.1 - Region 5 - thiopeptide

Download region GenBank file

Download region SVG

Location: 5,609,811 - 5,636,093 nt. (total: 26,283 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

reset view

zoom to selection

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
BGC0001361.1	0.23	Terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000781.1	0.16	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0001285.1	0.12	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000981.1	0.07	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E6
BGC0001302.1	0.07	Other	lomofungin	Streptomyces lomondensis
BGC0002012.1	0.06	Polyketide	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0001956.1	0.06	Polyketide	miharamycin A, miharamycin B	Streptomyces miharaensis
BGC0001283.1	0.06	Polyketide	arsono-polyketide	Streptomyces lividans 1326
BGC0000414.1	0.05	NRP	quinocarcin	Streptomyces melanovinaceus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000784.1	0.58	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0001361.1	0.56	Terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000781.1	0.47	Saccharide	O-antigen	Pseudomonas aeruginosa
BGC0001285.1	0.39	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000981.1	0.28	NRP, Polyketide	cylindrospermopsin	Aphanizomenon sp. 10E6
BGC0001302.1	0.28	Other	lomofungin	Streptomyces lomondensis
BGC0002012.1	0.26	Polyketide	julichrome Q3-3, julichrome Q3-5	Streptomyces afghaniensis 772
BGC0001956.1	0.25	Polyketide	miharamycin A, miharamycin B	Streptomyces miharaensis
BGC0001283.1	0.25	Polyketide	arsono-polyketide	Streptomyces lividans 1326
BGC0000414.1	0.23	NRP	quinocarcin	Streptomyces melanovinaceus

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.