GCF_000010305.1_ASM1030v1_genomic - 4 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_012489.1

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	terpene	524,637	543,666
Region 2	terpene	2,810,644	2,831,606
Region 3	NRPS	3,790,812	3,834,810	paenibactin	NRP	66%
Region 4	lanthipeptide-class-ii	4,575,042	4,598,467

NC_012489.1 - Region 1 - terpene

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Location: 524,637 - 543,666 nt. (total: 19,030 nt) Show pHMM detection rules used

terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

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

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001472.1	0.07	RiPP	berninamycin A	Streptomyces bernensis
BGC0000615.1	0.07	RiPP	TP-1161	Nocardiopsis sp. TFS65-07
BGC0001895.1	0.07	Polyketide	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0001428.1	0.06	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001427.1	0.06	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001426.1	0.06	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001425.1	0.06	NRP, Polyketide	myxochromide A	Myxococcus xanthus DK 1622
BGC0001423.1	0.06	NRP, Polyketide	myxochromide C	Myxococcus hansupus
BGC0001421.1	0.06	NRP, Polyketide	myxochromide B	Myxococcus sp.
BGC0001424.1	0.06	NRP, Polyketide	myxochromide C	Myxococcus virescens

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001472.1	0.29	RiPP	berninamycin A	Streptomyces bernensis
BGC0000615.1	0.27	RiPP	TP-1161	Nocardiopsis sp. TFS65-07
BGC0001895.1	0.27	Polyketide	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0001428.1	0.25	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001427.1	0.25	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001426.1	0.25	NRP, Polyketide	myxochromide A	Myxococcus xanthus
BGC0001425.1	0.25	NRP, Polyketide	myxochromide A	Myxococcus xanthus DK 1622
BGC0001423.1	0.25	NRP, Polyketide	myxochromide C	Myxococcus hansupus
BGC0001421.1	0.25	NRP, Polyketide	myxochromide B	Myxococcus sp.
BGC0001424.1	0.24	NRP, Polyketide	myxochromide C	Myxococcus virescens

Similar known gene clusters

No matches found.

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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NC_012489.1 - Region 2 - terpene

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Location: 2,810,644 - 2,831,606 nt. (total: 20,963 nt) Show pHMM detection rules used

terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

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

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000647.1	0.38	Terpene	carotenoid	Rhodobacter sphaeroides
BGC0000656.1	0.21	Terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0000648.1	0.19	Terpene	carotenoid	Myxococcus xanthus
BGC0000646.1	0.17	Terpene	β-carotein	uncultured bacterium
BGC0000640.1	0.16	Terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000630.1	0.16	Terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000643.1	0.16	Terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.1	0.16	Terpene	carotenoid	Brevundimonas sp. SD212
BGC0000633.1	0.15	Terpene	carotenoid	Streptomyces avermitilis
BGC0000664.1	0.14	Terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000647.1	0.70	Terpene	carotenoid	Rhodobacter sphaeroides
BGC0000656.1	0.54	Terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0000648.1	0.51	Terpene	carotenoid	Myxococcus xanthus
BGC0000646.1	0.48	Terpene	β-carotein	uncultured bacterium
BGC0000640.1	0.47	Terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000630.1	0.47	Terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000643.1	0.46	Terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.1	0.46	Terpene	carotenoid	Brevundimonas sp. SD212
BGC0000633.1	0.45	Terpene	carotenoid	Streptomyces avermitilis
BGC0000664.1	0.44	Terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350

Similar known gene clusters

No matches found.

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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NC_012489.1 - Region 3 - NRPS

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Location: 3,790,812 - 3,834,810 nt. (total: 43,999 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
BGC0001615.1	0.33	NRP	hexose-palythine-serine, hexose-shinorine	Heteroscytonema crispum UCFS10
BGC0001185.1	0.27	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0000401.1	0.26	NRP	paenibactin	Paenibacillus elgii B69
BGC0001302.1	0.25	Other	lomofungin	Streptomyces lomondensis
BGC0001833.1	0.24	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001131.1	0.24	NRP	ambactin	Xenorhabdus miraniensis
BGC0001844.1	0.24	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454
BGC0001132.1	0.23	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.1	0.23	NRP	xenematide	Xenorhabdus nematophila AN6/1
BGC0001964.1	0.23	Polyketide	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001615.1	0.66	NRP	hexose-palythine-serine, hexose-shinorine	Heteroscytonema crispum UCFS10
BGC0001185.1	0.60	NRP	bacillibactin	Bacillus velezensis FZB42
BGC0000401.1	0.59	NRP	paenibactin	Paenibacillus elgii B69
BGC0001302.1	0.58	Other	lomofungin	Streptomyces lomondensis
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
BGC0001132.1	0.57	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.1	0.57	NRP	xenematide	Xenorhabdus nematophila AN6/1
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

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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 3, location 3790811 - 3834810:

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_3273

Search NORINE for peptide: strict or relaxed

AMP-binding (474..873): ser

NRPSPredictor2: ser

SVM prediction details:

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_3276

Search NORINE for peptide: strict or relaxed

AMP-binding (36..445): 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:: PMPAQGVVNK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 100% (strong)

NC_012489.1 - Region 4 - lanthipeptide-class-ii

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Location: 4,575,042 - 4,598,467 nt. (total: 23,426 nt) Show pHMM detection rules used

lanthipeptide-class-ii: cds(LANC_like and DUF4135)

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

Lanthipeptides

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000554.1	0.30	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000500.1	0.27	RiPP	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0001217.1	0.22	Other	PreQ0 Base	Streptomyces qinglanensis
BGC0000502.1	0.22	RiPP	cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7	Bacillus cereus
BGC0000516.1	0.22	RiPP	geobacillin II	Geobacillus thermodenitrificans
BGC0001210.1	0.20	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001229.1	0.20	RiPP	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000527.1	0.18	RiPP	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001311.1	0.17	RiPP	flavecins	Ruminococcus flavefaciens FD-1
BGC0001364.1	0.17	RiPP	cinnamycin B	Actinomadura atramentaria DSM 43919

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000554.1	0.64	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000500.1	0.60	RiPP	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0001217.1	0.55	Other	PreQ0 Base	Streptomyces qinglanensis
BGC0000502.1	0.55	RiPP	cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7	Bacillus cereus
BGC0000516.1	0.55	RiPP	geobacillin II	Geobacillus thermodenitrificans
BGC0001210.1	0.53	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001229.1	0.52	RiPP	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000527.1	0.50	RiPP	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0001311.1	0.48	RiPP	flavecins	Ruminococcus flavefaciens FD-1
BGC0001364.1	0.48	RiPP	cinnamycin B	Actinomadura atramentaria DSM 43919

Similar known gene clusters

No matches found.

Lanthipeptide predictions

Lanthipeptide(s) for ctg1_3956 - Putative Class II

allorf_4588962_4589087 leader / core peptide: LCTGGARVLPGA - VLDhaFCIGCGCVEGDhbQRALRHERLAAQLIA
allorf_4589169_4589237 leader / core peptide: LRRVLIYS - KAPVHGRPCDhbGLAR

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Detailed Pfam domain annotation

Selected features only

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Detailed TIGRFAM domain annotation

Selected features only

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Lanthipeptides

Core peptide predictions

allorf_4588962_4589087 - Class II: Cleavage pHMM score: -1.70; RODEO score: 0; Monoisotopic mass: 3077.6 Da; Molecular weight: 3079.6 Da; Number of bridges: 2
allorf_4589169_4589237 - Class II: Cleavage pHMM score: -7.30; RODEO score: 0; Monoisotopic mass: 1443.8 Da; Molecular weight: 1444.7 Da; Number of bridges: 1