GCF_000164695.2_ASM16469v2_genomic - 4 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_014643.1

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	butyrolactone	655,100	670,962	cysteoamide	NRP	18%
Region 2	T1PKS,furan	883,520	926,450
Region 3	linaridin,lanthipeptide-class-ii	1,120,729	1,170,334
Region 4	NRPS	2,414,944	2,459,176	perquinoline A / perquinoline B / perquinoline C	Other	14%

NC_014643.1 - Region 1 - butyrolactone

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Location: 655,100 - 670,962 nt. (total: 15,863 nt) Show pHMM detection rules used

butyrolactone: AfsA

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core biosynthetic genes

additional biosynthetic genes

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Gene details

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MIBiG comparison

KnownClusterBlast

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.1	0.25	Polyketide	griseusin	Streptomyces griseus
BGC0001535.1	0.25	Other	branched-chain fatty acids	Streptomyces filamentosus
BGC0000286.1	0.22	Polyketide	viguiepinol	Streptomyces sp. KO-3988
BGC0000914.1	0.22	Other	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0001534.1	0.22	Other	branched-chain fatty acids	Streptomyces filamentosus
BGC0000272.1	0.21	Polyketide	spore pigment	Streptomyces collinus
BGC0002008.1	0.21	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0000248.1	0.21	Polyketide	naphtocyclinone	Streptomyces arenae
BGC0000219.1	0.21	Polyketide, Saccharide	elloramycin	Streptomyces olivaceus
BGC0000886.1	0.21	Other	allylmalonyl-CoA	Streptomyces tsukubensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.1	0.58	Polyketide	griseusin	Streptomyces griseus
BGC0001535.1	0.58	Other	branched-chain fatty acids	Streptomyces filamentosus
BGC0000286.1	0.55	Polyketide	viguiepinol	Streptomyces sp. KO-3988
BGC0000914.1	0.54	Other	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0001534.1	0.54	Other	branched-chain fatty acids	Streptomyces filamentosus
BGC0000272.1	0.54	Polyketide	spore pigment	Streptomyces collinus
BGC0002008.1	0.54	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0000248.1	0.54	Polyketide	naphtocyclinone	Streptomyces arenae
BGC0000219.1	0.54	Polyketide, Saccharide	elloramycin	Streptomyces olivaceus
BGC0000886.1	0.53	Other	allylmalonyl-CoA	Streptomyces tsukubensis

Similar known gene clusters

Detailed Pfam domain annotation

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Detailed TIGRFAM domain annotation

Selected features only

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NC_014643.1 - Region 2 - T1PKS,furan

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Location: 883,520 - 926,450 nt. (total: 42,931 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
furan: (mmyO or AvrD)

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core biosynthetic genes

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Gene details

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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
BGC0001909.1	0.62	Polyketide	strobilurin	Strobilurus tenacellus
BGC0001161.1	0.61	Polyketide	1-heptadecene	Moorea bouillonii PNG
BGC0000027.1	0.53	Polyketide	ankaflavin, monascin, rubropunctatine, monascorubrin	Monascus pilosus
BGC0000099.1	0.52	Polyketide	monascorubrin	Talaromyces marneffei
BGC0000863.1	0.50	Other	eicosapentaenoic acid	Pseudoalteromonas sp. DS-12
BGC0001338.1	0.49	Polyketide	citrinin	Monascus ruber
BGC0001723.1	0.49	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0000862.1	0.48	Other	eicosapentaenoic acid	Shewanella pneumatophori
BGC0000154.1	0.47	Polyketide	stipitatic acid	Talaromyces stipitatus ATCC 10500
BGC0000861.1	0.47	Other	eicosapentaenoic acid	Shewanella sp. BR-2

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001161.1	0.65	Polyketide	1-heptadecene	Moorea bouillonii PNG
BGC0001909.1	0.64	Polyketide	strobilurin	Strobilurus tenacellus
BGC0000027.1	0.60	Polyketide	ankaflavin, monascin, rubropunctatine, monascorubrin	Monascus pilosus
BGC0000099.1	0.59	Polyketide	monascorubrin	Talaromyces marneffei
BGC0001163.1	0.59	Polyketide	1-heptadecene	Moorea producens 3L
BGC0001162.1	0.59	Polyketide	1-heptadecene	Moorea producens JHB
BGC0000863.1	0.58	Other	eicosapentaenoic acid	Pseudoalteromonas sp. DS-12
BGC0001338.1	0.58	Polyketide	citrinin	Monascus ruber
BGC0001723.1	0.58	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0001831.1	0.57	Polyketide	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622

Similar known gene clusters

No matches found.

Module view

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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 2, location 883519 - 926450:

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

Polymer prediction:: (mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_822

PKS_AT (521..793): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 66.7%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 68.3
Methoxymalonyl-CoA: 34.8
Methylmalonyl-CoA: 30.6
inactive: 20.2
fatty_acid: 13.5
Ethylmalonyl-CoA: 12.3
CHC-CoA: 8.7
Isobutyryl-CoA: 8.4
2-Methylbutyryl-CoA: 3.2
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
Propionyl-CoA: -1.5

ctg1_826

CAL_domain (171..484): pk

minowa: NH2

Prediction, score:

NH2: 58.0
Acetyl-CoA: 21.3
AHBA: 16.1
shikimic_acid: 0.0
fatty_acid: 0.0

NC_014643.1 - Region 3 - lanthipeptide-class-ii,linaridin

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Location: 1,120,729 - 1,170,334 nt. (total: 49,606 nt) Show pHMM detection rules used

linaridin: (cypemycin or cypI)
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

Legend:

core biosynthetic genes

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Gene details

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MIBiG comparison

KnownClusterBlast

Lanthipeptides

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000554.1	0.65	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001391.1	0.61	RiPP	thusin	Bacillus thuringiensis serovar rongseni
BGC0001311.1	0.59	RiPP	flavecins	Ruminococcus flavefaciens FD-1
BGC0000517.1	0.59	RiPP	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000552.1	0.58	RiPP	SmbA, SmbB	Streptococcus mutans
BGC0001407.1	0.58	RiPP	bicereucin	Bacillus cereus SJ1
BGC0001210.1	0.56	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000555.1	0.56	RiPP	staphylococcin C55 α, staphylococcin C55 β	Staphylococcus aureus
BGC0000497.1	0.54	RiPP	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000500.1	0.54	RiPP	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001391.1	0.67	RiPP	thusin	Bacillus thuringiensis serovar rongseni
BGC0001311.1	0.66	RiPP	flavecins	Ruminococcus flavefaciens FD-1
BGC0000554.1	0.66	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000517.1	0.66	RiPP	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000552.1	0.66	RiPP	SmbA, SmbB	Streptococcus mutans
BGC0000555.1	0.64	RiPP	staphylococcin C55 α, staphylococcin C55 β	Staphylococcus aureus
BGC0000497.1	0.63	RiPP	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0001407.1	0.62	RiPP	bicereucin	Bacillus cereus SJ1
BGC0001210.1	0.62	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000504.1	0.61	RiPP	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1

Similar known gene clusters

No matches found.

Lanthipeptide predictions

Lanthipeptide(s) for ctg1_1033 - Putative Class II

ctg1_1025 leader / core peptide: MNVSDLANSIEIDTTPGA - ADYAMNDhaAQPDhaMDhbDhbPAGVYAVAEMAVAGDhaDhbICLVC
ctg1_1032 leader / core peptide: MPQDITLLEEISEQDLSQVNGG - DhbAFPGWYDhaKVIGNRGRVCDhbVDhbVECMDhaVCQ
ctg1_1035 leader / core peptide: MAKDITLLEEISDLDLDQVNGS - GHGGGGYDhaAGGGYDhaGGGNGGGGNYCGNGCGNYNFGFGFWGGDhaDhaDha

Lanthipeptide(s) for ctg1_1036 - Putative Class II

ctg1_1032 leader / core peptide: MPQDITLLEEISEQDLSQVNGG - DhbAFPGWYDhaKVIGNRGRVCDhbVDhbVECMDhaVCQ
ctg1_1035 leader / core peptide: MAKDITLLEEISDLDLDQVNGS - GHGGGGYDhaAGGGYDhaGGGNGGGGNYCGNGCGNYNFGFGFWGGDhaDhaDha

Lanthipeptide(s) for ctg1_1045 - Putative Class II

ctg1_1046 leader / core peptide: MDSISLIAEVSDQELAGT - VGDQAGGLFDhbVPGDhbDhbDhbVGHFCDhbIDhaWECDhaGFICGK
allorf_1154776_1154850 leader / core peptide: MYITTRHHEGGA - CIYLLHLKCDhbVA
allorf_1155122_1155292 leader / core peptide: LTILEHIRQA - DhbCDDhbCDhaYVEYIIVDhaDFYIQVNIDhaDhaDhaPKANFMGYLDhbILLDhbLCCIPDhaE
allorf_1168629_1168715 leader / core peptide: MACSHRVRNRIRCTSAIGA - CLLRPKQCDhb

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

ctg1_1025 - Class II

Cleavage pHMM score: -1.80

RODEO score: 0

Monoisotopic mass: 3354.6 Da

Molecular weight: 3356.9 Da

Number of bridges: 1

Additional modifications: AviCys

Additional modifications: OH

Alternative weights: (assuming N unmodified Ser/Thr residues); 3374.9 Da N = 1; 3392.9 Da N = 2; 3410.9 Da N = 3; 3429.0 Da N = 4

ctg1_1032 - Class II

Cleavage pHMM score: -0.60

RODEO score: 0

Monoisotopic mass: 3070.5 Da

Molecular weight: 3072.6 Da

Number of bridges: 2

Additional modifications: AviCys

Additional modifications: OH

Alternative weights: (assuming N unmodified Ser/Thr residues); 3090.6 Da N = 1; 3108.7 Da N = 2

ctg1_1035 - Class II

Cleavage pHMM score: -0.60

RODEO score: 0

Monoisotopic mass: 3851.5 Da

Molecular weight: 3853.9 Da

Number of bridges: 1

Additional modifications: AviCys

Additional modifications: OH

Alternative weights: (assuming N unmodified Ser/Thr residues); 3871.9 Da N = 1; 3889.9 Da N = 2; 3907.9 Da N = 3

ctg1_1046 - Class II

Cleavage pHMM score: -6.20

RODEO score: 0

Monoisotopic mass: 3348.6 Da

Molecular weight: 3350.8 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 3368.8 Da N = 1; 3386.8 Da N = 2; 3404.8 Da N = 3; 3422.8 Da N = 4

allorf_1154776_1154850 - Class II

Cleavage pHMM score: -7.20

RODEO score: 0

Monoisotopic mass: 1357.7 Da

Molecular weight: 1358.7 Da

Number of bridges: 1

allorf_1155122_1155292 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 4976.4 Da

Molecular weight: 4979.7 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 4997.8 Da N = 1; 5015.8 Da N = 2; 5033.8 Da N = 3; 5051.8 Da N = 4; 5069.8 Da N = 5; 5087.9 Da N = 6

allorf_1168629_1168715 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 1042.6 Da

Molecular weight: 1043.3 Da

Number of bridges: 1

ctg1_1032 - Class II

Cleavage pHMM score: -0.60

RODEO score: 0

Monoisotopic mass: 3100.5 Da

Molecular weight: 3102.6 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 3120.6 Da N = 1; 3138.7 Da N = 2

ctg1_1035 - Class II

Cleavage pHMM score: -0.60

RODEO score: 0

Monoisotopic mass: 3881.5 Da

Molecular weight: 3883.9 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3901.9 Da N = 1; 3919.9 Da N = 2; 3937.9 Da N = 3

NC_014643.1 - Region 4 - NRPS

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Location: 2,414,944 - 2,459,176 nt. (total: 44,233 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
BGC0001437.1	0.28	NRP	obafluorin	Pseudomonas fluorescens
BGC0001710.1	0.28	NRP	obafluorin	Pseudomonas fluorescens
BGC0000417.1	0.26	NRP	rhodochelin	Rhodococcus jostii RHA1
BGC0001833.1	0.24	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0000410.1	0.24	NRP	pseudomonine	Pseudomonas fluorescens
BGC0000460.1	0.24	NRP	vulnibactin	Vibrio vulnificus CMCP6
BGC0001132.1	0.24	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001131.1	0.23	NRP	ambactin	Xenorhabdus miraniensis
BGC0001128.1	0.23	NRP	luminmide	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001615.1	0.66	NRP	hexose-palythine-serine, hexose-shinorine	Heteroscytonema crispum UCFS10
BGC0001437.1	0.61	NRP	obafluorin	Pseudomonas fluorescens
BGC0001710.1	0.61	NRP	obafluorin	Pseudomonas fluorescens
BGC0000417.1	0.60	NRP	rhodochelin	Rhodococcus jostii RHA1
BGC0001833.1	0.58	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0000410.1	0.57	NRP	pseudomonine	Pseudomonas fluorescens
BGC0000460.1	0.57	NRP	vulnibactin	Vibrio vulnificus CMCP6
BGC0001132.1	0.57	NRP	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001131.1	0.57	NRP	ambactin	Xenorhabdus miraniensis
BGC0001128.1	0.56	NRP	luminmide	Photorhabdus laumondii subsp. laumondii TTO1

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 7, location 2414943 - 2459176:

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_2103

Search NORINE for peptide: strict or relaxed

AMP-binding (520..959): 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:: DVWHISLVDK
Nearest Stachelhaus code:: ser
Stachelhaus code match:: 100% (strong)

ctg1_2105

Search NORINE for peptide: strict or relaxed

AMP-binding (54..466): 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:: TMPSQGVVNK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 100% (strong)