GCF_000210095.1_ASM21009v1_genomic - 4 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NC_021039.1

Region	Type	From	To
Region 1	NRPS,NRPS-like	57,495	107,973
Region 2	RRE-containing	359,462	378,851
Region 3	ranthipeptide	1,566,660	1,588,135
Region 4	cyclic-lactone-autoinducer	2,130,995	2,152,350

NC_021039.1 - Region 1 - NRPS,NRPS-like

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Location: 57,495 - 107,973 nt. (total: 50,479 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory 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
BGC0002002.1	0.60	NRP	1,6-phenazinedimethanol, fontizine A	Serratia fonticola
BGC0000373.1	0.51	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0000836.1	0.50	Other	APE Ec	Escherichia coli CFT073
BGC0002008.1	0.50	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0001104.1	0.49	NRP, Polyketide	myxovirescin A1	Myxococcus xanthus DK 1622
BGC0000837.1	0.48	Other	APE Vf	Aliivibrio fischeri ES114
BGC0000215.1	0.47	Polyketide	curamycin	Streptomyces cyaneus
BGC0000231.1	0.47	Polyketide	griseusin	Streptomyces griseus
BGC0001281.1	0.47	Polyketide	ustilagic acid	Ustilago maydis 521
BGC0001415.1	0.47	NRP	althiomycin	Serratia marcescens subsp. marcescens Db11

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002002.1	0.63	NRP	1,6-phenazinedimethanol, fontizine A	Serratia fonticola
BGC0000373.1	0.59	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0001281.1	0.59	Polyketide	ustilagic acid	Ustilago maydis 521
BGC0000836.1	0.59	Other	APE Ec	Escherichia coli CFT073
BGC0002008.1	0.58	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0001104.1	0.58	NRP, Polyketide	myxovirescin A1	Myxococcus xanthus DK 1622
BGC0000837.1	0.57	Other	APE Vf	Aliivibrio fischeri ES114
BGC0000215.1	0.57	Polyketide	curamycin	Streptomyces cyaneus
BGC0000231.1	0.57	Polyketide	griseusin	Streptomyces griseus
BGC0001415.1	0.56	NRP	althiomycin	Serratia marcescens subsp. marcescens Db11

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 1, location 57494 - 107973:

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

Polymer prediction:: (dhb) + (mal) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 57494 - 100872:

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

Polymer prediction:: (dhb) + (mal) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 66140 - 107973:

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

Polymer prediction:: (dhb) + (mal) + (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_59

Search NORINE for peptide: strict or relaxed

AMP-binding (554..950): X

NRPSPredictor2: (unknown)

SVM prediction details:

NOTE: outside applicability domain

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DmFnLGVVwK
Nearest Stachelhaus code:: ile
Stachelhaus code match:: 70% (weak)

ctg1_67

Search NORINE for peptide: strict or relaxed

AMP-binding (19..422): dhb

NRPSPredictor2: dhb

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: hiPAQGiVyK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 60% (weak)

ctg1_74

Search NORINE for peptide: strict or relaxed

AMP-binding (25..440): X

NRPSPredictor2: (unknown)

SVM prediction details:

NOTE: outside applicability domain

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: gwTnIGgpvK
Nearest Stachelhaus code:: asn
Stachelhaus code match:: 40% (weak)

ctg1_77

PKS_AT (77..360): mmal

ATSignature: Malonyl-CoA, Methylmalonyl-CoA

Top 3 matches:: Malonyl-CoA: 54.2%; Methylmalonyl-CoA: 54.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 46.0
Malonyl-CoA: 42.8
Methoxymalonyl-CoA: 39.7
inactive: 20.3
2-Methylbutyryl-CoA: 16.2
fatty_acid: 14.8
3-Methylbutyryl-CoA: 14.7
Ethylmalonyl-CoA: 12.5
Acetyl-CoA: 12.5
Benzoyl-CoA: 11.8
Propionyl-CoA: 10.8
CHC-CoA: 10.8
trans-1,2-CPDA: 8.9
Isobutyryl-CoA: 0.0

NC_021039.1 - Region 2 - RRE-containing

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Location: 359,462 - 378,851 nt. (total: 19,390 nt) Show pHMM detection rules used

RRE-containing: minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE])

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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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
BGC0000877.1	0.04	Other	polyoxin A, polyoxin H	Streptomyces cacaoi subsp. asoensis
BGC0001057.1	0.04	NRP, Polyketide	zearalenone	Fusarium graminearum
BGC0001281.1	0.03	Polyketide	ustilagic acid	Ustilago maydis 521

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000877.1	0.21	Other	polyoxin A, polyoxin H	Streptomyces cacaoi subsp. asoensis
BGC0001057.1	0.19	NRP, Polyketide	zearalenone	Fusarium graminearum
BGC0001281.1	0.15	Polyketide	ustilagic acid	Ustilago maydis 521

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

Expand to show all names

NC_021039.1 - Region 3 - ranthipeptide

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Location: 1,566,660 - 1,588,135 nt. (total: 21,476 nt) Show pHMM detection rules used

ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or YcaO or TIGR03882)))

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
BGC0001285.1	0.19	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000928.1	0.16	Other	T3 toxin	Cylindrospermopsis raciborskii T3
BGC0000188.1	0.16	Alkaloid	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0000678.1	0.16	Terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001887.1	0.14	RiPP	huazacin	Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0000842.1	0.14	Other (Non-NRP beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0001964.1	0.13	Polyketide	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0000668.1	0.13	Terpene, Alkaloid	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	Hapalosiphon welwitschii UTEX B 1830
BGC0000807.1	0.13	Saccharide	phosphonoglycans	Stackebrandtia nassauensis DSM 44728
BGC0000549.1	0.13	RiPP	salivaricin D	Streptococcus salivarius

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001285.1	0.51	Other (Fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0000928.1	0.46	Other	T3 toxin	Cylindrospermopsis raciborskii T3
BGC0000188.1	0.46	Alkaloid	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0000678.1	0.46	Terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001887.1	0.44	RiPP	huazacin	Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0000842.1	0.43	Other (Non-NRP beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0001964.1	0.42	Polyketide	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0000668.1	0.42	Terpene, Alkaloid	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	Hapalosiphon welwitschii UTEX B 1830
BGC0000807.1	0.42	Saccharide	phosphonoglycans	Stackebrandtia nassauensis DSM 44728
BGC0000549.1	0.42	RiPP	salivaricin D	Streptococcus salivarius

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

NC_021039.1 - Region 4 - cyclic-lactone-autoinducer

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Location: 2,130,995 - 2,152,350 nt. (total: 21,356 nt) Show pHMM detection rules used

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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	cyclic-lactone-autoinducer	Similarity score	Type	Compound(s)	Organism
BGC0000498.1		0.05	RiPP	bovicin HJ50	Streptococcus equinus

Reference	Aggregated	Similarity score	Type	Compound(s)	Organism
BGC0000498.1		0.22	RiPP	bovicin HJ50	Streptococcus equinus

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