GCF_900637725.1_52551_C01_genomic - 4 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_LR134406.1

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	LAP	57,413	79,378
Region 2	lanthipeptide-class-ii	130,045	152,342
Region 3	transAT-PKS,NRPS-like	1,066,333	1,157,100	difficidin	Polyketide + NRP	20%
Region 4	NRPS,NRPS-like	2,955,414	3,027,918

NZ_LR134406.1 - Region 1 - LAP

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Location: 57,413 - 79,378 nt. (total: 21,966 nt) Show pHMM detection rules used

LAP: ((((goadsporin_like or PF00881 or TIGR03605) and (YcaO or TIGR03882 or TIGR03604)) or TIGR03603 or TIGR03602) and not cyanobactin_synth)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

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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
BGC0001173.1	0.20	RiPP	plantazolicin	Bacillus pumilus ATCC 7061
BGC0001476.1	0.15	Other (Nucleoside)	pseudouridimycin	Streptomyces sp.
BGC0001536.1	0.09	NRP	brevicidine	Brevibacillus laterosporus
BGC0000885.1	0.08	Other	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0001797.1	0.07	RiPP	telomestatin	Streptomyces anulatus
BGC0000914.1	0.06	Other	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0000253.1	0.06	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0001537.1	0.04	Polyketide	butyrolactol A	Streptomyces sp. NBRC 110030

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001173.1	0.52	RiPP	plantazolicin	Bacillus pumilus ATCC 7061
BGC0001476.1	0.44	Other (Nucleoside)	pseudouridimycin	Streptomyces sp.
BGC0001536.1	0.32	NRP	brevicidine	Brevibacillus laterosporus
BGC0000885.1	0.30	Other	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0001797.1	0.28	RiPP	telomestatin	Streptomyces anulatus
BGC0000914.1	0.27	Other	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0000253.1	0.24	Polyketide	oviedomycin	Streptomyces antibioticus
BGC0001537.1	0.19	Polyketide	butyrolactol A	Streptomyces sp. NBRC 110030

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

NZ_LR134406.1 - Region 2 - lanthipeptide-class-ii

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Location: 130,045 - 152,342 nt. (total: 22,298 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

TTA codons

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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
BGC0001579.1	0.35	RiPP	duramycin	Streptomyces cinnamoneus
BGC0001210.1	0.32	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001787.1	0.31	RiPP	suicin 3908	Streptococcus suis
BGC0000626.1	0.30	RiPP	thuricin	Bacillus thuringiensis
BGC0001364.1	0.29	RiPP	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001660.1	0.29	RiPP	mathermycin	Marinactinospora thermotolerans
BGC0000527.1	0.27	RiPP	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0000516.1	0.26	RiPP	geobacillin II	Geobacillus thermodenitrificans
BGC0000554.1	0.25	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000563.1	0.25	RiPP	venezuelin	Streptomyces venezuelae ATCC 10712

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001579.1	0.68	RiPP	duramycin	Streptomyces cinnamoneus
BGC0001210.1	0.66	RiPP	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0001787.1	0.64	RiPP	suicin 3908	Streptococcus suis
BGC0000626.1	0.63	RiPP	thuricin	Bacillus thuringiensis
BGC0001364.1	0.63	RiPP	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001660.1	0.63	RiPP	mathermycin	Marinactinospora thermotolerans
BGC0000527.1	0.61	RiPP	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0000516.1	0.59	RiPP	geobacillin II	Geobacillus thermodenitrificans
BGC0000554.1	0.59	RiPP	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000563.1	0.59	RiPP	venezuelin	Streptomyces venezuelae ATCC 10712

Similar known gene clusters

No matches found.

Lanthipeptide predictions

Lanthipeptide(s) for ctg1_136 - Putative Class II

ctg1_133 leader / core peptide: MLTRRISAIVGTLLTLLTLVGTSTTAHATETTDPTAATPSNLCEILSG - CPWDhaR
ctg1_137 leader / core peptide: MQNKYDDQTLDNLAELSDTEIEELLGA - GWGDhaIFDhaFDhbHECNDhbNDhbMDhbQLFDhbCCF

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_133 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 629.3 Da

Molecular weight: 629.7 Da

Number of bridges: 1

ctg1_137 - Class II

Cleavage pHMM score: 0.40

RODEO score: 0

Monoisotopic mass: 2748.2 Da

Molecular weight: 2750.1 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2768.1 Da N = 1; 2786.1 Da N = 2; 2804.1 Da N = 3; 2822.2 Da N = 4

NZ_LR134406.1 - Region 3 - NRPS-like,transAT-PKS

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Location: 1,066,333 - 1,157,100 nt. (total: 90,768 nt) Show pHMM detection rules used

transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

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
BGC0001909.1	0.64	Polyketide	strobilurin	Strobilurus tenacellus
BGC0000935.1	0.52	Other (Aminocoumarin), Polyketide	esmeraldin	Streptomyces antibioticus
BGC0002008.1	0.51	Other	aryl polyenes	Xenorhabdus doucetiae
BGC0000836.1	0.51	Other	APE Ec	Escherichia coli CFT073
BGC0000041.1	0.49	Polyketide	oronofacic acid	Pseudomonas syringae
BGC0001281.1	0.47	Polyketide	ustilagic acid	Ustilago maydis 521
BGC0002010.1	0.46	NRP, Polyketide	streptophenazine B, streptophenazine C, streptophenazine F, streptophenazine G, streptophenazine H	Streptomyces sp. CNB091
BGC0001264.1	0.45	Polyketide	betaenone A, betaenone B, betaenone C	Phoma betae
BGC0001280.1	0.45	Polyketide	betaenone C, betaenone A	Phoma betae
BGC0001161.1	0.44	Polyketide	1-heptadecene	Moorea bouillonii PNG

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001909.1	0.65	Polyketide	strobilurin	Strobilurus tenacellus
BGC0001895.1	0.62	Polyketide	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0000888.1	0.61	Other	bacilysin	Bacillus sp. CS93
BGC0001184.1	0.61	Other	bacilysin	Bacillus velezensis FZB42
BGC0002034.1	0.61	Other	perquinoline A, perquinoline B, perquinoline C	Streptomyces sp. IB2014 016-6
BGC0001197.1	0.60	Polyketide	frankiamicin	Frankia sp. EAN1pec
BGC0000935.1	0.60	Other (Aminocoumarin), Polyketide	esmeraldin	Streptomyces antibioticus
BGC0000228.1	0.60	Polyketide	granaticin	Streptomyces violaceoruber
BGC0002016.1	0.60	Polyketide	lugdunomycin	Streptomyces sp. QL37
BGC0001177.1	0.60	Polyketide	mensacaricin	Streptomyces bottropensis

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

Expand to show all names

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 3, location 1066332 - 1157100:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - mal) + (ccmal - mal - mal - mal - mal) + (ccmal - ccmal - mal) + (mal - mal)
Non-colinear ordering:: ctg1_961 + ctg1_962 + ctg1_954 + ctg1_955 + ctg1_963 + ctg1_964 + ctg1_958 + ctg1_960 + ctg1_965

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_954

PKS_AT (13..295): mxmal

ATSignature: (unknown)

No matches above 50%

minowa: Methoxymalonyl-CoA

Prediction, score:

Methoxymalonyl-CoA: 25.8
Propionyl-CoA: 20.3
Methylmalonyl-CoA: 18.5
inactive: 11.6
Malonyl-CoA: 7.4
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

ctg1_958

PKS_AT (4..281): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 79.2%; inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 102.5
inactive: 39.6
Methoxymalonyl-CoA: 37.2
Methylmalonyl-CoA: 23.6
2-Methylbutyryl-CoA: 13.5
Propionyl-CoA: 13.0
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

ctg1_961

CAL_domain (174..488): pk

minowa: Acetyl-CoA

Prediction, score:

Acetyl-CoA: 57.4
NH2: 22.2
AHBA: 12.8
shikimic_acid: 0.0
fatty_acid: 0.0

NZ_LR134406.1 - Region 4 - NRPS,NRPS-like

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Location: 2,955,414 - 3,027,918 nt. (total: 72,505 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))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

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
BGC0001343.1	0.52	Polyketide	aurachin A, aurachin D	Stigmatella aurantiaca Sg a15
BGC0001538.1	0.47	NRP, Polyketide	caboxamycin	Streptomyces sp. NTK 937
BGC0000935.1	0.47	Other (Aminocoumarin), Polyketide	esmeraldin	Streptomyces antibioticus
BGC0000662.1	0.46	Terpene	grixazone	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000373.1	0.45	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0001444.1	0.45	Other	caboxamycin	Streptomyces sp. NTK 937
BGC0000389.1	0.44	NRP	massetolide A	Pseudomonas fluorescens SS101
BGC0001833.1	0.43	NRP	icosalide A, icosalide B	Burkholderia gladioli
BGC0001591.1	0.42	Other	fatty acid enol ester	uncultured bacterium CSLC2
BGC0001688.1	0.42	Other	N-tetradecanoyl tyrosine	uncultured bacterium CSLC2

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000373.1	0.63	NRP	holomycin	Streptomyces clavuligerus ATCC 27064
BGC0001343.1	0.61	Polyketide	aurachin A, aurachin D	Stigmatella aurantiaca Sg a15
BGC0000935.1	0.59	Other (Aminocoumarin), Polyketide	esmeraldin	Streptomyces antibioticus
BGC0000351.1	0.58	NRP	exochelin	Mycolicibacterium smegmatis
BGC0000662.1	0.57	Terpene	grixazone	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000389.1	0.57	NRP	massetolide A	Pseudomonas fluorescens SS101
BGC0001444.1	0.57	Other	caboxamycin	Streptomyces sp. NTK 937
BGC0001538.1	0.57	NRP, Polyketide	caboxamycin	Streptomyces sp. NTK 937
BGC0001469.1	0.55	NRP	marthiapeptide A	Brevibacillus sp. Leaf182
BGC0001591.1	0.54	Other	fatty acid enol ester	uncultured bacterium CSLC2

Similar known gene clusters

No matches found.

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 4, location 2955413 - 3027918:

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

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

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 5, location 2955413 - 3020354:

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

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

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 6, location 2985950 - 3027918:

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

Polymer prediction:: (cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_2651

Search NORINE for peptide: strict or relaxed

AMP-binding (553..948): 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:: DLFNLSgIWK
Nearest Stachelhaus code:: cys
Stachelhaus code match:: 90% (moderate)

AMP-binding (1597..1981): 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:: DLfNiSMIWK
Nearest Stachelhaus code:: cys
Stachelhaus code match:: 80% (moderate)

ctg1_2652

Search NORINE for peptide: strict or relaxed

AMP-binding (509..889): 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:: DLFNLSLIWK
Nearest Stachelhaus code:: cys
Stachelhaus code match:: 100% (strong)

ctg1_2654

Search NORINE for peptide: strict or relaxed

AMP-binding (21..416): X

NRPSPredictor2: hydrophobic-aliphatic

SVM prediction details:

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:: egaFVAamLK
Nearest Stachelhaus code:: ala
Stachelhaus code match:: 50% (weak)

ctg1_2661

Search NORINE for peptide: strict or relaxed

AMP-binding (526..920): 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:: DLYNLSLIWK
Nearest Stachelhaus code:: cys
Stachelhaus code match:: 100% (strong)

ctg1_2666

Search NORINE for peptide: strict or relaxed

AMP-binding (32..426): X

NRPSPredictor2: dhb, sal

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: TMPpwGVVaK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 70% (weak)

ctg1_2667

Search NORINE for peptide: strict or relaxed

AMP-binding (158..558): 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:: AnPAlGVVcK
Nearest Stachelhaus code:: dhb
Stachelhaus code match:: 70% (weak)