GCF_000550785.1_ASM55078v1_genomic - 3 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_CP004350.1

Region	Type	From	To	Most similar known cluster		Similarity
Region 1.1	lanthipeptide-class-iii,furan	2,503,138	2,535,297
Region 1.2	terpene,NAPAA	2,726,269	2,779,669	carotenoid	Terpene	25%
Region 1.3	T1PKS	2,871,532	2,916,433

Region	Type	From	To	Most similar known cluster	Similarity
Region 1.1	lanthipeptide-class-iii,furan	2,503,138	2,535,297
Region 1.2	terpene,NAPAA	2,726,269	2,779,669	carotenoid	Terpene	25%
Region 1.3	T1PKS	2,871,532	2,916,433

No secondary metabolite regions were found in these records:: NZ_CP004351.1; NZ_CP004352.1

Compact view

NZ_CP004350.1 - Region 1 - furan,lanthipeptide-class-iii

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Location: 2,503,138 - 2,535,297 nt. (total: 32,160 nt) Show pHMM detection rules used

lanthipeptide-class-iii: (micKC and not PKS_KS)
furan: (mmyO or AvrD)

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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

Lanthipeptides

Pfam domains

TIGRFAM domains

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000553.1	0.63	RiPP	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000551.1	0.59	RiPP	SapB	Streptomyces coelicolor A3(2)
BGC0000501.1	0.59	RiPP	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000518.1	0.57	RiPP	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000496.1	0.52	RiPP	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000513.1	0.48	RiPP	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000519.1	0.40	RiPP	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000540.1	0.36	RiPP	paenibacillin	Paenibacillus polymyxa OSY-DF
BGC0000560.1	0.35	RiPP	subtilomycin	Bacillus subtilis
BGC0001176.1	0.34	RiPP	streptomonomicin	Streptomonospora alba

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000553.1	0.67	RiPP	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000551.1	0.66	RiPP	SapB	Streptomyces coelicolor A3(2)
BGC0000501.1	0.66	RiPP	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000518.1	0.62	RiPP	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000513.1	0.61	RiPP	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000496.1	0.56	RiPP	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000552.1	0.56	RiPP	SmbA, SmbB	Streptococcus mutans
BGC0000497.1	0.55	RiPP	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000519.1	0.54	RiPP	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000517.1	0.53	RiPP	haloduracin β, haloduracin α	Bacillus halodurans C-125

Similar known gene clusters

No matches found.

Lanthipeptide predictions

Lanthipeptide(s) for ctg1_2333 - Putative Class III

ctg1_2326 leader / core peptide: VDKILAFQSMAGETETHDGAR - VDhaDhbVDhaVIPPCPGWPDhaAVDhbFGNC
ctg1_2334 leader / core peptide: VNNVLELQKLELKDHAMAAH - PIDhaDhbDhaDhaLFDhaCDhbEDhaDhbIDhaFLNCG

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_2326 - Class III

Cleavage pHMM score: -3.10

RODEO score: 0

Monoisotopic mass: 2127.1 Da

Molecular weight: 2128.5 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2146.5 Da N = 1; 2164.5 Da N = 2; 2182.5 Da N = 3

ctg1_2334 - Class III

Cleavage pHMM score: 7.30

RODEO score: 0

Monoisotopic mass: 2031.0 Da

Molecular weight: 2032.3 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2050.3 Da N = 1; 2068.3 Da N = 2; 2086.3 Da N = 3; 2104.3 Da N = 4; 2122.4 Da N = 5; 2140.4 Da N = 6; 2158.4 Da N = 7

NZ_CP004350.1 - Region 2 - NAPAA,terpene

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Location: 2,726,269 - 2,779,669 nt. (total: 53,401 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)
NAPAA: (AMP-binding and PP-binding and TIGR02353)

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
BGC0000650.1	0.27	Terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000466.1	0.26	NRP	yatakemycin	Streptomyces sp. TP-A2060
BGC0000648.1	0.24	Terpene	carotenoid	Myxococcus xanthus
BGC0001122.1	0.21	NRP, Polyketide	dihydroisoflavipucine, isoflavipucine	Aspergillus terreus NIH2624
BGC0000427.1	0.21	NRP	shinorine, 4-deoxygadusol, mycosporine glycine	Trichormus variabilis ATCC 29413
BGC0001758.1	0.18	NRP	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001128.1	0.18	NRP	luminmide	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.1	0.18	NRP	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.1	0.18	NRP	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001844.1	0.18	NRP	holrhizin	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000650.1	0.66	Terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000648.1	0.66	Terpene	carotenoid	Myxococcus xanthus
BGC0000649.1	0.60	Terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000664.1	0.57	Terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000634.1	0.56	Terpene	carotenoid	Brevundimonas sp. SD212
BGC0000656.1	0.56	Terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0000643.1	0.56	Terpene	carotenoid	Brevundimonas vesicularis
BGC0000637.1	0.55	Terpene	carotenoid	Corynebacterium glutamicum
BGC0000375.1	0.54	NRP	indigoidine	Streptomyces chromofuscus
BGC0000427.1	0.53	NRP	shinorine, 4-deoxygadusol, mycosporine glycine	Trichormus variabilis ATCC 29413

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 2, location 2726268 - 2779669:

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

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 2745778 - 2779669:

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

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg1_2559

Search NORINE for peptide: strict or relaxed

AMP-binding (39..410): X

NRPSPredictor2: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: DAESIGtVvK
Nearest Stachelhaus code:: lys
Stachelhaus code match:: 80% (moderate)

NZ_CP004350.1 - Region 3 - T1PKS

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Location: 2,871,532 - 2,916,433 nt. (total: 44,902 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))

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
BGC0001909.1	0.32	Polyketide	strobilurin	Strobilurus tenacellus
BGC0001831.1	0.24	Polyketide	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0001163.1	0.21	Polyketide	1-heptadecene	Moorea producens 3L
BGC0001162.1	0.21	Polyketide	1-heptadecene	Moorea producens JHB
BGC0001161.1	0.21	Polyketide	1-heptadecene	Moorea bouillonii PNG
BGC0000044.1	0.20	Polyketide	dawenol	Stigmatella aurantiaca DW4/3-1
BGC0000138.1	0.19	Polyketide	rimocidin	Streptomyces diastaticus
BGC0001264.1	0.19	Polyketide	betaenone A, betaenone B, betaenone C	Phoma betae
BGC0001280.1	0.19	Polyketide	betaenone C, betaenone A	Phoma betae
BGC0001276.1	0.19	Polyketide	6-methylsalicyclic acid	Aspergillus terreus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001909.1	0.65	Polyketide	strobilurin	Strobilurus tenacellus
BGC0001831.1	0.57	Polyketide	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0001163.1	0.54	Polyketide	1-heptadecene	Moorea producens 3L
BGC0001162.1	0.54	Polyketide	1-heptadecene	Moorea producens JHB
BGC0001161.1	0.54	Polyketide	1-heptadecene	Moorea bouillonii PNG
BGC0000044.1	0.53	Polyketide	dawenol	Stigmatella aurantiaca DW4/3-1
BGC0000138.1	0.51	Polyketide	rimocidin	Streptomyces diastaticus
BGC0001264.1	0.51	Polyketide	betaenone A, betaenone B, betaenone C	Phoma betae
BGC0001280.1	0.51	Polyketide	betaenone C, betaenone A	Phoma betae
BGC0001276.1	0.51	Polyketide	6-methylsalicyclic acid	Aspergillus terreus

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 5, location 2871531 - 2916433:

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_2668

PKS_AT (647..946): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 62.5%

minowa: fatty_acid

Prediction, score:

fatty_acid: 111.0
Methylmalonyl-CoA: 62.2
Methoxymalonyl-CoA: 61.1
Malonyl-CoA: 55.4
Ethylmalonyl-CoA: 36.8
trans-1,2-CPDA: 33.0
Propionyl-CoA: 32.5
Acetyl-CoA: 31.6
CHC-CoA: 21.3
Isobutyryl-CoA: 19.0
inactive: 12.7
2-Methylbutyryl-CoA: 10.3
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

ctg1_2669

Search NORINE for peptide: strict or relaxed

AMP-binding (48..513): 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:: DmlaIGSllK
Nearest Stachelhaus code:: orn
Stachelhaus code match:: 50% (weak)