GCF_900110735.1 - 25 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_FOET01000026.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 12.1	HR-T2PKS,NRPS-like,NRPS	1	30,256	Medium	WS9326A/WS9326C/WS9326D	NRPS:Type I

NZ_FOET01000008.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 16.1	RiPP-like	130,944	142,390

NZ_FOET01000007.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 19.1	terpene	74,332	101,473	High	isorenieratene	terpene
Region 19.2	NI-siderophore	176,830	206,659	High	legonoxamine A/desferrioxamine B/legonoxamine B	other:other

NZ_FOET01000006.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 22.1	terpene	26,159	47,268	High	pristinol	terpene
Region 22.2	hglE-KS,T1PKS	70,810	124,318

NZ_FOET01000019.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 24.1	T3PKS	1	32,657	High	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone/2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	PKS:Type III
Region 24.2	terpene-precursor	105,319	116,720

NZ_FOET01000003.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 25.1	NI-siderophore	19,979	53,190	Low	nonactin/monactin/dinactin/trinactin/tetranactin	PKS
Region 25.2	ectoine	103,128	113,502	Low	showdomycin	other:other
Region 25.3	PKS-like,T2PKS,betalactone,azole-containing-RiPP	490,098	564,585	Low	trioxacarcin A	PKS

NZ_FOET01000005.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 27.1	NRPS-like	156,224	199,280
Region 27.2	linaridin	226,376	246,918	Low	legonaridin	ribosomal:RiPP

NZ_FOET01000002.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 28.1	azole-containing-RiPP	8,694	31,223	High	streptamidine	ribosomal:unmodified
Region 28.2	terpene	127,425	151,860	Low	hopene	terpene

NZ_FOET01000001.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 30.1	lassopeptide	186,740	209,308	High	keywimysin	ribosomal:RiPP
Region 30.2	lanthipeptide-class-iii	576,133	598,877	High	SapB	ribosomal:RiPP:Lanthipeptide
Region 30.3	ectoine	1,025,800	1,036,204	High	ectoine	other:other

NZ_FOET01000004.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 32.1	NRPS,lanthipeptide-class-ii,T2PKS,NRPS-like,lassopeptide	67,845	204,080	Medium	spore pigment	PKS
Region 32.2	terpene-precursor	215,585	236,778
Region 32.3	betalactone	379,683	407,263

NZ_FOET01000016.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 35.1	NI-siderophore	20,064	49,998

NZ_FOET01000021.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 37.1	NRPS	41,438	68,989	Low	thiazostatin/watasemycin A/watasemycin B/2-hydroxyphenylthiazoline enantiopyochelin/isopyochelin	NRPS:Type I

NZ_FOET01000017.1 (Streptomyces radiopugnans)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 38.1	T1PKS,NRPS	21,242	73,812	High	antimycin A1B	NRPS:Type I+PKS
Region 38.2	arylpolyene,NRPS	81,817	126,730	Low	WS9326A/WS9326C/WS9326D	NRPS:Type I

No secondary metabolite regions were found in these records:: NZ_FOET01000040.1 (Streptomyces radiopugnans); NZ_FOET01000039.1 (Streptomyces radiopugnans); NZ_FOET01000038.1 (Streptomyces radiopugnans); NZ_FOET01000033.1 (Streptomyces radiopugnans); NZ_FOET01000032.1 (Streptomyces radiopugnans); NZ_FOET01000029.1 (Streptomyces radiopugnans); NZ_FOET01000028.1 (Streptomyces radiopugnans); NZ_FOET01000037.1 (Streptomyces radiopugnans); NZ_FOET01000027.1 (Streptomyces radiopugnans); NZ_FOET01000035.1 (Streptomyces radiopugnans); NZ_FOET01000031.1 (Streptomyces radiopugnans); NZ_FOET01000024.1 (Streptomyces radiopugnans); NZ_FOET01000023.1 (Streptomyces radiopugnans); NZ_FOET01000009.1 (Streptomyces radiopugnans); NZ_FOET01000036.1 (Streptomyces radiopugnans); NZ_FOET01000034.1 (Streptomyces radiopugnans); NZ_FOET01000030.1 (Streptomyces radiopugnans); NZ_FOET01000018.1 (Streptomyces radiopugnans); NZ_FOET01000011.1 (Streptomyces radiopugnans); NZ_FOET01000010.1 (Streptomyces radiopugnans); NZ_FOET01000012.1 (Streptomyces radiopugnans); NZ_FOET01000025.1 (Streptomyces radiopugnans); NZ_FOET01000013.1 (Streptomyces radiopugnans); NZ_FOET01000014.1 (Streptomyces radiopugnans); NZ_FOET01000015.1 (Streptomyces radiopugnans); NZ_FOET01000022.1 (Streptomyces radiopugnans); NZ_FOET01000020.1 (Streptomyces radiopugnans)

Compact view

NZ_FOET01000026.1 - Region 1 - HR-T2PKS,NRPS,NRPS-like

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Location: 1 - 30,256 nt. (total: 30,256 nt) Show pHMM detection rules used

Region on contig edge.

HR-T2PKS: (hr-t2pks-ksa and (t2fas or APE_KS2 or ketoacyl-synt))
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

BMY40_RS26725: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BMY40_RS26770: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

BMY40_RS26790: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

BMY40_RS26805: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: esterase

BMY40_RS26810: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: ligase synthase

BMY40_RS26745: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

BMY40_RS26750: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS26755: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS26760: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS26795: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS26800: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS26815: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	1.77	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	1.56	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	1.51	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	1.49	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	1.43	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001297.4	1.41	NRPS	WS9326A, WS9326C, WS9326D	Streptomyces calvus
BGC0001825.4	1.41	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001641.4	1.39	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	1.38	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002377.2	1.37	NRPS	WS9326B, WS9326A, WS9326G, WS9326F	Streptomyces sp. SNM55

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.75	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.70	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.68	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.68	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001641.4	0.68	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001297.4	0.68	NRPS	WS9326A, WS9326C, WS9326D	Streptomyces calvus
BGC0001758.4	0.67	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002164.2	0.67	NRPS	peramine	Epichloe festucae

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.61 out of 23.79

Confidence: medium

Additional weak hits (4):

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.48 out of 27.55

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.80 out of 30.25

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.63 out of 20.97

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 30256:

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

Polymer prediction:: (Asn) + (aThr) + (Ser)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 1441 - 30256:

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

Polymer prediction:: (Asn) + (aThr) + (Ser)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 6170 - 30256:

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

Polymer prediction:: (Asn) + (aThr) + (Ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS26795: Asn

Search NORINE for peptide: strict or relaxed

AMP-binding (9..406): Asn

nrpys: Asn

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: asp,asn (Asp, Asn)
Single AA prediction:: asn (Asn)

Stachelhaus prediction details:

Stachelhaus sequence:: YFASFDLTVTAGKAVVGGEINEYGPTEATVGCCT
Nearest Stachelhaus code(s):: Asn DLTKVGEVGK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

BMY40_RS26800: aThr

Search NORINE for peptide: strict or relaxed

AMP-binding (435..832): aThr

nrpys: aThr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: LATHFDFSVWEGSQVFGGEVNMYGITETTVHVTA
Nearest Stachelhaus code(s):: aThr DFWSVGMVHK (100% 8Å match); Thr DFWSVGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

BMY40_RS26815: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (511..917): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: RWMTFDVSVWEWHFLVSGEHNLYGPTEASVDVTA
Nearest Stachelhaus code(s):: Ser DVWHLSLVDK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism

NZ_FOET01000008.1 - Region 1 - RiPP-like

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Location: 130,944 - 142,390 nt. (total: 11,447 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: deacetylase

BMY40_RS16360: polysaccharide deacetylase

smcogs: SMCOG1235: polysaccharide deacetylase

Similar gene clusters

Analysis type:

Reference	RiPP-like	Similarity score	Type	Compound(s)	Organism
BGC0000197.5		0.20	PKS, saccharide	aranciamycin	Streptomyces echinatus

Reference	Aggregated	Similarity score	Type	Compound(s)	Organism
BGC0000197.5		0.20	PKS, saccharide	aranciamycin	Streptomyces echinatus

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (1):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.63 out of 31.73

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description

NZ_FOET01000007.1 - Region 1 - terpene

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Location: 74,332 - 101,473 nt. (total: 27,142 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase reductase synthase

BMY40_RS15145: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

BMY40_RS15170: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

BMY40_RS15185: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

BMY40_RS15200: riboflavin biosynthesis protein RibD

smcogs: SMCOG1240: riboflavin biosynthesis protein RibD

BMY40_RS15230: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

Transferases: methyltransferase

BMY40_RS15155: methyltransferase

smcogs: SMCOG1089: methyltransferase

BMY40_RS15190: methyltransferase

smcogs: SMCOG1089: methyltransferase

BMY40_RS15225: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: synthase

BMY40_RS15200: riboflavin biosynthesis protein RibD

smcogs: SMCOG1240: riboflavin biosynthesis protein RibD

Ligases: synthetase

BMY40_RS15175: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.67	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000649.3	0.62	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.62	terpene	isorenieratene	Streptomyces argillaceus
BGC0000633.3	0.62	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.61	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000645.3	0.57	terpene	carotenoid	Halobacillus halophilus DSM 2266
BGC0000648.3	0.53	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.52	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000646.5	0.51	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.50	terpene	carotenoid	Enterobacteriaceae bacterium DC404

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.67	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000649.3	0.62	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.62	terpene	isorenieratene	Streptomyces argillaceus
BGC0000633.3	0.62	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.61	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000645.3	0.57	terpene	carotenoid	Halobacillus halophilus DSM 2266
BGC0000648.3	0.53	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.52	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000646.5	0.51	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.50	terpene	carotenoid	Enterobacteriaceae bacterium DC404

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
tetraterpene	C40 carotenoid		C40	unknown	unknown

Genes with terpene domains:

BMY40_RS15150: Lycopene_cycl

Domain 1 (4 - 386): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

BMY40_RS15165: PT_phytoene_like

Domain 1 (16 - 308): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → diapophytoene; FPP → squalene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

BMY40_RS15175: PT_FPPS_like

Domain 1 (101 - 409): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.77 out of 29.51

Confidence: medium

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 25.27 out of 29.51

Confidence: medium

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.47 out of 29.51

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.68 out of 30.12

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.90 out of 30.12

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.68 out of 30.12

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (9):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.02 out of 27.78

Confidence: weak

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 17.94 out of 23.05

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.01 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 16.47 out of 36.54

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.58 out of 29.38

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.10 out of 25.88

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.97 out of 30.22

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
DosR	Hypoxia stress response regulator
OsdR	Development and stress management regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000007.1 - Region 2 - NI-siderophore

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Location: 176,830 - 206,659 nt. (total: 29,830 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

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MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

BMY40_RS15550: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS15570: NADH:flavin oxidoreductase/NADH oxidase

smcogs: SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

BMY40_RS15615: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

BMY40_RS15665: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Lyases: decarboxylase hydratase

BMY40_RS15560: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

BMY40_RS15620: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Ligases: ligase

BMY40_RS15555: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002305.2	0.83	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001478.5	0.83	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.83	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000940.5	0.82	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.82	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0001572.3	0.70	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.68	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0002073.3	0.66	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002464.3	0.63	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002620.2	0.56	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002305.2	0.83	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001478.5	0.83	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.83	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000940.5	0.82	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.82	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0001572.3	0.70	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.68	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0002073.3	0.66	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002464.3	0.63	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002620.2	0.56	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.39 out of 19.26

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 29.03 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.73 out of 36.53

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.00 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.77 out of 23.79

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 20.57 out of 25.31

Confidence: medium

Additional weak hits (14):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.41 out of 25.75

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.53 out of 26.85

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.15 out of 26.06

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.73 out of 20.97

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.11 out of 21.55

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.07 out of 30.25

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.29 out of 32.93

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.21 out of 39.62

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.40 out of 36.53

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.48 out of 24.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.64 out of 26.06

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.46 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.24 out of 28.19

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CatR	H2O2-responsive repressor
DmdR1	Iron(II)-dependent repressor
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000006.1 - Region 1 - terpene

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Location: 26,159 - 47,268 nt. (total: 21,110 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

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KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

BMY40_RS13965: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Lyases: cyclase

BMY40_RS13955: Terpene synthase/cyclase metal-binding domain protein

smcogs: SMCOG1052: Terpene synthase/cyclase metal-binding domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001746.3	0.81	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0000683.3	0.77	terpene	avermitilol	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000674.5	0.41	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0002557.2	0.39	terpene	penifulvin A	Penicillium griseofulvum
BGC0000043.5	0.36	PKS	curacin A	Moorea producens 19L
BGC0001810.3	0.35	PKS	trehangelin	Polymorphospora rubra
BGC0001521.3	0.35	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000678.5	0.34	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000518.3	0.33	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002007.2	0.31	terpene	atolypene A, atolypene B	Amycolatopsis tolypomycina

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001746.3	0.81	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0000683.3	0.77	terpene	avermitilol	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000674.5	0.41	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0002557.2	0.39	terpene	penifulvin A	Penicillium griseofulvum
BGC0000043.5	0.36	PKS	curacin A	Moorea producens 19L
BGC0001810.3	0.35	PKS	trehangelin	Polymorphospora rubra
BGC0001521.3	0.35	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000678.5	0.34	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000518.3	0.33	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002007.2	0.31	terpene	atolypene A, atolypene B	Amycolatopsis tolypomycina

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene			C15	C1-C11	none

Genes with terpene domains:

BMY40_RS13955: T1TS

Domain 1 (13 - 332): Type 1 terpene synthase

Subtype: Isoafricanol synthase type

Reactions:: FPP → sesquiterpene_C1-C11

Transcription Factor Binding Sites

Binding sites found:

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

Additional weak hits (3):

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.90 out of 33.73

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 14.73 out of 20.97

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.54 out of 24.78

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator

NZ_FOET01000006.1 - Region 2 - T1PKS,hglE-KS

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Location: 70,810 - 124,318 nt. (total: 53,509 nt) Show pHMM detection rules used

hglE-KS: (hglE or hglD)
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

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

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KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidase

BMY40_RS14220: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS14225: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS14240: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BMY40_RS14265: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

Transferases: PPTase acylase acyltransferase

BMY40_RS14170: acyltransferase

smcogs: SMCOG1141: acyltransferase

BMY40_RS14215: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

BMY40_RS14230: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Ligases: synthase

BMY40_RS14235: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS14245: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.64	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0000869.5	0.60	other (other)	heterocyst glycolipids	Nostoc sp. 'Peltigera membranacea cyanobiont'
BGC0002648.2	0.53	PKS	eicosapentaenoic acid	Shewanella sp. N2AIL
BGC0000863.3	0.53	other (other)	eicosapentaenoic acid	Pseudoalteromonas sp. DS-12
BGC0000861.5	0.53	other (other)	eicosapentaenoic acid	Shewanella sp. BR-2
BGC0001160.5	0.53	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.52	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0000862.3	0.48	other (other)	eicosapentaenoic acid	Shewanella pneumatophori

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.65	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.65	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.65	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0000869.5	0.63	other (other)	heterocyst glycolipids	Nostoc sp. 'Peltigera membranacea cyanobiont'
BGC0002648.2	0.60	PKS	eicosapentaenoic acid	Shewanella sp. N2AIL
BGC0000863.3	0.60	other (other)	eicosapentaenoic acid	Pseudoalteromonas sp. DS-12
BGC0000861.5	0.60	other (other)	eicosapentaenoic acid	Shewanella sp. BR-2
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.60	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0000862.3	0.58	other (other)	eicosapentaenoic acid	Shewanella pneumatophori

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 20.47 out of 20.47

Confidence: strong

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.11 out of 23.79

Confidence: medium

Additional weak hits (28):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.65 out of 18.57

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.37 out of 25.75

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.77 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.34 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.82 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.98 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.43 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.53 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.84 out of 26.06

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.55 out of 18.57

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.60 out of 31.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.76 out of 26.33

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.24 out of 21.55

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.27 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.75 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.90 out of 31.73

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.22 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.32 out of 29.25

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.85 out of 28.14

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.23 out of 31.73

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.85 out of 18.57

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.41 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.36 out of 26.06

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.13 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.75 out of 27.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.53 out of 21.84

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.26 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 70809 - 124318:

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 substrate predictions

BMY40_RS14235: mxmal

PKS_AT (1068..1388): mxmal

ATSignature: (unknown)

No matches above 50%

minowa: Methoxymalonyl-CoA

Prediction, score:

Methoxymalonyl-CoA: 20.2
Methylmalonyl-CoA: 12.1
Malonyl-CoA: 12.0
Acetyl-CoA: 9.6
trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

BMY40_RS14245: mal

PKS_AT (581..879): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 58.3%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 86.5
Methoxymalonyl-CoA: 58.8
Methylmalonyl-CoA: 41.8
inactive: 37.8
CHC-CoA: 30.3
Propionyl-CoA: 24.0
Isobutyryl-CoA: 19.8
Ethylmalonyl-CoA: 17.7
2-Methylbutyryl-CoA: 15.5
Acetyl-CoA: 15.1
fatty_acid: 14.9
trans-1,2-CPDA: 11.7
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000019.1 - Region 1 - T3PKS

Download region GenBank file

Download region SVG

Location: 1 - 32,657 nt. (total: 32,657 nt) Show pHMM detection rules used

Region on contig edge.

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

BMY40_RS24510: oxidoreductase

smcogs: SMCOG1161: oxidoreductase

BMY40_RS24525: oxidoreductase

smcogs: SMCOG1161: oxidoreductase

Transferases: aminotransferase methyltransferase

BMY40_RS24495: aminotransferase

smcogs: SMCOG1019: aminotransferase

BMY40_RS24520: Methylation

MITE: MITE0000155Methylation (identity: 69.90%)
smcogs: SMCOG1150: isoprenylcysteine carboxyl methyltransferase

Ligases: synthase

BMY40_RS24515: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.82	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001831.3	0.53	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0000678.5	0.47	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001226.4	0.43	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0001647.3	0.43	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0000563.4	0.43	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0002362.3	0.42	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0000652.5	0.42	terpene	napyradiomycin	Streptomyces sp. CNQ525
BGC0001779.5	0.41	ribosomal	siamycin	Streptomyces nodosus
BGC0001660.3	0.41	ribosomal	mathermycin	Marinactinospora thermotolerans

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.82	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001831.3	0.53	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0000678.5	0.47	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001226.4	0.43	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0001647.3	0.43	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0000563.4	0.43	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0002362.3	0.42	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0000652.5	0.42	terpene	napyradiomycin	Streptomyces sp. CNQ525
BGC0001779.5	0.41	ribosomal	siamycin	Streptomyces nodosus
BGC0001660.3	0.41	ribosomal	mathermycin	Marinactinospora thermotolerans

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.82 out of 18.46

Confidence: medium

Additional weak hits (7):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.17 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.94 out of 26.06

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 16.55 out of 36.54

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.76 out of 18.57

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.34 out of 26.12

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 13.91 out of 21.55

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.82 out of 28.19

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
RpoN	Regulator of nitrogen assimilation and virulence

NZ_FOET01000019.1 - Region 2 - terpene-precursor

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Location: 105,319 - 116,720 nt. (total: 11,402 nt) Show pHMM detection rules used

Region on contig edge.

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: PPTase

BMY40_RS24915: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

Ligases: synthetase

BMY40_RS24950: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Translocases: transport

BMY40_RS24945: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.37	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0000643.3	0.35	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.35	terpene	carotenoid	Brevundimonas sp. SD212
BGC0000678.5	0.35	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000665.5	0.34	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000636.3	0.33	terpene	carotenoid	Brevibacterium linens
BGC0000637.3	0.32	terpene	carotenoid	Corynebacterium glutamicum
BGC0002138.2	0.32	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.37	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0000643.3	0.35	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.35	terpene	carotenoid	Brevundimonas sp. SD212
BGC0000678.5	0.35	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000665.5	0.34	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000636.3	0.33	terpene	carotenoid	Brevibacterium linens
BGC0000637.3	0.32	terpene	carotenoid	Corynebacterium glutamicum
BGC0002138.2	0.32	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

BMY40_RS24950: PT_FPPS_like

Domain 1 (69 - 347): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (5):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.98 out of 32.74

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.40 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.13 out of 30.25

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.49 out of 25.88

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.10 out of 30.11

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description

NZ_FOET01000003.1 - Region 1 - NI-siderophore

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Location: 19,979 - 53,190 nt. (total: 33,212 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

BMY40_RS07560: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS07615: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

Transferases: acetyltransferase

BMY40_RS07650: Chloramphenicol acetyltransferase

smcogs: SMCOG1156: Chloramphenicol acetyltransferase

Lyases: decarboxylase

BMY40_RS07605: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

BMY40_RS28485: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002469.2	0.63	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0001478.5	0.62	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0002692.2	0.61	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0000941.3	0.60	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001572.3	0.59	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001531.5	0.58	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0001499.5	0.57	other (other)	aerobactin	Pantoea ananatis
BGC0002305.2	0.57	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0002527.2	0.55	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0000295.5	0.54	NRPS	acinetoferrin	Acinetobacter haemolyticus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002469.2	0.63	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0001478.5	0.62	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0002692.2	0.61	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0000941.3	0.60	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001572.3	0.59	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001531.5	0.58	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0001499.5	0.57	other (other)	aerobactin	Pantoea ananatis
BGC0002305.2	0.57	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0002527.2	0.55	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0000295.5	0.54	NRPS	acinetoferrin	Acinetobacter haemolyticus

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.88 out of 26.85

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 36.53 out of 36.53

Confidence: strong

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.23 out of 19.52

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.07 out of 30.12

Confidence: medium

Additional weak hits (8):

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.80 out of 19.26

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.90 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.04 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.39 out of 28.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.21 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.71 out of 28.19

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.23 out of 24.78

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
DmdR1	Iron(II)-dependent repressor
OsdR	Development and stress management regulator
RutR	Regulator of the pyrimidine and purine metabolism

NZ_FOET01000003.1 - Region 2 - ectoine

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Location: 103,128 - 113,502 nt. (total: 10,375 nt) Show pHMM detection rules used

ectoine: ectoine_synt

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

BMY40_RS07935: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000375.5	0.49	NRPS	indigoidine	Streptomyces chromofuscus
BGC0000859.3	0.49	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0002295.3	0.49	NRPS, saccharide	minimycin, indigoidine	Streptomyces hygroscopicus
BGC0000857.3	0.44	other (other)	ectoine	Methylophaga alcalica
BGC0000854.3	0.43	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z
BGC0001954.2	0.36	NRPS, PKS	wortmanamide A, wortmanamide B	Talaromyces wortmannii
BGC0002058.3	0.35	NRPS, PKS	mutanocyclin	Streptococcus mutans B04Sm5
BGC0002287.2	0.35	NRPS	mutanocyclin, leuvalin, tyrvalin	Streptococcus mutans
BGC0001778.5	0.33	other (other)	showdomycin	Streptomyces showdoensis
BGC0000195.5	0.33	PKS	alnumycin A, alnumycin B, alnumycin C, alnumycin P, prealnumycin, thalnumycin A, thalnumycin B, K1115A, 1,6-dihydro-8-propylanthraquinone	Streptomyces sp. CM020

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000375.5	0.49	NRPS	indigoidine	Streptomyces chromofuscus
BGC0000859.3	0.49	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0002295.3	0.49	NRPS, saccharide	minimycin, indigoidine	Streptomyces hygroscopicus
BGC0000857.3	0.44	other (other)	ectoine	Methylophaga alcalica
BGC0000854.3	0.43	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z
BGC0001954.2	0.36	NRPS, PKS	wortmanamide A, wortmanamide B	Talaromyces wortmannii
BGC0002058.3	0.35	NRPS, PKS	mutanocyclin	Streptococcus mutans B04Sm5
BGC0002287.2	0.35	NRPS	mutanocyclin, leuvalin, tyrvalin	Streptococcus mutans
BGC0001778.5	0.33	other (other)	showdomycin	Streptomyces showdoensis
BGC0000195.5	0.33	PKS	alnumycin A, alnumycin B, alnumycin C, alnumycin P, prealnumycin, thalnumycin A, thalnumycin B, K1115A, 1,6-dihydro-8-propylanthraquinone	Streptomyces sp. CM020

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (10):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.74 out of 29.38

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.18 out of 30.25

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.76 out of 31.73

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.00 out of 27.78

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 22.53 out of 33.73

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.49 out of 19.26

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.93 out of 29.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.93 out of 30.25

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.70 out of 28.19

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description

NZ_FOET01000003.1 - Region 3 - PKS-like,T2PKS,azole-containing-RiPP,betalactone

Download region GenBank file

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Location: 490,098 - 564,585 nt. (total: 74,488 nt) Show pHMM detection rules used

PKS-like: (t2pks2 or ksIII)
T2PKS: (t2ks and t2clf)
betalactone: (HMGL-like and AMP-binding)
azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

BMY40_RS09725: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

BMY40_RS09730: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BMY40_RS09740: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

BMY40_RS09745: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

BMY40_RS09755: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

BMY40_RS09820: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: PPTase acylase transferase

BMY40_RS09830: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

BMY40_RS09860: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

BMY40_RS09880: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: amidase dehalogenase

BMY40_RS09765: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

BMY40_RS10000: amidase

smcogs: SMCOG1105: amidase

Lyases: cyclase dehydratase

BMY40_RS09760: L-carnitine dehydratase/bile acid-inducible

smcogs: SMCOG1189: L-carnitine dehydratase/bile acid-inducible

BMY40_RS09800: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

Ligases: ligase synthase

BMY40_RS09790: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

BMY40_RS09795: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

BMY40_RS09815: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS09865: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS09870: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001164.3	1.24	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	1.23	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000231.5	1.17	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0001135.5	1.14	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002075.3	1.08	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001128.4	1.08	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	1.07	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001163.3	1.00	PKS	1-heptadecene	Moorea producens 3L
BGC0001161.5	1.00	PKS	1-heptadecene	Moorea bouillonii PNG
BGC0001162.3	1.00	PKS	1-heptadecene	Moorea producens JHB

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.70	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0001164.3	0.66	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.66	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0000234.5	0.63	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001135.5	0.62	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000272.3	0.62	PKS	spore pigment	Streptomyces collinus
BGC0001723.5	0.61	PKS	oviedomycin	Streptomyces antibioticus
BGC0002075.3	0.61	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001128.4	0.60	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.60	NRPS	icosalide A, icosalide B	Burkholderia gladioli

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

Additional weak hits (12):

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.49 out of 30.97

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.60 out of 21.84

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.68 out of 32.74

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.45 out of 21.55

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.41 out of 19.26

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.70 out of 31.73

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.32 out of 30.98

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.52 out of 28.19

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.28 out of 32.93

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.28 out of 28.19

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

RREFinder

Type II PKS

TFBS Finder

Azole RiPPs

NRPS/PKS substrate predictions

BMY40_RS09815: NH2

CAL_domain (50..483): NH2

minowa: NH2

Prediction, score:

NH2: 164.3
fatty_acid: 35.3
AHBA: 9.6
Acetyl-CoA: 0.5
shikimic_acid: 0.0

BMY40_RS09825: mal

PKS_AT (95..376): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 79.2%; inactive: 66.7%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 121.3
Methoxymalonyl-CoA: 73.7
inactive: 71.1
Methylmalonyl-CoA: 70.4
Propionyl-CoA: 48.3
Ethylmalonyl-CoA: 44.6
2-Methylbutyryl-CoA: 32.2
trans-1,2-CPDA: 26.9
Isobutyryl-CoA: 26.8
fatty_acid: 11.9
CHC-CoA: 11.9
Acetyl-CoA: 10.5
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

BMY40_RS09880: mal

PKS_AT (262..552): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 46.4
Methoxymalonyl-CoA: 34.4
Methylmalonyl-CoA: 30.6
Propionyl-CoA: 27.8
inactive: 16.7
fatty_acid: 6.5
trans-1,2-CPDA: 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

Link to PARAS substrate predictor

RRE predictions

: RRE type: Goadsporin_CD_RRE; Location: 13 - 111; Score: 71.6; RRE type: NHLP_CD_RRE; Location: 13 - 107; Score: 46.8; RRE type: Cyanobactin_D_RRE; Location: 12 - 85; Score: 37.9

Type II PKS gene cluster prediction details

Cluster section:: 492045 to 564585
Starter unit(s):: 2-methylbutyryl-CoA (Score: 818.0; E-value: 0)
propionyl-CoA (Score: 140.0; E-value: 2.03e-41)
Malonyl elongations:: 8|9 (Score: 679.4; E-value: 3.2e-207)
Product molecular weight(s):: 2-methylbutyryl-CoA_8: 391 Da
2-methylbutyryl-CoA_9: 433 Da
propionyl-CoA_8: 363 Da
propionyl-CoA_9: 405 Da

BMY40_RS09720: CYC C5-C14 (Score: 483.3; E-value: 5.7e-148)
BMY40_RS09730: KR C9 (Score: 453.2; E-value: 5.8e-139)
BMY40_RS09795: KSIII (Score: 510.7; E-value: 4.1e-156); KSIII AKT74268.1_Trioxacarcin_2-methylbutyryl-CoA (Score: 495.0; E-value: 0.0)
BMY40_RS09800: CYC C7-C12 (Score: 448.1; E-value: 2.9e-137)
BMY40_RS09825: AT (Score: 194.0; E-value: 8.3e-60); AT ABC00730.1_Cosmomycin_propionyl-CoA (Score: 140.0; E-value: 2.03e-41)
BMY40_RS09865: KS (Score: 776.5; E-value: 1.4e-236)
BMY40_RS09870: CLF 8|9 (Score: 679.4; E-value: 3.2e-207)
BMY40_RS09875: ACP (Score: 117.6; E-value: 4.1e-37)
BMY40_RS09880: AT (Score: 421.1; E-value: 7.2e-129); AT ADB23379.1_TLN-05220/TLN-05223_2-methylbutyryl-CoA (Score: 323.0; E-value: 2.07e-105)

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production

Core peptide predictions

No core peptides found.

NZ_FOET01000005.1 - Region 1 - NRPS-like

Download region GenBank file

Download region SVG

Location: 156,224 - 199,280 nt. (total: 43,057 nt) Show pHMM detection rules used

NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

BMY40_RS13125: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

BMY40_RS13165: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: sulfotransferase

BMY40_RS13120: Sulfotransferase domain

extras: Sulfotransfer_5: Sulfotransferase domain

Hydrolases: hydrolase

BMY40_RS13095: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

BMY40_RS13185: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Ligases: ligase synthase

BMY40_RS13115: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS13130: argininosuccinate synthase

smcogs: SMCOG1291: argininosuccinate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002164.2	0.61	NRPS	peramine	Epichloe festucae
BGC0001135.5	0.60	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002276.2	0.60	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001249.5	0.60	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.59	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.59	NRPS	HC-toxin	Alternaria jesenskae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002164.2	0.61	NRPS	peramine	Epichloe festucae
BGC0001135.5	0.60	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002276.2	0.60	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001249.5	0.60	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.59	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.59	NRPS	HC-toxin	Alternaria jesenskae

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.49 out of 27.04

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.53 out of 23.79

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.68 out of 30.12

Confidence: medium

Additional weak hits (10):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.58 out of 25.88

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.55 out of 29.72

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.70 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.46 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.11 out of 29.38

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.50 out of 35.63

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 20.85 out of 33.14

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.74 out of 25.31

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 156223 - 199280:

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

Polymer prediction:: (Glu)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS13115: Glu

Search NORINE for peptide: strict or relaxed

AMP-binding (31..435): Glu

nrpys: Glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: glu (Glu)

Stachelhaus prediction details:

Stachelhaus sequence:: RYMSFDSSLWQWDFLLGGETNTYGPTEASIGSVF
Nearest Stachelhaus code(s):: Glu DVWHVGSIGK (56% 8Å match); Asp DSWKLGVVDK (50% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
DasR	N-acetylglucosamine dependent repressor
IolR	Regulator of the inositol catabolism
OsdR	Development and stress management regulator

NZ_FOET01000005.1 - Region 2 - linaridin

Download region GenBank file

Download region SVG

Location: 226,376 - 246,918 nt. (total: 20,543 nt) Show pHMM detection rules used

linaridin: (cypemycin or cypI)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

BMY40_RS13365: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Transferases: methyltransferase

BMY40_RS13380: methyltransferase

smcogs: SMCOG1248: methyltransferase

Hydrolases: hydrolase

BMY40_RS13420: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Translocases: permease

BMY40_RS13340: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001735.5	0.50	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001188.3	0.50	ribosomal	legonaridin	Streptomyces sp. CT34
BGC0000583.5	0.47	ribosomal	grisemycin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002319.3	0.45	ribosomal	salinipeptin A, salinipeptin B, salinipeptin C, salinipeptin D	Streptomyces sp.
BGC0000582.4	0.44	ribosomal	cypemycin	Streptomyces sp. OH-4156
BGC0001226.4	0.42	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000501.3	0.42	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0001779.5	0.41	ribosomal	siamycin	Streptomyces nodosus
BGC0000504.5	0.41	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001735.5	0.50	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001188.3	0.50	ribosomal	legonaridin	Streptomyces sp. CT34
BGC0000583.5	0.47	ribosomal	grisemycin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002319.3	0.45	ribosomal	salinipeptin A, salinipeptin B, salinipeptin C, salinipeptin D	Streptomyces sp.
BGC0000582.4	0.44	ribosomal	cypemycin	Streptomyces sp. OH-4156
BGC0001226.4	0.42	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000501.3	0.42	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0001779.5	0.41	ribosomal	siamycin	Streptomyces nodosus
BGC0000504.5	0.41	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

Additional weak hits (5):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.11 out of 18.57

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.52 out of 28.19

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.57 out of 30.11

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.51 out of 27.78

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.32 out of 30.98

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NZ_FOET01000002.1 - Region 1 - azole-containing-RiPP

Download region GenBank file

Download region SVG

Location: 8,694 - 31,223 nt. (total: 22,530 nt) Show pHMM detection rules used

azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Ligases: synthase

BMY40_RS04925: cobalamin synthesis protein/P47K family protein

smcogs: SMCOG1178: cobalamin synthesis protein/P47K family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002115.3	0.83	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0000519.4	0.49	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002698.2	0.47	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0002073.3	0.46	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002531.3	0.45	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0001870.3	0.45	other (other)	putrebactin, avaroferrin	Xenorhabdus budapestensis
BGC0000947.5	0.45	other (other)	vibrioferrin	Vibrio alginolyticus
BGC0002150.2	0.44	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.44	ribosomal	alboverticillin	Streptomyces griseocarneus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002115.3	0.83	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0000519.4	0.49	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002698.2	0.47	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0002073.3	0.46	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002531.3	0.45	NRPS	cepaciachelin	Burkholderia ambifaria AMMD
BGC0001870.3	0.45	other (other)	putrebactin, avaroferrin	Xenorhabdus budapestensis
BGC0000947.5	0.45	other (other)	vibrioferrin	Vibrio alginolyticus
BGC0002150.2	0.44	ribosomal	triculamin	Streptomyces triculaminicus
BGC0002151.2	0.44	ribosomal	alboverticillin	Streptomyces griseocarneus

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 29.28 out of 32.93

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.23 out of 20.97

Confidence: medium

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 28.92 out of 32.38

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 25.36 out of 28.19

Confidence: strong

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 26.33 out of 32.38

Confidence: medium

Additional weak hits (18):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.31 out of 36.54

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.76 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 14.59 out of 20.97

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 25.30 out of 32.38

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.60 out of 32.93

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.20 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.36 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.71 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.25 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.62 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.41 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.52 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.05 out of 28.14

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.01 out of 29.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.19 out of 28.19

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.71 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.52 out of 29.65

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

TFBS Finder

Azole RiPPs

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
CsoR	Copper-responsive repressor
RicR	Copper-responsive regulator
ZuR variant 1	Zinc-responsive repressor

Core peptide predictions

No core peptides found.

NZ_FOET01000002.1 - Region 2 - terpene

Download region GenBank file

Download region SVG

Location: 127,425 - 151,860 nt. (total: 24,436 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

BMY40_RS05465: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS05555: dehydrogenase

smcogs: SMCOG1181: dehydrogenase

Transferases: transferase

BMY40_RS05560: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs: SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

Ligases: synthase synthetase

BMY40_RS05455: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

BMY40_RS05505: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Translocases: transport

BMY40_RS05530: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000647.3	0.58	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000663.5	0.55	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000656.5	0.50	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0000646.5	0.49	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.48	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000630.3	0.47	terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000639.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000642.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000641.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000643.3	0.46	terpene	carotenoid	Brevundimonas vesicularis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000647.3	0.58	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000663.5	0.55	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000656.5	0.50	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0000646.5	0.49	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.48	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000630.3	0.47	terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000639.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000642.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000641.3	0.47	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000643.3	0.46	terpene	carotenoid	Brevundimonas vesicularis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene	C30 carotenoid	diapophytoene	C30	acyclic	none
triterpene		squalene	C30	acyclic	none
triterpene		PSPP	C30	acyclic	PP
tetraterpene	C40 carotenoid	phytoene	C40	acyclic	none
triterpene		hydroxysqualene	C30	acyclic	OH

Genes with terpene domains:

BMY40_RS05505: PT_FPPS_like

Domain 1 (54 - 349): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

BMY40_RS05515: PT_phytoene_like

Domain 1 (23 - 305): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → diapophytoene; FPP → squalene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

BMY40_RS05520: PT_phytoene_like

Domain 1 (14 - 255): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → diapophytoene; FPP → squalene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.06 out of 19.26

Confidence: strong

Additional weak hits (4):

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.42 out of 33.73

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.05 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.06 out of 29.38

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NZ_FOET01000001.1 - Region 1 - lassopeptide

Download region GenBank file

Download region SVG

Location: 186,740 - 209,308 nt. (total: 22,569 nt) Show pHMM detection rules used

lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lasso peptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

BMY40_RS00840: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001634.3	0.82	ribosomal	keywimysin	Streptomyces sp. NRRL F-5702
BGC0001539.4	0.72	ribosomal	cattlecin	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001551.4	0.70	ribosomal	citrulassin E	Streptomyces glaucescens
BGC0001507.3	0.67	ribosomal	anantin C	Streptomyces olindensis
BGC0002053.3	0.63	ribosomal	ulleungdin	Streptomyces sp.
BGC0001549.3	0.63	ribosomal	citrulassin B	Streptomyces aurantiacus JA 4570
BGC0001645.3	0.61	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0001493.5	0.60	ribosomal	achromosin	Streptomyces achromogenes subsp. achromogenes
BGC0002298.2	0.60	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001506.5	0.59	ribosomal	anantin B1, anantin B2	Streptomyces sp. NRRL S-146

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001634.3	0.82	ribosomal	keywimysin	Streptomyces sp. NRRL F-5702
BGC0001539.4	0.72	ribosomal	cattlecin	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001551.4	0.70	ribosomal	citrulassin E	Streptomyces glaucescens
BGC0001507.3	0.67	ribosomal	anantin C	Streptomyces olindensis
BGC0002053.3	0.63	ribosomal	ulleungdin	Streptomyces sp.
BGC0001549.3	0.63	ribosomal	citrulassin B	Streptomyces aurantiacus JA 4570
BGC0001645.3	0.61	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0001493.5	0.60	ribosomal	achromosin	Streptomyces achromogenes subsp. achromogenes
BGC0002298.2	0.60	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001506.5	0.59	ribosomal	anantin B1, anantin B2	Streptomyces sp. NRRL S-146

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lasso peptide predictions

Lassopeptide(s) for BMY40_RS27365

BMY40_RS27365

Leader:

MKQKKTYVKPALFDQGSFRKRTA

Full core:

GYFVGKYKEYFSRRFV

Putative macrolactam:

GYFVGKYKE

antiSMASH-DB 4.0 matches for BMY40_RS27365

100.0%

NZ_FOET01000001.1:

Lassopeptides: BMY40_RS27365_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVGKYKEYFSRRFV

1

GYFVGKYKEYFSRRFV

16

93.8%

NZ_FOSG01000008.1and 1 other:

NZ_PDKQ02000012.1 Lassopeptides: BFM75_RS03245_lassopeptide

Lassopeptides: BM237_RS28735_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYF GKYKEYFSRRFV

1

GYFFGKYKEYFSRRFV

16

75.0%

NZ_BDHJ01000011.1and 4 others:

NZ_BMTW01000001.1 Lassopeptides: IE134_RS04135_lassopeptideNZ_CP076457.1 Lassopeptides: KME66_RS14195_lassopeptideNZ_KZ268499.1 Lassopeptides: CE422_RS34520_lassopeptideNZ_ML123117.1 Lassopeptides: EES46_RS05210_lassopeptide

Lassopeptides: BHQ08_RS34645_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKEY++RR V

1

GYFVGSYKEYWTRRIV

16

with 11 more sequence matches

Only the first 10 are displayed here.

75.0%

NZ_BMRY01000001.1and 14 others:

NZ_BMSZ01000030.1 Lassopeptides: IE135_RS32485_lassopeptideNZ_CP010833.1 Lassopeptides: TK78_RS35300_lassopeptideNZ_CP021707.1 Lassopeptides: CCZ36_RS19605_lassopeptideNZ_CP084357.1 Lassopeptides: LEL86_RS33655_lassopeptideNZ_DS999644.1 Lassopeptides: SSGG_RS36910_lassopeptideNZ_JNLT01000024.1 Lassopeptides: CD02_RS38355_lassopeptideNZ_KZ679082.1 Lassopeptides: C6W96_RS19995_lassopeptideNZ_KZ819154.1 Lassopeptides: DBP12_RS14735_lassopeptideNZ_KZ819178.1 Lassopeptides: DBP20_RS19850_lassopeptideNZ_KZ819182.1 Lassopeptides: DBP21_RS20195_lassopeptideNZ_LACR01000007.1 Lassopeptides: YW5_RS36195_lassopeptideNZ_LZRD01000023.1 Lassopeptides: A3Q37_RS36590_lassopeptideNZ_NNBN01000001.1 Lassopeptides: CG717_RS32755_lassopeptideNZ_WWGD01000017.1 Lassopeptides: GTY72_RS09250_lassopeptide

Lassopeptides: IE140_RS06105_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKEY+SRR +

1

GYFVGSYKEYWSRRII

16

70.6%

NC_021177.1and 5 others:

NZ_BMUG01000007.1 Lassopeptides: IE264_RS21365_lassopeptideNZ_CP054926.1 Lassopeptides: HUT09_RS19455_lassopeptideNZ_CP068598.1 Lassopeptides: IFE09_RS19740_lassopeptideNZ_CP071044.1 Lassopeptides: JHY03_RS19320_lassopeptideNZ_JOJC01000016.1 Lassopeptides: IO23_RS1000000136610_lassopeptide

Lassopeptides: SFUL_RS36235_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKEY+ RR V

1

GYFVGSYKEYWVRRIV

16

68.8%

NZ_CP013738.1and 4 others:

NZ_CP029361.1 Lassopeptides: DIJ69_RS14415_lassopeptideNZ_CP090837.1 Lassopeptides: LZ559_RS19885_lassopeptideNZ_JAJUKK010000001.1 Lassopeptides: LXH09_RS00260_lassopeptideNZ_LIXK01000001.1 Lassopeptides: AMK23_RS36895_lassopeptide

Lassopeptides: WQO_RS35795_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKEY++RR +

1

GYFVGSYKEYWTRRII

16

68.8%

NZ_CP061281.1:

Lassopeptides: IAG42_RS10065_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKE+ RR V

1

GYFVGPYKEWIVRRIV

16

68.8%

NZ_KB891808.1:

Lassopeptides: B072_RS47760_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYFVG YKE+ RR V

1

GYFVGSYKEWIVRRIV

16

68.8%

NZ_PGGW01000069.1:

Lassopeptides: CUT44_RS32610_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYF G YKE+ SRR V

1

GYFYGSYKEFLSRRIV

16

62.5%

NZ_AQRK01000073.1and 34 others:

NZ_ARPF01000020.1 Lassopeptides: B083_RS1000000135975_lassopeptideNZ_BMSP01000033.1 Lassopeptides: IE150_RS31095_lassopeptideNZ_BNBJ01000018.1 Lassopeptides: IE304_RS27885_lassopeptideNZ_CP011522.1 Lassopeptides: ABE83_RS36070_lassopeptideNZ_CP015362.1 Lassopeptides: A6E92_RS32825_lassopeptideNZ_CP020570.1 Lassopeptides: B1H20_RS34515_lassopeptideNZ_CP024957.1 Lassopeptides: CVT27_RS18750_lassopeptideNZ_CP030930.1 Lassopeptides: DTW94_RS18860_lassopeptideNZ_CP032543.1 Lassopeptides: D6270_RS18940_lassopeptideNZ_CP058556.1 Lassopeptides: HXS80_RS15025_lassopeptideNZ_CP059898.1 Lassopeptides: H3V39_RS14565_lassopeptideNZ_CP070242.1 Lassopeptides: I6J39_RS14950_lassopeptideNZ_CP070260.1 Lassopeptides: I6J40_RS19545_lassopeptideNZ_CP077652.1 Lassopeptides: KRR37_RS18710_lassopeptideNZ_CP079114.1 Lassopeptides: KV381_RS20695_lassopeptideNZ_CP101140.1 Lassopeptides: NF554_RS14180_lassopeptideNZ_CP101397.1 Lassopeptides: NLU04_RS02420_lassopeptideNZ_CP113262.1 Lassopeptides: OUQ49_RS18920_lassopeptideNZ_JAGGOV010000040.1 Lassopeptides: J7E92_RS24040_lassopeptideNZ_JAHHWT010000002.1 Lassopeptides: KM153_RS04955_lassopeptideNZ_JAJDST010000050.1 Lassopeptides: LJC81_RS32430_lassopeptideNZ_JALDPQ010000042.1 Lassopeptides: MQC87_RS04740_lassopeptideNZ_JAMFLF010000013.1 Lassopeptides: M1212_RS26530_lassopeptideNZ_JANRMN010000006.1 Lassopeptides: NW249_RS11850_lassopeptideNZ_KB890924.1 Lassopeptides: B053_RS1000000136555_lassopeptideNZ_KB891296.1 Lassopeptides: B061_RS39115_lassopeptideNZ_KL573564.1 Lassopeptides: BG84_RS1000000139430_lassopeptideNZ_KZ819159.1 Lassopeptides: DBP19_RS18270_lassopeptideNZ_LR881952.1 Lassopeptides: STRPST75_RS15280_lassopeptideNZ_LZQS01000001.1 Lassopeptides: STIB_RS37415_lassopeptideNZ_RCOL01000001.1 Lassopeptides: STAN_RS20170_lassopeptideNZ_VEHK01000003.1 Lassopeptides: FS984_RS09665_lassopeptideNZ_WUEJ01000001.1 Lassopeptides: GRQ63_RS00790_lassopeptideNZ_WWGL01000031.1 Lassopeptides: GTY38_RS20560_lassopeptide

Lassopeptides: YUW_RS35360_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYF G YKEY+ RR +

1

GYFYGSYKEYWVRRII

16

62.5%

NZ_CP020563.1:

Lassopeptides: B7C62_RS35255_lassopeptide

1

GYFVGKYKEYFSRRFV

16

GYF+G YKE++SRR +

1

GYFIGSYKEFWSRRII

16

62.5%

NZ_CP110539.1and 1 other:

NZ_CP112880.1 Lassopeptides: N7925_RS15605_lassopeptide

Lassopeptides: OH133_RS17115_lassopeptide

1

GYFVGKYKEYFSRR

14

GYF G YKEY+ RR

1

GYFYGSYKEYWVRR

14

47.1%

NZ_JACHEM010000013.1:

Lassopeptides: HNQ79_RS23595_lassopeptide

1

GYFVGKYKEYFSRRFV

16

G F KEY+SRR

1

GMFYASCKEYWSRRLC

16

MIBiG 4.0 matches for BMY40_RS27365

31.6%

BGC0002322.3 (CEJ66604.1):

Lasso peptide: citrocin

4

VGKYKEYF

11

VGK EYF

3

VGKIIEYF

10

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.48 out of 18.57

Confidence: strong

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 28.06 out of 32.93

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26

Confidence: medium

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 25.70 out of 32.38

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.68 out of 20.47

Confidence: medium

Additional weak hits (11):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.60 out of 30.22

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.43 out of 21.55

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 16.96 out of 22.40

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 23.11 out of 32.38

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.14 out of 21.84

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.40 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.62 out of 29.38

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.53 out of 26.85

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 18.83 out of 27.55

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.60 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.28 out of 28.19

Confidence: weak

Lasso peptides

RREFinder

TFBS Finder

Core peptide predictions

BMY40_RS27365 - Class II: Cleavage pHMM score: -2.00; RODEO score: 20; Monoisotopic mass: 2027.0 Da; Molecular weight: 2028.3 Da; Number of bridges: 0

RRE predictions

: RRE type: Stand_Alone_Lasso_RRE; Location: 0 - 81; Score: 87.2

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CsoR	Copper-responsive repressor
RicR	Copper-responsive regulator
ToxT	Regulator of MSHA biosynthesis
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000001.1 - Region 2 - lanthipeptide-class-iii

Download region GenBank file

Download region SVG

Location: 576,133 - 598,877 nt. (total: 22,745 nt) Show pHMM detection rules used

lanthipeptide-class-iii: (micKC and not PKS_KS)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: glycosyltransferase methyltransferase

BMY40_RS02565: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

BMY40_RS02570: methyltransferase

smcogs: SMCOG1089: methyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000551.5	0.81	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000496.5	0.69	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000513.3	0.61	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000501.3	0.61	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000519.4	0.60	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000553.3	0.60	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000518.3	0.56	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000563.4	0.52	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000546.3	0.51	ribosomal	SAL-2242	Streptomyces albidoflavus
BGC0001210.5	0.46	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000551.5	0.81	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000496.5	0.69	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000513.3	0.61	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000501.3	0.61	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000519.4	0.60	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000553.3	0.60	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000518.3	0.56	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000563.4	0.52	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000546.3	0.51	ribosomal	SAL-2242	Streptomyces albidoflavus
BGC0001210.5	0.46	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for BMY40_RS02535

BMY40_RS02540

Leader:

MTLLDLQTLETSEDKGTVAG

Core:

GGSEASLLLCGDSSLSVTTCR

Core with dehydrations:

GGDhaEADhaLLLCysGDDhaDhaLDhaVDhbDhbCysR

antiSMASH-DB 4.0 matches for BMY40_RS02540

100.0%

NZ_FOET01000001.1and 2 others:

NZ_FOSG01000005.1 Lanthipeptides: BM237_RS08435_lanthipeptideNZ_PDKQ02000044.1 Lanthipeptides: BFM75_RS16855_lanthipeptide

Lanthipeptides: BMY40_RS02540_lanthipeptide

1

GGSEASLLLCGDSSLSVTTCR

21

GGSEASLLLCGDSSLSVTTCR

1

GGSEASLLLCGDSSLSVTTCR

21

90.5%

NZ_QGGR01000008.1:

Lanthipeptides: BC793_RS19230_lanthipeptide

1

GGSEASLLLCGDSSLSVTTCR

21

GGS+ASLLLCGDSSLSVTTC

1

GGSQASLLLCGDSSLSVTTCN

21

85.7%

NC_018750.1and 77 others:

NC_018750.1 Lanthipeptides: SVEN_RS32110_lanthipeptideNZ_BBNO01000003.1 Lanthipeptides: TU31_RS37940_lanthipeptideNZ_BMSV01000002.1 Lanthipeptides: IE106_RS06150_lanthipeptideNZ_BMTO01000007.1 Lanthipeptides: IE136_RS15615_lanthipeptideNZ_BMTP01000009.1 Lanthipeptides: IE109_RS18470_lanthipeptideNZ_BMTU01000009.1 Lanthipeptides: IE118_RS22890_lanthipeptideNZ_BMUN01000001.1 Lanthipeptides: IE238_RS00740_lanthipeptideNZ_CP007699.2 Lanthipeptides: T261_RS39185_lanthipeptideNZ_CP009754.1 Lanthipeptides: NI25_RS05015_lanthipeptideNZ_CP015866.1 Lanthipeptides: Spa2297_RS27800_lanthipeptideNZ_CP017157.1 Lanthipeptides: SL103_RS15895_lanthipeptideNZ_CP019457.1 Lanthipeptides: BXT88_RS03410_lanthipeptideNZ_CP019724.1 Lanthipeptides: B1H29_RS35355_lanthipeptideNZ_CP019779.1 Lanthipeptides: STRMOE7_RS03775_lanthipeptideNZ_CP023691.1 Lanthipeptides: CP981_RS03050_lanthipeptideNZ_CP023700.1 Lanthipeptides: CP969_RS04700_lanthipeptideNZ_CP027299.1 Lanthipeptides: C1N79_RS34970_lanthipeptideNZ_CP029042.1 Lanthipeptides: DDE74_RS03525_lanthipeptideNZ_CP029195.1 Lanthipeptides: DEJ45_RS04995_lanthipeptideNZ_CP029195.1 Lanthipeptides: DEJ45_RS04995_lanthipeptideNZ_CP029196.1 Lanthipeptides: DEJ44_RS30395_lanthipeptideNZ_CP029196.1 Lanthipeptides: DEJ44_RS30395_lanthipeptideNZ_CP029541.1 Lanthipeptides: DKG71_RS05245_lanthipeptideNZ_CP034279.1 Lanthipeptides: EIZ62_RS28660_lanthipeptideNZ_CP034353.1 Lanthipeptides: D1J63_RS04900_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS35250_lanthipeptideNZ_CP043317.1 Lanthipeptides: FYC74_RS09720_lanthipeptideNZ_CP046905.1 Lanthipeptides: GPZ77_RS32930_lanthipeptideNZ_CP047140.1 Lanthipeptides: GLX30_RS11420_lanthipeptideNZ_CP050976.1 Lanthipeptides: HEP86_RS04470_lanthipeptideNZ_CP054920.1 Lanthipeptides: HUT15_RS04615_lanthipeptideNZ_CP060825.1 Lanthipeptides: IAG43_RS32355_lanthipeptideNZ_CP074111.1 Lanthipeptides: KE639_RS31630_lanthipeptideNZ_CP084681.1 Lanthipeptides: KI385_RS00885_lanthipeptideNZ_CP085300.1 Lanthipeptides: LJA35_RS05220_lanthipeptideNZ_CP086217.1 Lanthipeptides: LJ741_RS03435_lanthipeptideNZ_CP094676.1 Lanthipeptides: L6J92_RS09690_lanthipeptideNZ_CP098437.1 Lanthipeptides: NCG97_RS34740_lanthipeptideNZ_CP099468.1 Lanthipeptides: NFX46_RS16770_lanthipeptideNZ_CP101137.1 Lanthipeptides: M6G08_RS24535_lanthipeptideNZ_CP102332.1 Lanthipeptides: NRO40_RS01140_lanthipeptideNZ_CP102609.1 Lanthipeptides: NUT86_RS03980_lanthipeptideNZ_CP104697.1 Lanthipeptides: N6Q81_RS33560_lanthipeptideNZ_CP114202.1 Lanthipeptides: STRLI_RS35870_lanthipeptideNZ_CP114203.1 Lanthipeptides: STRNI_RS37360_lanthipeptideNZ_CP114205.1 Lanthipeptides: STRTU_RS33380_lanthipeptideNZ_JACHJE010000006.1 Lanthipeptides: FHS32_RS15850_lanthipeptideNZ_JACHJI010000005.1 Lanthipeptides: FHS37_RS15430_lanthipeptideNZ_JACSCH020000032.1 Lanthipeptides: E0F75_RS38565_lanthipeptideNZ_JACSCH020000032.1 Lanthipeptides: E0F75_RS38565_lanthipeptideNZ_JACSCH020000032.1 Lanthipeptides: E0F75_RS38565_lanthipeptideNZ_JACWAA010000001.1 Lanthipeptides: ICA23_RS00800_lanthipeptideNZ_JADMLH010000003.1 Lanthipeptides: IT780_RS09875_lanthipeptideNZ_JAFEJA010000002.1 Lanthipeptides: JE024_RS34830_lanthipeptideNZ_JAGPYC010000033.1 Lanthipeptides: KBZ00_RS31440_lanthipeptideNZ_JAHLXF010000022.1 Lanthipeptides: KQY13_RS30555_lanthipeptideNZ_JAIHBQ010000001.1 Lanthipeptides: K4902_RS04515_lanthipeptideNZ_JAJJMU010000026.1 Lanthipeptides: LOC25_RS31275_lanthipeptideNZ_JAJNOJ010000002.1 Lanthipeptides: MBT42_RS06255_lanthipeptideNZ_JAJNOJ010000002.1 Lanthipeptides: MBT42_RS06255_lanthipeptideNZ_JAMGSL010000004.1 Lanthipeptides: M5362_RS09920_lanthipeptideNZ_JAMGSL010000004.1 Lanthipeptides: M5362_RS09920_lanthipeptideNZ_JAPKNL010000004.1 Lanthipeptides: OSI21_RS07750_lanthipeptideNZ_JH993790.1 Lanthipeptides: STRVIR_RS0131905_lanthipeptideNZ_KN039948.1 Lanthipeptides: FM21_RS29525_lanthipeptideNZ_LIPF01000004.1 Lanthipeptides: AMK11_RS16660_lanthipeptideNZ_LIVV01000002.1 Lanthipeptides: AMK27_RS08700_lanthipeptideNZ_LIVV01000002.1 Lanthipeptides: AMK27_RS08700_lanthipeptideNZ_LIVX01000004.1 Lanthipeptides: AMK29_RS15650_lanthipeptideNZ_LIWB01000010.1 Lanthipeptides: AMK33_RS24360_lanthipeptideNZ_LIYH01000004.1 Lanthipeptides: AMK26_RS17765_lanthipeptideNZ_MPOH02000012.1 Lanthipeptides: BM536_RS17150_lanthipeptideNZ_NBCN01000003.1 Lanthipeptides: BKD26_RS06570_lanthipeptideNZ_NNBP01000011.1 Lanthipeptides: CG747_RS19290_lanthipeptideNZ_NNBP01000011.1 Lanthipeptides: CG747_RS19290_lanthipeptideNZ_RAIF01000032.1 Lanthipeptides: EBH09_RS35480_lanthipeptideNZ_SOPG01000008.1 Lanthipeptides: E0I08_RS17090_lanthipeptide

Lanthipeptides: SVEN_RS32110_lanthipeptide

2

GSEASLLLCGDSSLSVTTCR

21

GS ASLLLCGDSSLSVTTC

2

GSRASLLLCGDSSLSVTTCN

21

with 73 more sequence matches

Only the first 10 are displayed here.

85.7%

NZ_CP036455.1:

Lanthipeptides: EKD16_RS17975_lanthipeptide

1

GGSEASLLLCGDSSLSVTTCR

21

GSEASLLLCGDSSLS+TTC

1

AGSEASLLLCGDSSLSLTTCN

21

85.7%

NZ_CP048835.1:

Lanthipeptides: C8250_RS00390_lanthipeptide

1

GGSEASLLLCGDSSLSVTTCR

21

GGS ASLLLCG+SSLSVTTC

1

GGSRASLLLCGNSSLSVTTCN

21

85.7%

NZ_CP099837.1:

Lanthipeptides: NE857_RS18075_lanthipeptide

1

GGSEASLLLCGDSSLSVTTC

20

G S ASLLLCGDSSLSVTTC

1

GTSTASLLLCGDSSLSVTTC

20

81.0%

NZ_BBOK01000011.1and 28 others:

NZ_BEWD01000001.1 Lanthipeptides: Sru02f_RS01660_lanthipeptideNZ_BMSL01000016.1 Lanthipeptides: IE215_RS23330_lanthipeptideNZ_BMUC01000023.1 Lanthipeptides: IE172_RS32210_lanthipeptideNZ_BMVQ01000005.1 Lanthipeptides: IE283_RS17035_lanthipeptideNZ_BMWI01000025.1 Lanthipeptides: IE253_RS33945_lanthipeptideNZ_CM002280.1 Lanthipeptides: M877_RS44575_lanthipeptideNZ_CP012382.1 Lanthipeptides: SAM23877_RS30085_lanthipeptideNZ_CP012949.1 Lanthipeptides: SAM40697_RS29010_lanthipeptideNZ_CP018047.1 Lanthipeptides: BBN63_RS03065_lanthipeptideNZ_CP042324.1 Lanthipeptides: FQ762_RS34495_lanthipeptideNZ_CP043959.1 Lanthipeptides: F3L20_RS19105_lanthipeptideNZ_CP045547.1 Lanthipeptides: GEV49_RS05730_lanthipeptideNZ_CP048397.1 Lanthipeptides: SSPS47_RS31455_lanthipeptideNZ_CP054939.1 Lanthipeptides: HUT14_RS29815_lanthipeptideNZ_CP094918.1 Lanthipeptides: MTR79_RS16715_lanthipeptideNZ_GG657756.1 Lanthipeptides: SSPG_RS05020_lanthipeptideNZ_GG657758.1 Lanthipeptides: SSRG_RS03855_lanthipeptideNZ_JAAIFS010000001.1 Lanthipeptides: GUR47_RS02255_lanthipeptideNZ_JACHEM010000005.1 Lanthipeptides: HNQ79_RS11445_lanthipeptideNZ_KZ195574.1 Lanthipeptides: B9W62_RS05695_lanthipeptideNZ_LT629768.1 Lanthipeptides: BLU60_RS34110_lanthipeptideNZ_MQUH01000025.1 Lanthipeptides: BSZ07_RS33280_lanthipeptideNZ_RAII01000001.1 Lanthipeptides: EBH12_RS10360_lanthipeptideNZ_RSEG01000006.1 Lanthipeptides: EIA57_RS12710_lanthipeptideNZ_SOAV01000001.1 Lanthipeptides: EV562_RS04520_lanthipeptideNZ_VIUV01000020.1 Lanthipeptides: FB570_RS34060_lanthipeptideNZ_WHZR01000001.1 Lanthipeptides: STPH1_RS04005_lanthipeptideNZ_WXVT01000001.1 Lanthipeptides: STPH2_RS03995_lanthipeptide

Lanthipeptides: APK71_RS25550_lanthipeptide

2

GSEASLLLCGDSSLSVTTCR

21

GS ASLLLCGDSSLS+TTC

2

GSRASLLLCGDSSLSITTCN

21

81.0%

NZ_BMXJ01000002.1and 2 others:

NZ_KI911536.1 Lanthipeptides: B042_RS0117070_lanthipeptideNZ_VWVU01000023.1 Lanthipeptides: FYX01_RS21045_lanthipeptide

Lanthipeptides: IE195_RS04480_lanthipeptide

3

SEASLLLCGDSSLSVTTC

20

S ASLLLCGDSSLSVTTC

2

STASLLLCGDSSLSVTTC

19

81.0%

NZ_BNCA01000002.1and 1 other:

NZ_CP049782.1 Lanthipeptides: G7Z12_RS34445_lanthipeptide

Lanthipeptides: IE314_RS02760_lanthipeptide

2

GSEASLLLCGDSSLSVTTCR

21

GS ASLLLCGDSSLSV+TC

2

GSRASLLLCGDSSLSVSTCN

21

81.0%

NZ_LT607753.1:

Lanthipeptides: GA0070614_RS03730_lanthipeptide

5

ASLLLCGDSSLSVTTCR

21

ASLLLCGDSSLSVTTCR

1

ASLLLCGDSSLSVTTCR

17

81.0%

NZ_VWVV01000017.1and 1 other:

NZ_VWVW01000007.1 Lanthipeptides: FYW96_RS09550_lanthipeptide

Lanthipeptides: FYW95_RS16780_lanthipeptide

3

SEASLLLCGDSSLSVTTCR

21

S ASLLLCGDSSLS+TTCR

2

SAASLLLCGDSSLSLTTCR

20

78.3%

NZ_CP102509.1:

Lanthipeptides: JIW86_RS37035_lanthipeptide

1

GGSEASLLLCGDSSLSVTTCR

21

GGS ASLLLCGDSSLS+TTC

3

GGSRASLLLCGDSSLSLTTCH

23

76.2%

NC_015434.1and 26 others:

NZ_CP045309.1 Lanthipeptides: GCE86_RS12520_lanthipeptideNZ_CP046104.1 Lanthipeptides: GKC29_RS19975_lanthipeptideNZ_CP059322.1 Lanthipeptides: H1D33_RS20095_lanthipeptideNZ_CP059322.1 Lanthipeptides: H1D33_RS20090_lanthipeptideNZ_FMCR01000005.1 Lanthipeptides: GA0070561_RS23835_lanthipeptideNZ_FMCS01000001.1 Lanthipeptides: GA0070214_RS02345_lanthipeptideNZ_FMCU01000002.1 Lanthipeptides: GA0070216_RS07020_lanthipeptideNZ_FMCU01000002.1 Lanthipeptides: GA0070216_RS07015_lanthipeptideNZ_FMCU01000002.1 Lanthipeptides: GA0070216_RS07010_lanthipeptideNZ_FMDM01000002.1 Lanthipeptides: GA0070213_RS04970_lanthipeptideNZ_HF570108.1 Lanthipeptides: MILUP08_RS22425_lanthipeptideNZ_JADMLH010000003.1 Lanthipeptides: IT780_RS09870_lanthipeptideNZ_JAFEUO010000005.1 Lanthipeptides: JQN84_RS18770_lanthipeptideNZ_JAFEUO010000005.1 Lanthipeptides: JQN84_RS18765_lanthipeptideNZ_JAGFWR010000037.1 Lanthipeptides: JQN83_RS31375_lanthipeptideNZ_JAGFWR010000037.1 Lanthipeptides: JQN83_RS31370_lanthipeptideNZ_JAGPXN010000015.1 Lanthipeptides: KBX06_RS19685_lanthipeptideNZ_JAGPXN010000015.1 Lanthipeptides: KBX06_RS19680_lanthipeptideNZ_JAGPXW010000002.1 Lanthipeptides: KBX71_RS04195_lanthipeptideNZ_LT607409.1 Lanthipeptides: GA0070612_RS21605_lanthipeptideNZ_LT607733.1 Lanthipeptides: GA0070610_RS13855_lanthipeptideNZ_LT607733.1 Lanthipeptides: GA0070610_RS13850_lanthipeptideNZ_LT607752.1 Lanthipeptides: GA0070623_RS04340_lanthipeptideNZ_LT607752.1 Lanthipeptides: GA0070623_RS04335_lanthipeptideNZ_LT607752.1 Lanthipeptides: GA0070623_RS04330_lanthipeptideNZ_RBAK01000011.1 Lanthipeptides: D7223_RS24620_lanthipeptide

Lanthipeptides: VAB18032_RS17930_lanthipeptide

5

ASLLLCGDSSLSVTTCR

21

ASLLLCGDSSLSVTTC

1

ASLLLCGDSSLSVTTCN

17

MIBiG 4.0 matches for BMY40_RS02540

54.5%

BGC0000553.3 (SSGG_RS09925):

Lanthipeptide: SRO15-2212

2

GSEASLLLCGDSSLSVTTC

20

GS+ SLL+C SSLSV C

2

GSQVSLLVCEYSSLSVVLC

20

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (7):

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.88 out of 19.26

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.41 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.08 out of 27.78

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.82 out of 26.33

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.09 out of 27.78

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.65 out of 27.04

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.37 out of 28.19

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

BMY40_RS02540 - Class III

Cleavage pHMM score: 9.20

RODEO score: 0

Monoisotopic mass: 1929.0 Da

Molecular weight: 1930.1 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 1948.2 Da N = 1; 1966.2 Da N = 2; 1984.2 Da N = 3; 2002.2 Da N = 4; 2020.2 Da N = 5

TFBS definitions

Regulator	Description

NZ_FOET01000001.1 - Region 3 - ectoine

Download region GenBank file

Download region SVG

Location: 1,025,800 - 1,036,204 nt. (total: 10,405 nt) Show pHMM detection rules used

ectoine: ectoine_synt

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: aminotransferase

BMY40_RS04475: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000853.3	0.86	other (other)	ectoine	Streptomyces anulatus
BGC0002052.3	0.86	other (ectoine)	ectoine	Streptomyces sp.
BGC0000856.3	0.72	other (other)	ectoine	Methylophaga thalassica
BGC0000852.5	0.70	other (other)	ectoine	Sporosarcina pasteurii
BGC0000858.3	0.66	other (other)	ectoine	Methylobacter marinus
BGC0000859.3	0.66	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000855.3	0.66	other (other)	ectoine	Methylomicrobium kenyense
BGC0000857.3	0.63	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.63	other (other)	ectoine	Methylarcula marina
BGC0000854.3	0.62	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000853.3	0.86	other (other)	ectoine	Streptomyces anulatus
BGC0002052.3	0.86	other (ectoine)	ectoine	Streptomyces sp.
BGC0000856.3	0.72	other (other)	ectoine	Methylophaga thalassica
BGC0000852.5	0.70	other (other)	ectoine	Sporosarcina pasteurii
BGC0000858.3	0.66	other (other)	ectoine	Methylobacter marinus
BGC0000859.3	0.66	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000855.3	0.66	other (other)	ectoine	Methylomicrobium kenyense
BGC0000857.3	0.63	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.63	other (other)	ectoine	Methylarcula marina
BGC0000854.3	0.62	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

Additional weak hits (4):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.95 out of 30.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.31 out of 21.55

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.24 out of 32.93

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.60 out of 33.14

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production

NZ_FOET01000004.1 - Region 1 - NRPS,NRPS-like,T2PKS,lanthipeptide-class-ii,lassopeptide

Download region GenBank file

Download region SVG

Location: 67,845 - 204,080 nt. (total: 136,236 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
lanthipeptide-class-ii: cds(LANC_like and DUF4135)
T2PKS: (t2ks and t2clf)
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

Lasso peptides

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

BMY40_RS10540: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

BMY40_RS10585: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

BMY40_RS10655: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

BMY40_RS10710: dehydrogenase

smcogs: SMCOG1072: dehydrogenase

BMY40_RS10825: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

BMY40_RS10955: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

BMY40_RS10975: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

BMY40_RS10985: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: methyltransferase sulfotransferase transferase

BMY40_RS10700: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs: SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

BMY40_RS10865: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

BMY40_RS10990: Sulfotransferase domain

extras: Sulfotransfer_5: Sulfotransferase domain

Hydrolases: dehalogenase hydrolase

BMY40_RS10690: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

BMY40_RS11030: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Lyases: cyclase

BMY40_RS10565: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

BMY40_RS10855: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

BMY40_RS10860: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

Ligases: ligase synthase

BMY40_RS10590: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS10595: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BMY40_RS10610: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

BMY40_RS10615: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS10775: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

BMY40_RS10840: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS10845: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

BMY40_RS10965: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS10980: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000575.5	0.91	ribosomal	lariatin	Rhodococcus jostii
BGC0001166.5	0.90	NRPS	HC-toxin	Alternaria jesenskae
BGC0001645.3	0.85	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0000357.5	0.81	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001551.4	0.78	ribosomal	citrulassin E	Streptomyces glaucescens
BGC0001634.3	0.72	ribosomal	keywimysin	Streptomyces sp. NRRL F-5702
BGC0000351.5	0.69	NRPS	exochelin	Mycolicibacterium smegmatis MC2 155
BGC0002071.2	0.65	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0002825.2	0.63	ribosomal	nocapeptin A	Nocardia terpenica IFM 0406
BGC0002289.2	0.63	ribosomal	Leepeptin	Streptomyces leeuwenhoekii

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.75	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0000272.3	0.75	PKS	spore pigment	Streptomyces collinus
BGC0002135.2	0.74	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001645.3	0.74	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001128.4	0.73	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.73	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.73	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.72	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0

Similar subclusters

Lanthipeptide predictions

Lanthipeptide(s) for BMY40_RS10565

allorf_077412_077600

Leader:

MSVARAAAGPRTTTMPAPLCRVGGEAHGG

Core:

DAVSVARAAAGPRTTTMPAPLCRVGGEAHGRTL

Core with dehydrations:

DAVDhaVARAAAGPRDhbDhbDhbMPAPLCysRVGGEAHGRDhbL

antiSMASH-DB 4.0 matches for allorf_077412_077600

100.0%

NZ_FOET01000004.1:

Lanthipeptides: allorf_077412_077600_lanthipeptide

1

DAVSVARAAAGPRTTTMPAPLCRVGGEAHGRTL

33

DAVSVARAAAGPRTTTMPAPLCRVGGEAHGRTL

1

DAVSVARAAAGPRTTTMPAPLCRVGGEAHGRTL

33

20.5%

NZ_LMHM01000013.1:

Lanthipeptides: allorf_297397_297609_lanthipeptide

14

TTTMPAPLCRVGGEAHGRTL

33

T PAP CR G A R

17

TAAKPAPRCRTYGRARRRFF

36

17.0%

NZ_CP011130.1and 2 others:

NZ_CP023465.1 Lanthipeptides: allorf_4124021_4124236_lanthipeptideNZ_KQ061217.1 Lanthipeptides: allorf_2970820_2971035_lanthipeptide

Lanthipeptides: allorf_4082202_4082426_lanthipeptide

14

TTTMPAPLCRVGGEAHGRTL

33

T PAP CR G A R

26

TAAKPAPGCRTYGRARRRFF

45

with 1 more sequence matches

13.6%

NZ_CP114039.1:

Lanthipeptides: allorf_7147535_7147768_lanthipeptide

14

TTTMPAPLCRV

24

TTTM A LCRV

1

TTTMKASLCRV

11

allorf_078361_078546

Leader:

MRNRYRRAPGGGARRGSRTGPGGAAARPAA

Core:

LGPGPVGAAAKNMGALPPCGGSEALGRWSCD

Core with dehydrations:

LGPGPVGAAAKNMGALPPCysGGDhaEALGRWDhaCysD

antiSMASH-DB 4.0 matches for allorf_078361_078546

100.0%

NZ_FOET01000004.1:

Lanthipeptides: allorf_078361_078546_lanthipeptide

1

LGPGPVGAAAKNMGALPPCGGSEALGRWSCD

31

LGPGPVGAAAKNMGALPPCGGSEALGRWSCD

1

LGPGPVGAAAKNMGALPPCGGSEALGRWSCD

31

25.8%

NC_017765.1and 2 others:

NZ_CP013219.1 Lanthipeptides: allorf_0171989_0172081_lanthipeptideNZ_KQ948355.1 Lanthipeptides: allorf_085143_085235_lanthipeptide

Lanthipeptides: allorf_01990982_01991074_lanthipeptide

11

KNMGALPPCGGSEAL

25

+NMG PCGG L

2

RNMGVTSPCGGRGGL

16

25.8%

NZ_CP027306.1:

Lanthipeptides: allorf_8959947_8960102_lanthipeptide

10

AKNMGALPPCGG

21

++NMG PPCGG

9

SENMGDTPPCGG

20

with 2 more sequence matches

16.3%

NZ_CP096019.1:

Lanthipeptides: MW046_RS07405_lanthipeptide

17

PPCGGSEALGRW

28

P CG + LGRW

32

PECGSTNILGRW

43

15.6%

NZ_QFWW01000059.1:

Lanthipeptides: allorf_181082_181303_lanthipeptide

12

NMGALPPCGGSEALGRWSC

30

NMG PPC + A R SC

10

NMGVRPPCSETPA-ARDSC

27

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Lasso peptide predictions

Lassopeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.15 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.99 out of 20.97

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.81 out of 23.79

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 26.66 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 26.06 out of 30.11

Confidence: medium

Additional weak hits (37):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.22 out of 31.73

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.46 out of 31.73

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.34 out of 26.12

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.67 out of 18.57

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.87 out of 30.25

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.66 out of 29.72

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.74 out of 36.54

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.24 out of 29.25

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 12.89 out of 18.57

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.41 out of 33.14

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.67 out of 23.43

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.44 out of 20.01

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.87 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.13 out of 20.97

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.38 out of 20.97

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.63 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.83 out of 20.97

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.21 out of 30.97

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.07 out of 33.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.91 out of 30.22

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.11 out of 39.62

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.97 out of 30.22

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.00 out of 27.04

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.96 out of 29.38

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.51 out of 35.63

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.74 out of 24.78

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.92 out of 25.75

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.90 out of 31.73

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 14.95 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.58 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.95 out of 29.65

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.77 out of 26.85

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.57 out of 29.25

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.15 out of 35.63

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 12.89 out of 18.57

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.93 out of 33.14

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

Lanthipeptides

Lasso peptides

NRPS/PKS products

NRPS/PKS substrates

RREFinder

Type II PKS

TFBS Finder

Core peptide predictions

allorf_077412_077600 - Class II

Cleavage pHMM score: -6.70

RODEO score: 0

Monoisotopic mass: 3214.7 Da

Molecular weight: 3216.6 Da

Number of bridges: 1

Additional modifications: OH

Alternative weights: (assuming N unmodified Ser/Thr residues); 3234.7 Da N = 1; 3252.7 Da N = 2; 3270.7 Da N = 3; 3288.7 Da N = 4

allorf_078361_078546 - Class II

Cleavage pHMM score: -7.00

RODEO score: 0

Monoisotopic mass: 2918.4 Da

Molecular weight: 2920.3 Da

Number of bridges: 2

Additional modifications: OH

Core peptide predictions

No core peptides found.

Predicted core structure(s)

For candidate cluster 1, location 67844 - 204080:

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

Polymer prediction:: (Thr - Val) + (X - Gln) + (Glu)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 67844 - 121572:

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

Polymer prediction:: (X - Gln) + (Thr - Val)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 118561 - 191095:

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

Polymer prediction:: (Glu)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 5, location 160551 - 203632:

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

Polymer prediction:: (Glu)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS10590: Thr - Val

Search NORINE for peptide: strict or relaxed

AMP-binding (522..934): Thr

nrpys: Thr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: LAAHFDFSVWEGNQVFGGDVNMYGITETTVHVTH
Nearest Stachelhaus code(s):: Thr DFWNVGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1592..1982): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: MGQAFDASVLEWMLQVAGEHNVYGLTETSVWSVA
Nearest Stachelhaus code(s):: Gly DILQLGVVWK (56% 8Å match); aIle DALVFGVVLK (53% 8Å match)
Stachelhaus code match:: 60% (weak)

BMY40_RS10595: X - Gln

Search NORINE for peptide: strict or relaxed

AMP-binding (483..875): X

nrpys: Asp, Asn, Glu, Gln, Aad

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: HAAAFDASLDQPNLILGGECNAYGPTETTVTSTT
Nearest Stachelhaus code(s):: Arg DAEDIGAITK (71% 8Å match); Tyr DAMSIGAVIK (50% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1539..1930): Gln

nrpys: Gln

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: glu,gln (Glu, Gln)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: HAAAFDASLEQPELVTGGEVNTYGPTESVVSATA
Nearest Stachelhaus code(s):: Lys DAEDNGTVSK (71% 8Å match); Gln or Tyr DAESVGTVVK (62% 8Å match)
Stachelhaus code match:: 80% (moderate)

BMY40_RS10615: X

AMP-binding (8..409): X

nrpys: Asp, Asn, Glu, Gln, Aad

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: YFVAYDASIRDALSVSSGEVNQYGPTECTMTSTR
Nearest Stachelhaus code(s):: Glu DPRSLSQMAK (59% 8Å match)
Stachelhaus code match:: 60% (weak)

BMY40_RS10965: X

AMP-binding (33..444): X

nrpys: Val, Leu, Ile, Abu, Ival

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: AAVPMAGLTYAMYVVSGSARALWGMTENGAVTVT
Nearest Stachelhaus code(s):: Ile or Val DGLFVGIAVK (35% 8Å match)
Stachelhaus code match:: 60% (weak)

BMY40_RS10980: Glu

Search NORINE for peptide: strict or relaxed

AMP-binding (29..429): Glu

nrpys: Glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: glu (Glu)

Stachelhaus prediction details:

Stachelhaus sequence:: RFMSFDSAIWQWDFVVGGESNGYGPSETAIGMVF
Nearest Stachelhaus code(s):: Arg DAEDVGVIGK (53% 8Å match); Glu DVWHVGSIGK (53% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

RRE predictions

: RRE type: Stand_Alone_Lasso_RRE; Location: 1 - 84; Score: 80.3

Type II PKS gene cluster prediction details

Cluster section:: 118561 to 191095
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Product class(es):: pentangular polyphenol
tetracenomycin

BMY40_RS10825: OXY (Score: 297.3; E-value: 5.2e-91)
BMY40_RS10835: CYC C5-C18 (Score: 215.1; E-value: 5.9e-67)
BMY40_RS10840: KS (Score: 720.9; E-value: 9.8e-220)
BMY40_RS10845: CLF (Score: 538.1; E-value: 3e-164)
BMY40_RS10850: ACP (Score: 73.1; E-value: 3.3e-23)
BMY40_RS10855: CYC C9-C14 (Score: 256.6; E-value: 1.4e-79)
BMY40_RS10860: CYC C4-C21/C2-C23|C2-C19 (Score: 160.6; E-value: 2.4e-50)
BMY40_RS10865: MET C6|C8 (Score: 535.2; E-value: 1.2e-163)
BMY40_RS10955: KR (Score: 74.8; E-value: 1.9e-23)

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CcpA	Catabolite control protein A
CelR	Cellobiose uptake repressor
IolR	Regulator of the inositol catabolism

NZ_FOET01000004.1 - Region 2 - terpene-precursor

Download region GenBank file

Download region SVG

Location: 215,585 - 236,778 nt. (total: 21,194 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

BMY40_RS11210: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Ligases: synthase synthetase

BMY40_RS11200: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

BMY40_RS11215: pseudouridine synthase

smcogs: SMCOG1279: pseudouridine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001911.3	0.38	terpene	raimonol	Streptomyces anulatus
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001910.4	0.37	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.37	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.36	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.35	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0001456.3	0.35	terpene	isorenieratene	Streptomyces argillaceus
BGC0000644.3	0.35	terpene	carotenoid	Dietzia sp. CQ4
BGC0000648.3	0.35	terpene	carotenoid	Myxococcus xanthus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001911.3	0.38	terpene	raimonol	Streptomyces anulatus
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001910.4	0.37	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.37	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000633.3	0.36	terpene	carotenoid	Streptomyces avermitilis
BGC0001227.3	0.35	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0001456.3	0.35	terpene	isorenieratene	Streptomyces argillaceus
BGC0000644.3	0.35	terpene	carotenoid	Dietzia sp. CQ4
BGC0000648.3	0.35	terpene	carotenoid	Myxococcus xanthus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

BMY40_RS11200: PT_FPPS_like

Domain 1 (75 - 374): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.31 out of 18.46

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

Additional weak hits (12):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.46 out of 31.73

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.40 out of 25.88

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.28 out of 19.26

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.87 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.61 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.14 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.18 out of 26.06

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.40 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.00 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.62 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.95 out of 29.65

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
CelR	Cellobiose uptake repressor
RpoN	Regulator of nitrogen assimilation and virulence

NZ_FOET01000004.1 - Region 3 - betalactone

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Location: 379,683 - 407,263 nt. (total: 27,581 nt) Show pHMM detection rules used

betalactone: (HMGL-like and AMP-binding)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

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SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase phosphate reductase

BMY40_RS11970: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BMY40_RS12010: N-acetyl-gamma-glutamyl-phosphate reductase

smcogs: SMCOG1219: N-acetyl-gamma-glutamyl-phosphate reductase

Transferases: aminotransferase kinase

BMY40_RS12015: acetylglutamate kinase

smcogs: SMCOG1174: acetylglutamate kinase

BMY40_RS12035: aminotransferase

smcogs: SMCOG1019: aminotransferase

BMY40_RS12060: aminotransferase

smcogs: SMCOG1019: aminotransferase

Ligases: ligase synthase

BMY40_RS11995: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

BMY40_RS12030: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002462.3	0.54	saccharide	coformycin	Streptomyces kaniharaensis
BGC0000849.4	0.45	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0002578.2	0.45	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0000895.5	0.45	other (other)	citrulline	Lactobacillus plantarum subsp. plantarum
BGC0002584.2	0.43	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0000850.5	0.42	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0002000.4	0.42	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0001903.3	0.42	other (other)	neocarazostatin A	Streptomyces sp. MA37
BGC0000131.5	0.41	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0001895.4	0.41	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002462.3	0.54	saccharide	coformycin	Streptomyces kaniharaensis
BGC0000849.4	0.45	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0002578.2	0.45	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0000895.5	0.45	other (other)	citrulline	Lactobacillus plantarum subsp. plantarum
BGC0002584.2	0.43	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0000850.5	0.42	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0002000.4	0.42	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0001903.3	0.42	other (other)	neocarazostatin A	Streptomyces sp. MA37
BGC0000131.5	0.41	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0001895.4	0.41	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (8):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.54 out of 31.73

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.25 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.49 out of 32.74

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.48 out of 19.26

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.07 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.53 out of 27.78

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 18.61 out of 30.97

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.24 out of 28.19

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000016.1 - Region 1 - NI-siderophore

Download region GenBank file

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Location: 20,064 - 49,998 nt. (total: 29,935 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

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KnownClusterBlast

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Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

BMY40_RS22930: Antibiotic biosynthesis monooxygenase

smcogs: SMCOG1258: Antibiotic biosynthesis monooxygenase

Isomerases: mutase

BMY40_RS22935: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002469.2	0.50	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0002692.2	0.42	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0000942.4	0.41	other (other)	petrobactin	Bacillus anthracis str. Ames
BGC0000295.5	0.38	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0000939.5	0.37	other (other)	aerobactin	Grimontia hollisae
BGC0002683.2	0.37	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0002633.2	0.36	other (other)	schizokinen	Leptolyngbya sp. PCC 7376
BGC0002471.3	0.36	other (other)	baumannoferrin A, baumannoferrin B	Acinetobacter baumannii AYE
BGC0002527.2	0.36	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0002470.2	0.35	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002469.2	0.50	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0002692.2	0.42	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0000942.4	0.41	other (other)	petrobactin	Bacillus anthracis str. Ames
BGC0000295.5	0.38	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0000939.5	0.37	other (other)	aerobactin	Grimontia hollisae
BGC0002683.2	0.37	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0002633.2	0.36	other (other)	schizokinen	Leptolyngbya sp. PCC 7376
BGC0002471.3	0.36	other (other)	baumannoferrin A, baumannoferrin B	Acinetobacter baumannii AYE
BGC0002527.2	0.36	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0002470.2	0.35	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.73 out of 18.46

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.38 out of 19.26

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.93 out of 24.78

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.03 out of 27.18

Confidence: medium

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.54 out of 18.46

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 19.52 out of 19.52

Confidence: strong

Additional weak hits (8):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.62 out of 25.75

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.77 out of 21.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.09 out of 29.65

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.77 out of 25.88

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.65 out of 27.18

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 21.63 out of 27.18

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.30 out of 29.65

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
LexA variant 2	Repressor of DNA damage response
NrdR	Represses ribonucleotide reductase encoding genes
RpoN	Regulator of nitrogen assimilation and virulence

NZ_FOET01000021.1 - Region 1 - NRPS

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Location: 41,438 - 68,989 nt. (total: 27,552 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

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TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

BMY40_RS25725: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: acetyltransferase

BMY40_RS25705: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: esterase

BMY40_RS25775: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: ligase

BMY40_RS25730: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS25795: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.72	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.67	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.65	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.65	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000307.4	0.65	NRPS	AbT1	Aureobasidium pullulans
BGC0001825.4	0.64	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.72	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.67	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.65	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.65	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000307.4	0.65	NRPS	AbT1	Aureobasidium pullulans
BGC0001825.4	0.64	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.67 out of 20.97

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (4):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.09 out of 27.78

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.50 out of 24.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.63 out of 29.65

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.57 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 41437 - 68989:

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

Polymer prediction:: (Cys) + (Me-Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS25730: diOH-Bz

Search NORINE for peptide: strict or relaxed

AMP-binding (33..433): diOH-Bz

nrpys: diOH-Bz

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: dhb (diOH-Bz)

Stachelhaus prediction details:

Stachelhaus sequence:: NITLYALGCPGGGLQVGGAQQSFGMAEGLLCQSA
Nearest Stachelhaus code(s):: Sal ALPGQGVLNK (68% 8Å match)
Stachelhaus code match:: 80% (moderate)

BMY40_RS25790: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (542..939): Cys

nrpys: Cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: TDVAFDLSVYDGNSLLSGDVSLGGATEAAVWSIA
Nearest Stachelhaus code(s):: Cys DLYNLSLVWK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

BMY40_RS25795: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (88..481): Cys

nrpys: Cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: TDLSFDLSVYDGNTLVSGDIALGGATEAGIWSNH
Nearest Stachelhaus code(s):: Cys DLYNLSLIWK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
VqsM	Regulator of quorum-sensing signalling systems

NZ_FOET01000017.1 - Region 1 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 21,242 - 73,812 nt. (total: 52,571 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))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

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TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

BMY40_RS23495: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

BMY40_RS23540: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: PPTase

BMY40_RS23535: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

Ligases: ligase synthase

BMY40_RS23530: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

BMY40_RS23545: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

BMY40_RS23550: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BMY40_RS23555: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000958.5	1.11	NRPS, PKS	antimycin	Streptomyces sp. S4
BGC0001455.6	1.09	NRPS, PKS	antimycin A1B	Streptomyces argillaceus
BGC0001216.5	1.01	NRPS, PKS	splenocin C	Streptomyces sp. CNQ431
BGC0000342.4	0.71	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.70	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.68	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001758.4	0.68	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001825.4	0.67	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000958.5	0.82	NRPS, PKS	antimycin	Streptomyces sp. S4
BGC0001455.6	0.81	NRPS, PKS	antimycin A1B	Streptomyces argillaceus
BGC0001216.5	0.79	NRPS, PKS	splenocin C	Streptomyces sp. CNQ431
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.67	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001758.4	0.67	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001825.4	0.67	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.38 out of 19.26

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.36 out of 20.97

Confidence: medium

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 22.05 out of 22.40

Confidence: strong

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.28 out of 23.05

Confidence: medium

Additional weak hits (14):

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.28 out of 30.25

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.00 out of 18.57

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.67 out of 29.25

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.76 out of 26.33

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.19 out of 27.78

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 24.15 out of 36.53

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.85 out of 26.12

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.24 out of 32.74

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.94 out of 31.73

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.20 out of 26.12

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.93 out of 29.38

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.47 out of 28.19

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 21241 - 73812:

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

Polymer prediction:: (Thr - AHBA) + (mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS23530: X

AMP-binding (7..402): X

nrpys: Ant

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: IGWCHGSMVVSTWLLYGAARQVYGMTEVGGFVTL
Nearest Stachelhaus code(s):: Ant GSVWLGVGFK (100% 8Å match); Pyv or Ant GSVWLGVGFK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

BMY40_RS23545: mal

PKS_AT (542..824): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 66.7%; inactive: 62.5%; 2-Rhyd-Malonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 126.2
inactive: 67.8
Methoxymalonyl-CoA: 61.6
Methylmalonyl-CoA: 44.0
Ethylmalonyl-CoA: 28.5
Propionyl-CoA: 25.1
Isobutyryl-CoA: 22.0
Benzoyl-CoA: 17.6
2-Methylbutyryl-CoA: 10.8
Acetyl-CoA: 8.9
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

BMY40_RS23550: Thr - AHBA

Search NORINE for peptide: strict or relaxed

AMP-binding (466..884): Thr

nrpys: Thr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: LAAHFDFSVWEGNQVFGGEVNMYGITETTVHVTH
Nearest Stachelhaus code(s):: Thr DFWNVGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

CAL_domain (1840..2127): AHBA

minowa: AHBA

Prediction, score:

AHBA: 13.6
NH2: 8.6
Acetyl-CoA: 7.5
shikimic_acid: 0.0
fatty_acid: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
CcpA	Catabolite control protein A
HypR	L-hydroxyproline utilization repressor

NZ_FOET01000017.1 - Region 2 - NRPS,arylpolyene

Download region GenBank file

Download region SVG

Location: 81,817 - 126,730 nt. (total: 44,914 nt) Show pHMM detection rules used

Region on contig edge.

arylpolyene: (APE_KS1 or APE_KS2)
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase reductase

BMY40_RS23730: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

BMY40_RS23830: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: Amination methyltransferase

BMY40_RS23740: methyltransferase

smcogs: SMCOG1089: methyltransferase

BMY40_RS29080: Amination

MITE: MITE0000131Amination (identity: 69.40%)

Hydrolases: esterase

BMY40_RS23775: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: ligase synthase

BMY40_RS23790: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

BMY40_RS28135: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

BMY40_RS29000: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.85	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.76	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.72	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.72	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001132.4	0.72	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.70	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.74	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.72	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0000465.4	0.69	NRPS	xenortide A, xenortide B, xenortide C, xenortide D	Xenorhabdus nematophila ATCC 19061
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001128.4	0.69	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.15 out of 30.11

Confidence: strong

Additional weak hits (9):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.42 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.16 out of 26.06

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.59 out of 36.54

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.99 out of 27.78

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.60 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.61 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.95 out of 27.78

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.04 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 81816 - 126730:

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

Polymer prediction:: (Thr - NMe-X) + (X - D-Phe)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 81816 - 122983:

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

Polymer prediction:: (Thr - NMe-X) + (X - D-Phe)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 88437 - 126730:

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

Polymer prediction:: (Thr - NMe-X) + (X - D-Phe)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

BMY40_RS23835: Thr - X

Search NORINE for peptide: strict or relaxed

AMP-binding (468..889): Thr

nrpys: Thr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: LSTHFDFSVWEGNQIFGGEVNMYGITETTVHTTE
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1556..1956): X

nrpys: Phe, Tyr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Polar aromatic ring (Tyr, bOH-Tyr)
Single AA prediction:: tyr (Tyr)

Stachelhaus prediction details:

Stachelhaus sequence:: LAQAFDAAVSEITITVAGEINAYGPTETTVCATM
Nearest Stachelhaus code(s):: Phe or Tyr DASTTAAVCK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

BMY40_RS29000: X - Phe

Search NORINE for peptide: strict or relaxed

AMP-binding (471..845): X

nrpys: Leu, Val

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LDSSFDASTYETVFWVGGEVDVYGPAEATVMATA
Nearest Stachelhaus code(s):: Leu DAYLWGAVMK (74% 8Å match); Val DAYLWGAVMK (71% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (1501..1899): Phe

nrpys: Phe

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: phe (Phe)

Stachelhaus prediction details:

Stachelhaus sequence:: LWQAFDAAAWEMTLVTAGEINAYGPTETTVCATA
Nearest Stachelhaus code(s):: Phe DAWTVAAVCK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CelR	Cellobiose uptake repressor