Detailed information of TA system TA085854

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-StbC
• Location: 904233..904875
• Replicon: chromosome
• Accession: NZ_CP023669
• Organism: Methylomonas koyamae strain LM6

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A172U5G4
• Locus tag: MKLM6_RS04180
• Protein ID: WP_064020613.1
• Coordinates: 904456..904875 (+)
• Length: 140 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: MKLM6_RS04175
• Protein ID: WP_082880795.1
• Coordinates: 904233..904469 (+)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MKLM6_RS04140	900258..900509	+	252	WP_064023361.1	UPF0175 family protein	-
MKLM6_RS23360	900578..900787	+	210	WP_197484851.1	hypothetical protein	-
MKLM6_RS23365	900811..900984	+	174	WP_197484853.1	DUF3368 domain-containing protein	-
MKLM6_RS04150	901100..901360	+	261	WP_082880792.1	hypothetical protein	-
MKLM6_RS04160	901453..901692	-	240	WP_096875706.1	type II toxin-antitoxin system RelE/ParE family toxin	-
MKLM6_RS04165	901679..901960	-	282	WP_157770229.1	type II toxin-antitoxin system ParD family antitoxin	-
MKLM6_RS04170	902375..903622	+	1248	WP_096875497.1	IS256 family transposase	-
MKLM6_RS23370	903607..903825	-	219	WP_198402754.1	hypothetical protein	-
MKLM6_RS04175	904233..904469	+	237	WP_082880795.1	DNA-binding protein	Antitoxin
MKLM6_RS04180	904456..904875	+	420	WP_064020613.1	type II toxin-antitoxin system VapC family toxin	Toxin
MKLM6_RS04185	905356..906018	-	663	WP_064024555.1	ORF6C domain-containing protein	-
MKLM6_RS04190	906032..906466	-	435	WP_064024557.1	helix-turn-helix domain-containing protein	-
MKLM6_RS04195	906687..907043	+	357	WP_082889340.1	helix-turn-helix domain-containing protein	-
MKLM6_RS04200	907030..907473	+	444	WP_064024565.1	hypothetical protein	-
MKLM6_RS04205	907470..907673	+	204	WP_064024559.1	hypothetical protein	-
MKLM6_RS04210	907670..909817	+	2148	WP_082889341.1	Mu transposase C-terminal domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	902375..903622	1247

Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.

Domains

Predicted by InterproScan

Toxin

• PIN domain (2-128)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 140 a.a.
• Molecular weight: 15786.13 Da
• Isoelectric Point: 5.1661

>T85854 WP_064020613.1 NZ_CP023669:904456-904875 [Methylomonas koyamae]
MYLIDTNVISEIRKGDKANPGVRRFFDAAIQNNQKLYISVVTIGELRRGVDLIFHRGDISQSKLLETWLNSILEQYQENI
LGIDCDIALIWGKMRVPNPQHPIDKLIAATALIYDLTVVTRNTEDFQNTGIALLNPFSE

Nucleotide

• Length: 420 bp

>T85854 NZ_CP023669:904456-904875 [Methylomonas koyamae]
ATGTATTTGATTGATACTAACGTCATCAGTGAGATCAGAAAAGGCGACAAAGCCAATCCAGGGGTTCGCCGTTTTTTTGA
TGCTGCAATCCAAAATAATCAAAAACTTTATATTTCTGTGGTCACGATTGGGGAGCTACGAAGAGGTGTCGATTTGATTT
TTCATCGCGGTGACATCTCGCAAAGCAAGCTTTTAGAAACGTGGCTAAATTCGATTCTTGAACAATATCAAGAGAACATT
CTCGGTATTGACTGCGATATAGCTTTAATCTGGGGAAAAATGCGCGTTCCTAATCCACAGCATCCCATCGACAAGCTGAT
TGCGGCAACTGCATTGATTTATGATTTGACGGTTGTGACTCGTAATACAGAGGATTTCCAAAACACCGGCATCGCTCTAC
TGAATCCATTTTCTGAATAA

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 8674.77 Da
• Isoelectric Point: 5.5500

>AT85854 WP_082880795.1 NZ_CP023669:904233-904469 [Methylomonas koyamae]
MPSLVVRNLDESIINALKARAVAHHRSTEAEHRAILAEFLLSPQRKTFAEALTNMPSVGIDTDFQRVNDDTPATNVFD

Nucleotide

• Length: 237 bp

>AT85854 NZ_CP023669:904233-904469 [Methylomonas koyamae]
ATGCCTAGTCTAGTTGTCAGAAACCTTGATGAATCCATCATTAACGCGCTTAAAGCGAGAGCAGTTGCACATCACCGCTC
TACCGAAGCGGAGCACCGCGCGATTTTAGCGGAGTTTTTGTTAAGTCCCCAACGTAAAACCTTTGCAGAGGCATTAACCA
ATATGCCTTCTGTCGGTATAGATACCGATTTTCAACGCGTGAATGACGACACTCCGGCAACCAATGTATTTGATTGA

Structures

Toxin

• AlphaFold DB: A0A172U5G4