Detailed information of TA system TA226642

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3299537..3300198
• Replicon: chromosome
• Accession: NZ_CP088113
• Organism: Sinorhizobium meliloti strain RRI128

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q92KY5
• Locus tag: SmelRRI128_RS16055
• Protein ID: WP_010970565.1
• Coordinates: 3299537..3299941 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92KY4
• Locus tag: SmelRRI128_RS16060
• Protein ID: WP_010970566.1
• Coordinates: 3299938..3300198 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SmelRRI128_RS16040 (SmelRRI128_16040)	3295080..3296192	+	1113	WP_003535893.1	3-isopropylmalate dehydrogenase	-
SmelRRI128_RS16045 (SmelRRI128_16045)	3296321..3297028	+	708	WP_010970563.1	phosphatase PAP2 family protein	-
SmelRRI128_RS16050 (SmelRRI128_16050)	3297129..3299018	-	1890	WP_014527006.1	MFS transporter	-
SmelRRI128_RS16055 (SmelRRI128_16055)	3299537..3299941	-	405	WP_010970565.1	type II toxin-antitoxin system VapC family toxin	Toxin
SmelRRI128_RS16060 (SmelRRI128_16060)	3299938..3300198	-	261	WP_010970566.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SmelRRI128_RS16065 (SmelRRI128_16065)	3300327..3300497	+	171	WP_010970567.1	hypothetical protein	-
SmelRRI128_RS16070 (SmelRRI128_16070)	3300611..3301645	+	1035	WP_003531790.1	aspartate-semialdehyde dehydrogenase	-
SmelRRI128_RS16075 (SmelRRI128_16075)	3301818..3302639	+	822	WP_013844939.1	lytic transglycosylase domain-containing protein	-
SmelRRI128_RS16080 (SmelRRI128_16080)	3302986..3303669	-	684	WP_010970569.1	carbonic anhydrase	-
SmelRRI128_RS16085 (SmelRRI128_16085)	3303843..3304724	-	882	WP_010970570.1	pyridoxal kinase PdxY	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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 (5-124)

Antitoxin

• SpoVT-AbrB domain (8-44)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14507.71 Da
• Isoelectric Point: 6.7257

>T226642 WP_010970565.1 NZ_CP088113:c3299941-3299537 [Sinorhizobium meliloti]
VISHILDTNAVIALIGRKSDALVTRVLHSPQGIIGLPSVVAYELYFGAQKSAKAQHNLETLRLLMADFPILDFDRNDAFV
AGEIRAALAAKGTPIGPYDVLIAGQAKARGLTLVTNNVGEFNRVENLRVEDWSL

Nucleotide

• Length: 405 bp

>T226642 NZ_CP122588:301188-301463 [Escherichia coli]
ATGAGAACCAAGGTACAGGCTTTACGGAAGAAACAAAAAAATACATTGGATCAAATATTTAAAACTCCTGTTCCTCAAGG
GATCAAGTGGTCTGATATAGAGTCACAGGTTAAAGCATTAGGCGGAGAAATTAAGGAAGGAAGAGGTTCGCGTTGTAAGT
TCATACTAAATATGAGCGTTGCGTGTTTCCATCGGCCTCATCCGTCGCCAGATACCGATAAAGGCGCTGTAGAAAGCGTG
CGTGACTGGTTACTAAGTATAGGGGTAAAACCATGA

Antitoxin

Protein

• Length: 87 a.a.
• Molecular weight: 9903.16 Da
• Isoelectric Point: 5.1253

>AT226642 WP_010970566.1 NZ_CP088113:c3300198-3299938 [Sinorhizobium meliloti]
MPHLARVFQSGNSQAVRLPKEFRFNVDRVEITQEGDALILRPHVEQGEQWSSLKAALARGMSEDFMMCGREQPEQQDRSE
LDAVFR

Nucleotide

• Length: 261 bp

>AT226642 NZ_CP122588:301460-301819 [Escherichia coli]
ATGATCAAACTGAAGACGCCAAACTCTATGGAGATTGCCGGGCAACCTGCTGTTATCACTTACGTGCCAGAACTGAATGC
ATTTCGTGGCAAATTCCTGGGCTTGTCAGGTTATTGTGATTTTGTCTCTGACAGCATTCAGGGGCTGCAAAAAGAAGGGG
AACTTTCCCTGCGAGAGTATCTTGAGGATTGTAAAGCTGCGGGTATTGAGCCGTATGCGCGTACAGAAAAGATTAAGACC
TTTACGTTACGCTATCCAGAATCGCTGAGTGAACGCCTTAATAATGCGGCTGCGCAGCAACAAGTCTCTGTTAATACCTA
TATTATTGAAACACTGAATGAGCGTTTGAATCATTTATAA

Structures

Toxin

• AlphaFold DB: Q92KY5

Antitoxin

• AlphaFold DB: Q92KY4