Detailed information of TA system TA077423

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 3325254..3325915
• Replicon: chromosome
• Accession: NZ_CP021793
• Organism: Sinorhizobium meliloti strain USDA1157

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: Q92KY5
• Locus tag: CDO31_RS16840
• Protein ID: WP_010970565.1
• Coordinates: 3325254..3325658 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: Q92KY4
• Locus tag: CDO31_RS16845
• Protein ID: WP_010970566.1
• Coordinates: 3325655..3325915 (-)
• Length: 87 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO31_RS16825	3320797..3321909	+	1113	WP_003535893.1	3-isopropylmalate dehydrogenase	-
CDO31_RS16830	3322038..3322745	+	708	WP_010970563.1	phosphatase PAP2 family protein	-
CDO31_RS16835	3322846..3324735	-	1890	WP_014527006.1	MHS family MFS transporter	-
CDO31_RS16840	3325254..3325658	-	405	WP_010970565.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO31_RS16845	3325655..3325915	-	261	WP_010970566.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO31_RS16850	3326045..3326215	+	171	WP_010970567.1	hypothetical protein	-
CDO31_RS16855	3326329..3327363	+	1035	WP_003531790.1	aspartate-semialdehyde dehydrogenase	-
CDO31_RS16860	3327536..3328357	+	822	WP_010970568.1	lytic transglycosylase family protein	-
CDO31_RS16865	3328566..3329762	-	1197	WP_014531784.1	IS256-like element ISRm5 family transposase	-
CDO31_RS16875	3330052..3330735	-	684	WP_010970569.1	carbonic anhydrase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	flank	IS/Tn	-	-	3328566..3329762	1196

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

>T77423 WP_010970565.1 NZ_CP021793:c3325658-3325254 [Sinorhizobium meliloti]
VISHILDTNAVIALIGRKSDALVTRVLHSPQGIIGLPSVVAYELYFGAQKSAKAQHNLETLRLLMADFPILDFDRNDAFV
AGEIRAALAAKGTPIGPYDVLIAGQAKARGLTLVTNNVGEFNRVENLRVEDWSL

Nucleotide

• Length: 405 bp

>T77423 NZ_CP021793:c3325658-3325254 [Sinorhizobium meliloti]
GTGATCTCCCATATTCTCGACACCAACGCCGTCATCGCTTTGATCGGGCGCAAATCGGATGCATTGGTCACCCGTGTACT
CCATAGCCCTCAGGGCATTATCGGGCTCCCGTCGGTCGTCGCGTATGAACTCTATTTTGGAGCGCAGAAAAGCGCGAAGG
CCCAACACAATCTCGAAACCCTGCGTTTGTTGATGGCGGATTTTCCGATCCTCGACTTCGACCGGAACGATGCCTTTGTC
GCAGGCGAGATCCGGGCCGCCCTTGCCGCGAAGGGTACGCCCATCGGACCTTATGACGTGCTGATTGCGGGACAGGCCAA
AGCCCGTGGATTGACGCTCGTCACCAACAATGTCGGCGAGTTCAATAGGGTTGAGAACCTGCGCGTGGAGGATTGGTCGC
TCTAG

Antitoxin

Protein

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

>AT77423 WP_010970566.1 NZ_CP021793:c3325915-3325655 [Sinorhizobium meliloti]
MPHLARVFQSGNSQAVRLPKEFRFNVDRVEITQEGDALILRPHVEQGEQWSSLKAALARGMSEDFMMCGREQPEQQDRSE
LDAVFR

Nucleotide

• Length: 261 bp

>AT77423 NZ_CP021793:c3325915-3325655 [Sinorhizobium meliloti]
ATGCCCCATCTTGCACGGGTGTTCCAGTCCGGAAATTCGCAGGCCGTCCGCCTGCCTAAGGAATTCCGCTTCAACGTCGA
TCGCGTCGAAATCACGCAGGAAGGCGACGCGCTCATTCTCCGCCCGCACGTCGAGCAAGGCGAGCAGTGGTCATCGCTGA
AGGCGGCACTTGCCCGTGGCATGAGTGAAGACTTCATGATGTGCGGGCGCGAGCAGCCGGAACAGCAGGATCGGTCGGAA
CTCGACGCGGTATTTCGGTGA

Structures

Toxin

• AlphaFold DB: Q92KY5

Antitoxin

• AlphaFold DB: Q92KY4