Detailed information of TA system TA161900

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1371602..1372227
• Replicon: chromosome
• Accession: NZ_CP055199
• Organism: Shigella flexneri strain STEFF_3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HUZ39_RS06645
• Protein ID: WP_000911330.1
• Coordinates: 1371829..1372227 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: U9XQV3
• Locus tag: HUZ39_RS06640
• Protein ID: WP_000450524.1
• Coordinates: 1371602..1371829 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HUZ39_RS06615 (1367405)	1367405..1367875	-	471	WP_001068682.1	thioredoxin-dependent thiol peroxidase	-
HUZ39_RS06620 (1367875)	1367875..1368447	-	573	WP_000176187.1	glycine cleavage system transcriptional repressor	-
HUZ39_RS06625 (1368593)	1368593..1369471	+	879	WP_001295469.1	4-hydroxy-tetrahydrodipicolinate synthase	-
HUZ39_RS06630 (1369488)	1369488..1370522	+	1035	WP_001330579.1	outer membrane protein assembly factor BamC	-
HUZ39_RS06635 (1370735)	1370735..1371448	+	714	WP_001295467.1	phosphoribosylaminoimidazolesuccinocarboxamide synthase	-
HUZ39_RS06640 (1371602)	1371602..1371829	+	228	WP_000450524.1	toxin-antitoxin system antitoxin VapB	Antitoxin
HUZ39_RS06645 (1371829)	1371829..1372227	+	399	WP_000911330.1	type II toxin-antitoxin system VapC family toxin	Toxin
HUZ39_RS06650 (1372374)	1372374..1373237	+	864	WP_001267498.1	neutral zinc metallopeptidase	-
HUZ39_RS06655 (1373252)	1373252..1375267	+	2016	WP_000829292.1	tRNA cytosine(34) acetyltransferase TmcA	-
HUZ39_RS06660 (1375341)	1375341..1376039	+	699	WP_000679812.1	esterase	-
HUZ39_RS06665 (1376120)	1376120..1376320	-	201	WP_000383836.1	YpfN family protein	-

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 (5-125)

Antitoxin

• SpoVT-AbrB domain (7-52)

Sequences

Toxin

Protein

• Length: 133 a.a.
• Molecular weight: 14894.25 Da
• Isoelectric Point: 9.2216

>T161900 WP_000911330.1 NZ_CP055199:1371829-1372227 [Shigella flexneri]
MLKFMLDTNICIFTIKNKPVHVRERFNLNSGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRLVVLDYDSAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVAGIRLEDWS

Nucleotide

• Length: 399 bp

>T161900 NZ_CP071395:81165-81581 [Klebsiella michiganensis]
ATGAAGAAAACCTGGATGCTCGACACTAACATCTGCTCGTTCATCATGCGCGAGCAGCTGGCTGCGGTGCTGATGCGCCT
GGAGCAGGCGGTGCTGCACGGTGATCGCATCGTGGTCTCGGCCGTGACATATGCCGAGATGCGCTTCGGCGCCACCGGCC
CTAAGGCCTCGCCGCGCCATATTCAGCTGGTCGACGCGTTCTGCGCGCGCCTCGATGCCATCCTGCCTTGGGACCGCGCC
GCAGTGGACGCCACGACGGACATTCGGGTGGCGCTGCGCCTCGCCGGGACGCCGATCGGCCCTAACGACACGGCCATTGC
GGGACACGCCATCGCGGCCGACGCCATCCTGGTGACGAATAATGTGAGAGAATTTGGGCGGGTGCCGGGTCTGGTGCTGG
AAGACTGGGTGAAGTAA

Antitoxin

Protein

• Length: 76 a.a.
• Molecular weight: 8498.61 Da
• Isoelectric Point: 4.3867

>AT161900 WP_000450524.1 NZ_CP055199:1371602-1371829 [Shigella flexneri]
METTVFLSNRSQAVRLPKAVALPEDVKKVEIIAIGRTRIITPAGESWDSWFDGENVSADFMDIRDQPAMQERESF

Nucleotide

• Length: 228 bp

>AT161900 NZ_CP071395:80938-81168 [Klebsiella michiganensis]
ATGCGCACAGTTTCGATATTTAAAAACGGCAATAACCGCGCCATCCGTCTGCCCCGTGACCTGGATTTTGACGGCGTCAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATCATTCTGCGTCCCGTCCGGCCGACCTGGGGCTCATTCGCGCAGCTGG
ACAGGGCCGATCCGGATTTTATGGCAGAGCGTGAGGATGTGGTCAGCGATGAAGGACGCTTTGAGCCATGA

Structures

Antitoxin

• AlphaFold DB: A0A829CM33