Detailed information of TA system TA161550

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VagC
• Location: 1324079..1324704
• Replicon: chromosome
• Accession: NZ_CP055109
• Organism: Shigella flexneri strain SWHIN_104

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HUZ82_RS06360
• Protein ID: WP_000911330.1
• Coordinates: 1324306..1324704 (+)
• Length: 133 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: U9XQV3
• Locus tag: HUZ82_RS06355
• Protein ID: WP_000450524.1
• Coordinates: 1324079..1324306 (+)
• Length: 76 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HUZ82_RS06330 (1319881)	1319881..1320351	-	471	WP_001068682.1	thioredoxin-dependent thiol peroxidase	-
HUZ82_RS06335 (1320351)	1320351..1320923	-	573	WP_000176187.1	glycine cleavage system transcriptional repressor	-
HUZ82_RS06340 (1321069)	1321069..1321947	+	879	WP_001295469.1	4-hydroxy-tetrahydrodipicolinate synthase	-
HUZ82_RS06345 (1321964)	1321964..1322998	+	1035	WP_001297320.1	outer membrane protein assembly factor BamC	-
HUZ82_RS06350 (1323211)	1323211..1323924	+	714	WP_001295467.1	phosphoribosylaminoimidazolesuccinocarboxamide synthase	-
HUZ82_RS06355 (1324079)	1324079..1324306	+	228	WP_000450524.1	toxin-antitoxin system antitoxin VapB	Antitoxin
HUZ82_RS06360 (1324306)	1324306..1324704	+	399	WP_000911330.1	type II toxin-antitoxin system VapC family toxin	Toxin
HUZ82_RS06365 (1324851)	1324851..1325714	+	864	WP_001267507.1	neutral zinc metallopeptidase	-
HUZ82_RS06370 (1325729)	1325729..1327744	+	2016	WP_032283657.1	tRNA cytosine(34) acetyltransferase TmcA	-
HUZ82_RS06375 (1327818)	1327818..1328516	+	699	WP_000679823.1	esterase	-
HUZ82_RS06380 (1328626)	1328626..1328826	-	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

>T161550 WP_000911330.1 NZ_CP055109:1324306-1324704 [Shigella flexneri]
MLKFMLDTNICIFTIKNKPVHVRERFNLNSGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRLVVLDYDSAAATHT
GQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVAGIRLEDWS

Nucleotide

• Length: 399 bp

>T161550 NZ_CP071216:c4455844-4455590 [Serratia marcescens subsp. marcescens ATCC 13880]
ATGAACAAACGACACCAAAAAACGCTGTCAGATGTGTTTGCCCGGCCTGTCAACGGTTCTATAAAGTGGTCTGATATTGA
GGCGCTTTTTACCGCATTAGGGGCGGAGATTCACGAAAGGGAAGGTTCTAGGATCGCGGTGCTGTTGAAAGGTGAAAAAA
GAGTCTTTCACCGGCCACACCCCAGACCTACCACTGACAAGGGGGCGGTTAACTCCATTCGGATCTGGTTGGATAGCTTA
GGAATAAAACCATGA

Antitoxin

Protein

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

>AT161550 WP_000450524.1 NZ_CP055109:1324079-1324306 [Shigella flexneri]
METTVFLSNRSQAVRLPKAVALPEDVKKVEIIAIGRTRIITPAGESWDSWFDGENVSADFMDIRDQPAMQERESF

Nucleotide

• Length: 228 bp

>AT161550 NZ_CP071216:c4455590-4455249 [Serratia marcescens subsp. marcescens ATCC 13880]
ATGAATAACACACTGAAAATTGACGGCCATACGGCCGTCATCAACTTCGACCCTGAAATTGAAATGTTCCGGGGCGAGTT
TGTCGGGCTGAATGGCGGCGCCGACTTCTACGCCTACAGCGTGGACGAGCTGAAGAAAGAAGGCGCGATCTCACTCGCGG
TCTTTCTCGATGAGTGCCATAAAGACGGCATCGAGCCTTACAAGTCGTACAGCGGCAAAGTAACCACCCGCCTGTCGCCG
GAACGCCATCAGGCGTTAGCCATTGCCGCACAGGCCACCGGGCAGTCGATTAATGAACTGCTGAATGAAGGTGTTGATCT
GGTTATCGAAAAGCATTCCTGA

Structures

Antitoxin

• AlphaFold DB: A0A829CM33