Detailed information of TA system TA053015

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 13052..13695
• Replicon: plasmid pMNCRE44_5
• Accession: NZ_CP010881
• Organism: Escherichia coli strain MNCRE44

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: SY51_RS25630
• Protein ID: WP_001044770.1
• Coordinates: 13279..13695 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: SY51_RS25625
• Protein ID: WP_001261282.1
• Coordinates: 13052..13282 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SY51_RS25600	8770..9525	-	756	WP_012539983.1	replication initiation protein RepE	-
SY51_RS30925	10155..10268	+	114	WP_032072094.1	hypothetical protein	-
SY51_RS30930	10397..10654	+	258	WP_032408936.1	hypothetical protein	-
SY51_RS25610	10712..11497	-	786	WP_022644886.1	site-specific integrase	-
SY51_RS25615	11500..12138	-	639	WP_022644887.1	hypothetical protein	-
SY51_RS25620	12187..12507	-	321	WP_032072060.1	hypothetical protein	-
SY51_RS30935	12635..13095	-	461	Protein_15	hypothetical protein	-
SY51_RS25625	13052..13282	+	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SY51_RS25630	13279..13695	+	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
SY51_RS25635	13769..14005	+	237	WP_001348075.1	AAA family ATPase	-
SY51_RS25640	14052..14756	+	705	WP_001067855.1	IS6-like element IS26 family transposase	-
SY51_RS25645	14808..16574	+	1767	Protein_20	Tn3 family transposase	-
SY51_RS25650	16653..17657	+	1005	WP_000427619.1	IS110-like element IS5075 family transposase	-
SY51_RS25655	17839..18015	-	177	WP_000954592.1	Arm DNA-binding domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	sul2 / aph(3'')-Ib / aph(6)-Id / blaTEM-1A / blaOXA-9 / ant(3'')-Ia / aac(6')-Ib / blaKPC-3 / blaSHV-12	-	1..116803	116803

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 (5-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15106.52 Da
• Isoelectric Point: 7.1084

>T53015 WP_001044770.1 NZ_CP010881:13279-13695 [Escherichia coli]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T53015 NZ_CP010881:13279-13695 [Escherichia coli]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTCGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGAATGGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACGCGGGAATTTGAGCGGGTACCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8756.83 Da
• Isoelectric Point: 4.4692

>AT53015 WP_001261282.1 NZ_CP010881:13052-13282 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT53015 NZ_CP010881:13052-13282 [Escherichia coli]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3