Detailed information of TA system TA056676

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 30823..31466
• Replicon: plasmid pUCLAOXA232-3
• Accession: NZ_CP012564
• Organism: Klebsiella pneumoniae strain UCLAOXA232KP

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: AM277_RS28055
• Protein ID: WP_071854281.1
• Coordinates: 30823..31239 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: AM277_RS28060
• Protein ID: WP_001261282.1
• Coordinates: 31236..31466 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AM277_RS28035	28275..28607	+	333	WP_001393253.1	WbuC family cupin fold metalloprotein	-
AM277_RS28040	28654..29529	-	876	WP_000239590.1	class A extended-spectrum beta-lactamase CTX-M-15	-
AM277_RS28045	29762..30466	-	705	WP_001067855.1	IS6-like element IS26 family transposase	-
AM277_RS28050	30513..30749	-	237	WP_001348075.1	AAA family ATPase	-
AM277_RS28055	30823..31239	-	417	WP_071854281.1	type II toxin-antitoxin system VapC family toxin	Toxin
AM277_RS28060	31236..31466	-	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
AM277_RS28065	31423..31884	+	462	WP_165763053.1	hypothetical protein	-
AM277_RS28070	32029..32343	+	315	WP_015632378.1	hypothetical protein	-
AM277_RS28075	32392..32703	+	312	WP_024191724.1	hypothetical protein	-
AM277_RS28080	32768..33772	+	1005	WP_016162067.1	hypothetical protein	-
AM277_RS32695	33816..33977	+	162	WP_032495756.1	hypothetical protein	-
AM277_RS28085	33970..34764	+	795	WP_015632375.1	site-specific integrase	-
AM277_RS31340	35236..35415	-	180	WP_006788217.1	hypothetical protein	-
AM277_RS28095	35535..36161	-	627	WP_004197649.1	ParA family plasmid-partitioning AAA ATPase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	ARR-3 / rmtF / blaCTX-M-15	-	1..88800	88800

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: 15086.51 Da
• Isoelectric Point: 7.1084

>T56676 WP_071854281.1 NZ_CP012564:c31239-30823 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T56676 NZ_CP012564:c31239-30823 [Klebsiella pneumoniae]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTTGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGCCTCGCCGGAACGCCGATAGGCCCGAACGACACGGCGATCGC
CGGGCATGCCATTGCGGCCGGCGCCGTACTGGTGACAAATAATGTGCGGGAGTTTGAGCGGGTGCCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

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

>AT56676 WP_001261282.1 NZ_CP012564:c31466-31236 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT56676 NZ_CP012564:c31466-31236 [Klebsiella pneumoniae]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3