Detailed information of TA system TA218230

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 116637..117280
• Replicon: plasmid pKPC-fusion
• Accession: NZ_CP084206
• Organism: Escherichia coli strain EC2648-R1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: LDB14_RS23075
• Protein ID: WP_001044770.1
• Coordinates: 116864..117280 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: LDB14_RS23070
• Protein ID: WP_001261282.1
• Coordinates: 116637..116867 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LDB14_RS23035 (111860)	111860..112639	-	780	WP_013214009.1	site-specific integrase	-
LDB14_RS23040 (112823)	112823..113827	-	1005	WP_011977814.1	hypothetical protein	-
LDB14_RS23045 (113857)	113857..114060	-	204	WP_011977813.1	hypothetical protein	-
LDB14_RS23050 (114106)	114106..114627	-	522	WP_013214008.1	hypothetical protein	-
LDB14_RS23055 (114685)	114685..115077	-	393	WP_011977811.1	hypothetical protein	-
LDB14_RS23060 (115114)	115114..116058	-	945	WP_011977810.1	hypothetical protein	-
LDB14_RS23065 (116219)	116219..116680	-	462	WP_014343465.1	hypothetical protein	-
LDB14_RS23070 (116637)	116637..116867	+	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LDB14_RS23075 (116864)	116864..117280	+	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
LDB14_RS23080 (117354)	117354..118916	+	1563	WP_004206609.1	AAA family ATPase	-
LDB14_RS23085 (118901)	118901..119923	+	1023	WP_000361404.1	helicase UvrD	-
LDB14_RS23090 (120179)	120179..120876	+	698	WP_223174630.1	IS1 family transposase	-
LDB14_RS23095 (121018)	121018..121335	+	318	WP_001226231.1	TrbM/KikA/MpfK family conjugal transfer protein	-
LDB14_RS23100 (121338)	121338..121652	+	315	WP_000851068.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	blaKPC-2 / blaSHV-187 / blaCTX-M-65	-	1..138128	138128
	-	flank	IS/Tn	-	-	120373..120876	503

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

>T218230 WP_001044770.1 NZ_CP084206:116864-117280 [Escherichia coli]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T218230 NZ_CP115707:345063-345431 [Klebsiella pneumoniae]
ATGACGCTGCAGATTATCTCAGCGGAAGAGATAATACAGTTTCACGACAGGCTGCTCCGCGTCACGCCTGGCGTTGCCGG
TATGCCCGATCCGGGGCGTGCCGAAGCGATAATGTATAGGGTGCTAAACAAAATTGAATATGAAGGTGTGACAGACGTGT
GGCGACTCGCTGCGATGCATCTGCTGGCGATTTCTCGCGGTCATATATTTAATGATGGTAATAAGCGTACGGCACTGTTT
ATCACCCTGCTTTTTTTAAAGCGAAATGGAATTATATTGCCAGCGAATCCAGACTTCGTCGGCATGACCGTCGAGGCAGC
AGCAGGGCAACTTACCCTGGAACAGATTGTCGCGCGTTTGCGTGGATGA

Antitoxin

Protein

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

>AT218230 WP_001261282.1 NZ_CP084206:116637-116867 [Escherichia coli]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT218230 NZ_CP115707:344845-345066 [Klebsiella pneumoniae]
ATGAGAACGGTTAACTATAGCGAAGCCCGGCAAAATCTGGCCGATGTGCTGGAAAGCGCAGTGACAGGTGTACCTGTGAC
CATTACCCGTCGTGGGCATAAATCTGCAGTCATCATTAGTGCAGAAGAGTTTGAACGCTACCAGGCGGCCAGAATGGATG
ATGAGTTCGCGGCTATCATGGCGGTTCATGGTGATGAGATCAGGGAGCTTGCGGATAAATGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3