Detailed information of TA system TA227256

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 41290..41933
• Replicon: plasmid p53322-121.6
• Accession: NZ_CP088989
• Organism: Klebsiella pneumoniae strain 53322

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: LRZ75_RS25990
• Protein ID: WP_001044770.1
• Coordinates: 41290..41706 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: LRZ75_RS25995
• Protein ID: WP_001261282.1
• Coordinates: 41703..41933 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LRZ75_RS25970 (LRZ75_25970)	37771..38529	+	759	Protein_44	putrescine ABC transporter permease SapB	-
LRZ75_RS25975 (LRZ75_25975)	38572..39276	-	705	WP_001067855.1	IS6-like element IS26 family transposase	-
LRZ75_RS25980 (LRZ75_25980)	39339..40166	-	828	Protein_46	IS4-like element ISVsa5 family transposase	-
LRZ75_RS25985 (LRZ75_25985)	40272..41216	-	945	Protein_47	AAA family ATPase	-
LRZ75_RS25990 (LRZ75_25990)	41290..41706	-	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
LRZ75_RS25995 (LRZ75_25995)	41703..41933	-	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
LRZ75_RS26000 (LRZ75_26000)	41890..42350	+	461	Protein_50	hypothetical protein	-
LRZ75_RS26005 (LRZ75_26005)	42520..42738	+	219	WP_001568025.1	type II toxin-antitoxin system antitoxin CcdA	-
LRZ75_RS26010 (LRZ75_26010)	42740..43045	+	306	WP_025714517.1	type II toxin-antitoxin system toxin CcdB	-
LRZ75_RS26015 (LRZ75_26015)	43214..43609	+	396	WP_017899885.1	hypothetical protein	-
LRZ75_RS26020 (LRZ75_26020)	43636..43950	+	315	WP_053389906.1	hypothetical protein	-
LRZ75_RS26025 (LRZ75_26025)	43961..44977	+	1017	WP_017899884.1	hypothetical protein	-
LRZ75_RS26030 (LRZ75_26030)	45175..45969	+	795	WP_004197635.1	site-specific integrase	-
LRZ75_RS26035 (LRZ75_26035)	46457..46759	-	303	WP_071571079.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	sul1 / blaDHA-1 / qnrB4	-	1..121561	121561

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

>T227256 WP_001044770.1 NZ_CP088989:c41706-41290 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T227256 NZ_CP122816:2470833-2471120 [Escherichia coli]
ATGGCGTATTTTCTGGATTTTGACGAGCGGGCACTAAAGGAATGGCGAAAGCTGGGCTCGACGGTACGTGAACAGTTGAA
AAAGAAGCTGGTTGAAGTACTTGAGTCACCCCGGATTGAAGCAAACAAGCTCCGTGGTATGCCTGATTGTTACAAGATTA
AGCTCCGGTCTTCAGGCTATCGCCTTGTATACCAGGTTATAGACGAGAAAGTTGTCGTTTTCGTGATTTCTGTTGGGAAA
AGAGAACGCTCGGAAGTATATAGCGAGGCGGTCAAACGCATTCTCTGA

Antitoxin

Protein

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

>AT227256 WP_001261282.1 NZ_CP088989:c41933-41703 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT227256 NZ_CP122816:2470594-2470833 [Escherichia coli]
ATGGGTAGCATTAACCTGCGTATTGACGATGAACTTAAAGCGCGTTCTTACGCCGCGCTTGAAAAAATGGGTGTAACTCC
TTCTGAAGCGCTTCGTCTCATGCTCGAGTATATCGCTGACAATGAACGCTTGCCGTTCAAACAGACACTCCTGAGTGATG
AAGATGCTGAACTTGTGGAGATAGTGAAAGAACGGCTTCGTAATCCTAAGCCAGTACGTGTGACGCTGGATGAACTCTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3