Detailed information of TA system TA039658

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 60459..61102
• Replicon: plasmid IncN-R
• Accession: NZ_AP024786
• Organism: Klebsiella pneumoniae strain TUM12137

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: K6K11_RS27410
• Protein ID: WP_001044770.1
• Coordinates: 60459..60875 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: K6K11_RS27415
• Protein ID: WP_001261282.1
• Coordinates: 60872..61102 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
K6K11_RS27375 (TUM12137_52850)	56001..56237	-	237	WP_000993386.1	broad-spectrum mercury transporter MerE	-
K6K11_RS27380 (TUM12137_52860)	56234..56596	-	363	WP_001277456.1	mercury resistance co-regulator MerD	-
K6K11_RS27385 (TUM12137_52870)	56614..58308	-	1695	WP_000105636.1	mercury(II) reductase	-
K6K11_RS27390 (TUM12137_52880)	58360..58782	-	423	WP_001340589.1	organomercurial transporter MerC	-
K6K11_RS27395	58818..58928	-	111	Protein_65	mercuric transport protein periplasmic component	-
K6K11_RS27405 (TUM12137_52910)	59696..60385	-	690	Protein_67	AAA family ATPase	-
K6K11_RS27410 (TUM12137_52920)	60459..60875	-	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
K6K11_RS27415 (TUM12137_52930)	60872..61102	-	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
K6K11_RS27420	61059..61520	+	462	WP_072202616.1	hypothetical protein	-
K6K11_RS27425 (TUM12137_52940)	62078..63397	+	1320	WP_004152397.1	IS1182-like element ISKpn6 family transposase	-
K6K11_RS27430 (TUM12137_52950)	63647..64528	-	882	WP_004199234.1	carbapenem-hydrolyzing class A beta-lactamase KPC-2	-
K6K11_RS27435 (TUM12137_52960)	64816..65595	-	780	WP_004152394.1	IS21-like element ISKpn7 family helper ATPase IstB	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	blaKPC-2 / blaOXA-9 / blaTEM-1A / aac(6')-Ib / aadA2 / cmlA1 / ant(3'')-Ia / aac(3)-IVa / aph(4)-Ia	-	1..128491	128491
	-	inside	IScluster/Tn	blaKPC-2 / aac(6')-Ib	-	58944..75877	16933

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

>T39658 WP_001044770.1 NZ_AP024786:c60875-60459 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T39658 NZ_AP024786:c60875-60459 [Klebsiella pneumoniae]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTCGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGAATGGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACGCGGGAATTTGAGCGGGTACCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

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

>AT39658 WP_001261282.1 NZ_AP024786:c61102-60872 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT39658 NZ_AP024786:c61102-60872 [Klebsiella pneumoniae]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3