Detailed information of TA system TA032046

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 27631..28274
• Replicon: plasmid pKP6402
• Accession: NZ_AP018752
• Organism: Klebsiella pneumoniae strain KP64

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: D5082_RS28625
• Protein ID: WP_001044770.1
• Coordinates: 27631..28047 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: D5082_RS28630
• Protein ID: WP_001261282.1
• Coordinates: 28044..28274 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
D5082_RS28595	22834..23622	+	789	WP_001206315.1	ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA1	-
D5082_RS28600	23682..24506	+	825	WP_000722315.1	oxacillin-hydrolyzing class D beta-lactamase OXA-9	-
D5082_RS28605	24706..25023	+	318	Protein_28	recombinase family protein	-
D5082_RS28610	25206..26066	+	861	WP_000027057.1	class A broad-spectrum beta-lactamase TEM-1	-
D5082_RS28615	26116..26813	-	698	Protein_30	IS1 family transposase	-
D5082_RS28620	26847..27557	-	711	WP_004152334.1	ATP-binding protein	-
D5082_RS28625	27631..28047	-	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
D5082_RS28630	28044..28274	-	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
D5082_RS29485	28231..28692	+	462	WP_072202616.1	hypothetical protein	-
D5082_RS28640	28836..29186	+	351	WP_000493378.1	hypothetical protein	-
D5082_RS28645	29237..29980	+	744	WP_000129823.1	hypothetical protein	-
D5082_RS28650	29977..30753	+	777	WP_000015958.1	site-specific integrase	-
D5082_RS28655	30811..31068	-	258	WP_000764642.1	hypothetical protein	-
D5082_RS29490	31197..31301	-	105	WP_032409716.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Non-Mobilizable plasmid	blaCTX-M-15 / aac(6')-Ib / ant(3'')-Ia / blaOXA-9 / blaTEM-1A	-	1..31835	31835

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

>T32046 WP_001044770.1 NZ_AP018752:c28047-27631 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T32046 NZ_AP018752:c28047-27631 [Klebsiella pneumoniae]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTCGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGAATGGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACGCGGGAATTTGAGCGGGTACCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

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

>AT32046 WP_001261282.1 NZ_AP018752:c28274-28044 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT32046 NZ_AP018752:c28274-28044 [Klebsiella pneumoniae]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3