Detailed information of TA system TA167980

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 46016..46659
• Replicon: plasmid pIncFIA_HI1_IncR
• Accession: NZ_CP058943
• Organism: Klebsiella pneumoniae strain BA39649

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: HBJ39_RS28540
• Protein ID: WP_001044770.1
• Coordinates: 46243..46659 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: HBJ39_RS28535
• Protein ID: WP_001261282.1
• Coordinates: 46016..46246 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HBJ39_RS28500 (HBJ39_028485)	41588..42454	-	867	WP_004118283.1	replication initiation protein	-
HBJ39_RS28505 (HBJ39_028490)	42989..43093	+	105	WP_032409716.1	hypothetical protein	-
HBJ39_RS28510 (HBJ39_028495)	43222..43479	+	258	WP_000764642.1	hypothetical protein	-
HBJ39_RS28515 (HBJ39_028500)	43537..44313	-	777	WP_000015958.1	site-specific integrase	-
HBJ39_RS28520 (HBJ39_028505)	44310..45053	-	744	WP_209754157.1	hypothetical protein	-
HBJ39_RS28525 (HBJ39_028510)	45104..45454	-	351	WP_000493378.1	hypothetical protein	-
HBJ39_RS28530 (HBJ39_028515)	45598..46059	-	462	WP_072202616.1	hypothetical protein	-
HBJ39_RS28535 (HBJ39_028520)	46016..46246	+	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
HBJ39_RS28540 (HBJ39_028525)	46243..46659	+	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
HBJ39_RS28545 (HBJ39_028530)	46733..47422	+	690	Protein_58	AAA family ATPase	-
HBJ39_RS28550 (HBJ39_028535)	47477..48174	+	698	WP_223174630.1	IS1 family transposase	-
HBJ39_RS28555 (HBJ39_028540)	48475..49350	+	876	WP_000239590.1	extended-spectrum class A beta-lactamase CTX-M-15	-
HBJ39_RS28560 (HBJ39_028545)	49397..49741	-	345	Protein_61	WbuC family cupin fold metalloprotein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	ARR-3 / ere(A) / ant(3'')-Ia / cmlA1 / qacE / sul1 / blaCTX-M-15 / aac(3)-IId / blaSHV-187	-	1..60771	60771

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

>T167980 WP_001044770.1 NZ_CP058943:46243-46659 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T167980 NZ_CP058943:46243-46659 [Klebsiella pneumoniae]
GTGAACAAGACCTATATGCTCGACACCTGTATCTGCTCGTTCATCATGCGCGAGCAGCCGGAAGCCGTCCTGAAGCGCCT
GGAGCAGGCGGTGCTGCGCGGCCAGCGCATCGTTGTCTCGGCCATCACTTATTCTGAAATGCGCTTCGGGGCCACCGGCC
CGAAGGCCTCCCCGCGCCACGTCGAGCTGGTCGACGCGTTCTGCGCCCGCCTCGATGCCATCCTGCCCTGGGATCGCGCT
GCGGTGGACGCCACCACGGAGATTAAGGTGGCGCTGCGAATGGCCGGGACGCCGATCGGCCCGAACGACACGGCCATTGC
CGGGCACGCCATCGCCGCCGGTGCCGTGCTGGTGACGAATAATACGCGGGAATTTGAGCGGGTACCGGGTCTTGTGCTGG
AAGACTGGGTAAGATAA

Antitoxin

Protein

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

>AT167980 WP_001261282.1 NZ_CP058943:46016-46246 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT167980 NZ_CP058943:46016-46246 [Klebsiella pneumoniae]
ATGAGAACTGTATCCATTTTTAAAAACGGCAATAACCGCGCCATTCGTCTGCCCCGCGATCTGGATTTTGAGGGAGTGAG
CGAGCTGGAGATCGTCCGGGAAGGGGACAGCATTATTTTGCGTCCCGTCCGGCCGACCTGGGGCTCGTTCGCGCAGTTCG
AGAAGGCAGACCCGGACTTTATGGCGGAGCGCGAGGACGTTGTCAGCGACGAAGGACGATTTAACCTGTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3