Detailed information of TA system TA179448

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 74807..75450
• Replicon: plasmid pBM336-2-1
• Accession: NZ_CP063914
• Organism: Klebsiella pneumoniae strain BM336-2-1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: ISA78_RS26585
• Protein ID: WP_016236302.1
• Coordinates: 74807..75223 (-)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: ISA78_RS26590
• Protein ID: WP_001261282.1
• Coordinates: 75220..75450 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
ISA78_RS26565	70175..70525	+	351	WP_004187110.1	DUF305 domain-containing protein	-
ISA78_RS26570	70711..71625	-	915	WP_153378766.1	HNH endonuclease	-
ISA78_RS26575	72164..73186	-	1023	WP_032439672.1	helicase UvrD	-
ISA78_RS26580	73171..74733	-	1563	WP_004206609.1	AAA family ATPase	-
ISA78_RS26585	74807..75223	-	417	WP_016236302.1	type II toxin-antitoxin system VapC family toxin	Toxin
ISA78_RS26590	75220..75450	-	231	WP_001261282.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
ISA78_RS26595	75407..75829	+	423	WP_050485703.1	hypothetical protein	-
ISA78_RS26600	76029..76973	+	945	WP_032448293.1	hypothetical protein	-
ISA78_RS26605	77082..77474	+	393	WP_074422814.1	hypothetical protein	-
ISA78_RS26610	77532..78053	+	522	WP_032448294.1	hypothetical protein	-
ISA78_RS26615	78099..78884	+	786	WP_050485696.1	site-specific integrase	-
ISA78_RS26620	79266..80441	-	1176	Protein_83	IS3 family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	tet(A) / mph(A) / sul1 / qacE / ARR-3 / catB3 / blaOXA-1 / aac(6')-Ib-cr / aac(3)-IId / aph(6)-Id / aph(3'')-Ib / sul2 / dfrA12 / aadA2 / cmlA1 / ant(3'')-Ia / sul3 / mef(B)	iucA / iucB / iucC / iucD / iutA	1..256775	256775

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: 15091.55 Da
• Isoelectric Point: 7.1084

>T179448 WP_016236302.1 NZ_CP063914:c75223-74807 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLELAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T179448 NZ_CP084766:c3997274-3996957 [Klebsiella variicola subsp. variicola]
ATGTTCAGATTGGTTGTGCATGTGGACGTTAAAAAGGAATTGCAGGCGCTTCCGCCCATTGTCCAGGCGAAGATGATCCG
GCAAATAGACAAGTTACGCCAAAATCCCACCGCGCTGAGAGAACCTGACAGTAAACCGCTGGGGCAGGGGCTATTTGAAA
TTCGTGCGTTAGGTTCGGTACAGGGGCGAGGGATCTACGTTTTTCAGCAAGGCAAGACGCTCTTTCTGCTACGGGTTTTT
GTCAAGAAAACGCAAAAAACCCCGTCATCGGAAATTCGCCTGGCGCTGAAGCGATTAGAGGAGATGCGCAATGAGTAA

Antitoxin

Protein

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

>AT179448 WP_001261282.1 NZ_CP063914:c75450-75220 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT179448 NZ_CP084766:c3996964-3996677 [Klebsiella variicola subsp. variicola]
ATGAGTAAAAAGATCATTGACTGGGATACGTTAAAAACAGAACTGCTTAGCCAGCCTGAGGTTCAGGCTGCATTCGATGC
GCAAGAACGTCAACAGCGATTACGTACTATGCTGGCGCAATGGCGCGAGCAGGCGGGGCTGACCCGAGCCCAGGTGGCGC
AGAGGATGGGGGTGAGTGCGCCGACGGTCTCCAGAATGGAAGCCAATATCACCCGCGCCAGTCTGGATACCTTAACGCGA
TACGCGTTAGCCTGTGGAATAAAGCACCCACAAATTTTACTTTACTAA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GZG3