Detailed information of TA system TA203590

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 53985..54628
• Replicon: plasmid pRGF20-1-78k
• Accession: NZ_CP075454
• Organism: Klebsiella pneumoniae strain RGF20-1

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: D8L2J9
• Locus tag: KI738_RS27200
• Protein ID: WP_001044770.1
• Coordinates: 54212..54628 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: D5KTK7
• Locus tag: KI738_RS27195
• Protein ID: WP_001261282.1
• Coordinates: 53985..54215 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KI738_RS27155 (KI738_27160)	49187..49456	+	270	WP_000339857.1	hypothetical protein	-
KI738_RS27160 (KI738_27165)	49633..50499	-	867	WP_004118283.1	replication initiation protein	-
KI738_RS27165 (KI738_27170)	51029..51133	+	105	WP_032409716.1	hypothetical protein	-
KI738_RS27170 (KI738_27175)	51262..51519	+	258	WP_000764642.1	hypothetical protein	-
KI738_RS27175 (KI738_27180)	51577..52353	-	777	WP_020956881.1	tyrosine-type recombinase/integrase	-
KI738_RS27180 (KI738_27185)	52365..53051	-	687	WP_020956882.1	hypothetical protein	-
KI738_RS27185 (KI738_27190)	53115..53408	-	294	WP_020956883.1	hypothetical protein	-
KI738_RS27190 (KI738_27195)	53567..54028	-	462	WP_074193041.1	hypothetical protein	-
KI738_RS27195 (KI738_27200)	53985..54215	+	231	WP_001261282.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
KI738_RS27200 (KI738_27205)	54212..54628	+	417	WP_001044770.1	type II toxin-antitoxin system VapC family toxin	Toxin
KI738_RS27205 (KI738_27210)	54702..56264	+	1563	WP_004206609.1	AAA family ATPase	-
KI738_RS27210 (KI738_27215)	56249..57271	+	1023	WP_000361404.1	helicase UvrD	-
KI738_RS27215 (KI738_27220)	57809..58423	+	615	Protein_66	HNH endonuclease	-
KI738_RS27220 (KI738_27225)	58479..59447	-	969	WP_000654802.1	IS5-like element IS903B family transposase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	dfrA12 / aadA2 / qnrS1 / blaLAP-2 / tet(A) / sul2	-	1..78533	78533
	-	flank	IS/Tn	-	-	58479..59402	923

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

>T203590 WP_001044770.1 NZ_CP075454:54212-54628 [Klebsiella pneumoniae]
VNKTYMLDTCICSFIMREQPEAVLKRLEQAVLRGQRIVVSAITYSEMRFGATGPKASPRHVELVDAFCARLDAILPWDRA
AVDATTEIKVALRMAGTPIGPNDTAIAGHAIAAGAVLVTNNTREFERVPGLVLEDWVR

Nucleotide

• Length: 417 bp

>T203590 NZ_CP100152:c125216-124866 [Burkholderia glumae]
ATGGTGAAGCGGGTCAAGTTCGAGCGAGGCGATATCGTGCGAGTGAGTCTGAGTCCGACGGTCGGCCGTGAGCAGCAAGG
AGATTTTCGTCCCGCGCTTGTGCTCTCTCCGGCGGCGTTTAACGCGCTGGGTGTGGCGCTCGTTGCCCCGATTACCCAGG
GCGGTGAATTCGCCCGCTTTGCAGGTTTTGCGGTTCCGCTCTCCGGTTCGGGGACGGAGACACAGGGAGTGGCACTGGTG
AACATGGTACGCATGCTCGACTTGGAAGGACGCGGCGCACGCAAGATCGAACGCGCGCCCGTCGAAGTGGTAGAGGATGC
CCTGGCCCGTCTTCAAACGATTATTGAGTAG

Antitoxin

Protein

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

>AT203590 WP_001261282.1 NZ_CP075454:53985-54215 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFAQFEKADPDFMAEREDVVSDEGRFNL

Nucleotide

• Length: 231 bp

>AT203590 NZ_CP100152:c125461-125210 [Burkholderia glumae]
ATGGAACTAAAGATTCAGAAATGGGGCAATAGCGCGGCGGTGCGTTTGCCGAGCGTATTGCTCGAACAGATCAACGCATC
GGTCGGCGGTTCGCTGAACGCGGACGTGCGGCCGGATGGGGTGCTACTGACCCCGGCCCGGCGGAAGTATGCGCTGGATG
ATCTCGTGGCTCAGTGCGACACGAAGGCGCCTGTTCCGGCCGACATGGCAGCCTGGGGCGAGATCAAGCCGGTGGGACGT
GAAGCATGGTGA

Structures

Toxin

• AlphaFold DB: A0A0H3GYM2

Antitoxin

• AlphaFold DB: A0A0H3GZG3