Detailed information of TA system TA168564

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 128856..129526
• Replicon: plasmid pER17974.3
• Accession: NZ_CP059296
• Organism: Klebsiella pneumoniae strain ER17974.3

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: Q6U619
• Locus tag: H0490_RS26590
• Protein ID: WP_004213072.1
• Coordinates: 129083..129526 (+)
• Length: 148 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: Q6U620
• Locus tag: H0490_RS26585
• Protein ID: WP_004213073.1
• Coordinates: 128856..129086 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
H0490_RS26560 (H0490_26515)	125079..125978	-	900	WP_004225022.1	nucleotide-binding protein	-
H0490_RS26565 (H0490_26520)	125968..126258	-	291	WP_004213078.1	hypothetical protein	-
H0490_RS26570 (H0490_26525)	126610..126816	+	207	WP_004213077.1	hypothetical protein	-
H0490_RS26575 (H0490_26530)	126806..127099	-	294	WP_004213076.1	hypothetical protein	-
H0490_RS26580 (H0490_26535)	127115..128248	-	1134	WP_004213075.1	DUF3800 domain-containing protein	-
H0490_RS26585 (H0490_26540)	128856..129086	+	231	WP_004213073.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
H0490_RS26590 (H0490_26545)	129083..129526	+	444	WP_004213072.1	type II toxin-antitoxin system VapC family toxin	Toxin
H0490_RS27400	129675..129926	+	252	WP_186987481.1	hypothetical protein	-
H0490_RS26600 (H0490_26555)	129949..130253	-	305	Protein_149	transposase	-
H0490_RS26605 (H0490_26560)	130670..131305	+	636	Protein_150	mucoid phenotype regulator RmpA2	-
H0490_RS26610 (H0490_26565)	131823..132226	-	404	Protein_151	GAF domain-containing protein	-
H0490_RS26615 (H0490_26570)	132317..133237	-	921	WP_029884592.1	DUF1471 domain-containing protein	-
H0490_RS26620 (H0490_26575)	133286..133777	-	492	WP_011251327.1	DM13 domain-containing protein	-
H0490_RS26625 (H0490_26580)	133840..134115	-	276	WP_004213932.1	carboxymuconolactone decarboxylase family protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	iroB / iroC / iroD / iroN / rmpA / rmpA / rmpA2 / iutA / iucD / iucC / iucB / iucA	1..234967	234967

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 (6-129)

Antitoxin

• SpoVT-AbrB domain (7-47)

Sequences

Toxin

Protein

• Length: 148 a.a.
• Molecular weight: 16006.74 Da
• Isoelectric Point: 9.3642

>T168564 WP_004213072.1 NZ_CP059296:129083-129526 [Klebsiella pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVKKAALCRVIS

Nucleotide

• Length: 444 bp

>T168564 NZ_CP076114:3508233-3508511 [Pseudomonas seleniipraecipitans]
GTGATTTTGAGCTTTAAGTGTCCAGAGACTCGGGCTCTGTTCGAAACCGGTGATTCGCGGCGGTGGAAGAATATCCTCAA
TGTCGCCACGCGGAAGTTAACCATGCTGCACGCGGCCACCGAGCTTCGAGACCTGCGTTCTCCACCCGGTAATCGACTTG
AGGCGTTACAGGGAAATCGGATGGGTCAGTACAGCATTAGAATCAATGATCAATTCCGTGTTTGTTTCGAGTGGTCGGAC
GCCGGCCCGACGAATGTTGAAATAGTCGACTATCACTAG

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8677.73 Da
• Isoelectric Point: 4.4563

>AT168564 WP_004213073.1 NZ_CP059296:128856-129086 [Klebsiella pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWGSFAQLDRAAPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT168564 NZ_CP076114:3508524-3508829 [Pseudomonas seleniipraecipitans]
ATGGCAATTAACGGTATGCGCCCCATCCATCCGGGCGAAATCCTTCGCGAAGAGTTTCTAGAGCCGCTGGATATTTCCCC
GGCTGCACTGGCTCGTGCGCTCCATGTATCTGCTCCCACGGTGAATGAAATCGTTCGTGAGCGACGTGGGGTGACTGCAG
ATATGGCTATTCGCCTTGGACGCTATTTTGATACGTCTGCTCAGTTCTGGATGAACCTGCAAACCGACTATTCGTTAGCA
ACGACTTTTGCCGCCAATGGCGAAGAGATTGAGCACGAGATTGAGCCACTACGTGCCCAGGCATGA

Structures

Toxin

• AlphaFold DB: Q6U619

Antitoxin

• AlphaFold DB: Q6U620