Detailed information of TA system TA024560

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 5383617..5384242
• Replicon: chromosome
• Accession: NC_013850
• Organism: Klebsiella variicola At-22

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: KVAR_RS25270
• Protein ID: WP_012969234.1
• Coordinates: 5383617..5384000 (-)
• Length: 128 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: J2DFR0
• Locus tag: KVAR_RS25275
• Protein ID: WP_004150355.1
• Coordinates: 5384000..5384242 (-)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KVAR_RS25255	5380983..5381885	+	903	WP_002882822.1	formate dehydrogenase subunit beta	-
KVAR_RS25260	5381882..5382517	+	636	WP_008807902.1	formate dehydrogenase cytochrome b556 subunit	-
KVAR_RS25265	5382514..5383443	+	930	WP_004150358.1	formate dehydrogenase accessory protein FdhE	-
KVAR_RS25270	5383617..5384000	-	384	WP_012969234.1	type II toxin-antitoxin system VapC family toxin	Toxin
KVAR_RS25275	5384000..5384242	-	243	WP_004150355.1	ribbon-helix-helix domain-containing protein	Antitoxin
KVAR_RS25280	5384447..5385364	+	918	WP_012969235.1	alpha/beta hydrolase	-
KVAR_RS25285	5385379..5386320	-	942	WP_012543287.1	fatty acid biosynthesis protein FabY	-
KVAR_RS25290	5386365..5386802	-	438	WP_008807906.1	D-tyrosyl-tRNA(Tyr) deacylase	-
KVAR_RS25295	5386799..5387659	-	861	WP_008807907.1	virulence factor BrkB family protein	-
KVAR_RS25300	5387653..5388252	-	600	WP_008807908.1	glucose-1-phosphatase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)

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 (7-112)

Antitoxin

• Predicted DNA-binding protein, ribbon-helix-helix domain (16-47)

Sequences

Toxin

Protein

• Length: 128 a.a.
• Molecular weight: 14367.58 Da
• Isoelectric Point: 7.3178

>T24560 WP_012969234.1 NC_013850:c5384000-5383617 [Klebsiella variicola At-22]
MTSGSALFDTNILIDLFSGRREAKQALEAWPPQNAISLITWMEVMVGAKKYHQEQRTRMALSTFNIINISQDIAERSVAL
RQEYKLKLSDAIILATAQLHRLELITRNTKDFAGIPGVVTPYELHPE

Nucleotide

• Length: 384 bp

>T24560 NC_013850:c5384000-5383617 [Klebsiella variicola At-22]
ATGACCTCCGGATCTGCGCTTTTTGATACCAATATTCTTATTGATTTATTTAGCGGGCGTCGCGAAGCCAAACAGGCGCT
GGAGGCCTGGCCACCGCAGAATGCGATCAGTCTGATTACCTGGATGGAGGTGATGGTTGGCGCTAAAAAATATCACCAGG
AGCAGCGTACGCGAATGGCGCTAAGCACCTTTAATATCATTAACATCTCACAGGATATTGCAGAGCGAAGCGTTGCGCTG
CGGCAGGAGTATAAGCTTAAGCTGTCGGATGCCATCATTCTGGCGACGGCGCAACTCCATCGTCTGGAACTGATTACGCG
GAATACGAAGGATTTTGCCGGTATTCCTGGCGTAGTCACGCCGTACGAACTACACCCTGAATAA

Antitoxin

Protein

• Length: 81 a.a.
• Molecular weight: 9567.83 Da
• Isoelectric Point: 4.3509

>AT24560 WP_004150355.1 NC_013850:c5384242-5384000 [Klebsiella variicola At-22]
MMAERDMGRILLDLSDDVIQRLDDLKVQRNIPRAELLREAVEQYLEKQDRAKDTISSALGLWQDCEEDGMEYQRQLRKEW

Nucleotide

• Length: 243 bp

>AT24560 NC_013850:c5384242-5384000 [Klebsiella variicola At-22]
ATGATGGCTGAAAGGGATATGGGCAGAATTCTTCTCGATTTATCAGACGATGTCATTCAACGTCTCGATGACCTCAAAGT
GCAGCGTAACATTCCGCGAGCGGAACTGTTACGTGAAGCGGTTGAACAATATCTGGAGAAACAAGATCGAGCTAAAGATA
CCATCTCCAGTGCGCTGGGTCTGTGGCAAGACTGCGAAGAAGACGGCATGGAATATCAACGTCAGCTACGCAAGGAGTGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A0H3GGU9