Detailed information of TA system TA164288

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4911232..4911848
• Replicon: chromosome
• Accession: NZ_CP056834
• Organism: Citrobacter sp. RHBSTW-00127

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HV084_RS23640
• Protein ID: WP_016155182.1
• Coordinates: 4911232..4911606 (-)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: R8WIS4
• Locus tag: HV084_RS23645
• Protein ID: WP_016155181.1
• Coordinates: 4911606..4911848 (-)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV084_RS23625	4908735..4909637	+	903	WP_003028691.1	formate dehydrogenase O subunit beta	-
HV084_RS23630	4909634..4910269	+	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
HV084_RS23635	4910266..4911195	+	930	WP_003028685.1	formate dehydrogenase accessory protein FdhE	-
HV084_RS23640	4911232..4911606	-	375	WP_016155182.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV084_RS23645	4911606..4911848	-	243	WP_016155181.1	ribbon-helix-helix domain-containing protein	Antitoxin
HV084_RS23650	4912054..4912983	+	930	WP_094169176.1	alpha/beta hydrolase	-
HV084_RS23655	4913068..4913379	+	312	WP_047357780.1	type II toxin-antitoxin system HigB family toxin	-
HV084_RS23660	4913376..4913828	+	453	WP_047357781.1	helix-turn-helix domain-containing protein	-
HV084_RS23665	4913846..4914787	-	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
HV084_RS23670	4914832..4915269	-	438	WP_016157874.1	D-tyrosyl-tRNA(Tyr) deacylase	-
HV084_RS23675	4915266..4916138	-	873	WP_019077938.1	virulence factor BrkB family protein	-
HV084_RS23680	4916132..4916731	-	600	WP_016157873.1	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 (7-113)

Antitoxin

• Ribbon-helix-helix protein, CopG (13-47)

Sequences

Toxin

Protein

• Length: 125 a.a.
• Molecular weight: 13678.84 Da
• Isoelectric Point: 8.5373

>T164288 WP_016155182.1 NZ_CP056834:c4911606-4911232 [Citrobacter sp. RHBSTW-00127]
MVTGSALFDTNILIDLFSGRSEAKLAIETWPPQNAISLITWMELMVGAKKYHQESRTRVALGAFNVIGVSQDIAERSVSI
RQEYGMKLPDAIILATAQIHRLTLVTRNTRDFAGISGVVTPYTL

Nucleotide

• Length: 375 bp

>T164288 NZ_CP072865:2270277-2270666 [Rhizobium sp. NLR16a]
GTGATCGTCGTCGATAGTTCGGTCTGGATTGCGCATCTACGCGGGATGGAAAACGCCGCCAGACGACGTCTGCAGAATAT
CGAAGATCCGCTGGAGATTCTTGTTGGCGATCTTATTCTTATGGAGGTCCTCCAAGGCGCGCGCAATGACCGCCATGCAA
CCACCATCGAAGCGAATTTGCGCCAATTCACGATCCGTCCGATGCTTGACGACAGCCTCGCCGTCAGGGCAGCCCGTAAT
TATCGCCTGCTGCGGGAACGCGGTATCACAGTGCGCAAGATCATCGACGTAATCATTGGCACATTCTGCATTCAAGAAGG
CCACTCGCTCTTGCACGATGATAGTGATTTCGATCCCATGGCCGAGCATCTCGGTCTCAGGATCGCCTGA

Antitoxin

Protein

• Length: 81 a.a.
• Molecular weight: 9437.72 Da
• Isoelectric Point: 4.3331

>AT164288 WP_016155181.1 NZ_CP056834:c4911848-4911606 [Citrobacter sp. RHBSTW-00127]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVDYQRKLREEW

Nucleotide

• Length: 243 bp

>AT164288 NZ_CP072865:2270072-2270293 [Rhizobium sp. NLR16a]
ATGCGGACGAATATAGATATCGATGATGCCTTGCTCGCCGCAGCGATGACCGCCACGGGGTTGGCGACGAAAAAAGCTAC
TATCGAACAGGCCCTCAGAAGCCTCGTCGACAGGCACCGCAGAAAAAATGCGATCGCAAATCTCTCGGGAATCGGCTGGG
AGGGTGATCTGGAAGGGATGCGCCGCGATCGACCGGACGAAACCAGTGATCGTCGTCGATAG

Structures

Antitoxin

• AlphaFold DB: R8WIS4