Detailed information of TA system TA163126

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4775905..4776521
• Replicon: chromosome
• Accession: NZ_CP056245
• Organism: Citrobacter freundii strain RHBSTW-00915

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HV325_RS23210
• Protein ID: WP_049016196.1
• Coordinates: 4775905..4776279 (-)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A6B5NTK4
• Locus tag: HV325_RS23215
• Protein ID: WP_043018956.1
• Coordinates: 4776279..4776521 (-)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV325_RS23195	4773408..4774310	+	903	WP_003028691.1	formate dehydrogenase O subunit beta	-
HV325_RS23200	4774307..4774942	+	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
HV325_RS23205	4774939..4775868	+	930	WP_003840450.1	formate dehydrogenase accessory protein FdhE	-
HV325_RS23210	4775905..4776279	-	375	WP_049016196.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV325_RS23215	4776279..4776521	-	243	WP_043018956.1	ribbon-helix-helix domain-containing protein	Antitoxin
HV325_RS23220	4776727..4777635	+	909	WP_003028676.1	alpha/beta hydrolase	-
HV325_RS23225	4777786..4778727	-	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
HV325_RS23230	4778772..4779209	-	438	WP_003028671.1	D-tyrosyl-tRNA(Tyr) deacylase	-
HV325_RS23235	4779206..4780078	-	873	WP_003028669.1	virulence factor BrkB family protein	-
HV325_RS23240	4780072..4780671	-	600	WP_016151258.1	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

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

Sequences

Toxin

Protein

• Length: 125 a.a.
• Molecular weight: 13656.86 Da
• Isoelectric Point: 9.5622

>T163126 WP_049016196.1 NZ_CP056245:c4776279-4775905 [Citrobacter freundii]
MVKGSALFDTNILIDLFSGRNEAKLAIETWPPQNAISLITWMEVIVGAKKYHQEARTRVALGAFNVIGVSQDIAERSVSI
RQEYGMKLPDAIILATAQIHRLTLVTRNTKDFAGLSGVVTPYTL

Nucleotide

• Length: 375 bp

>T163126 NZ_CP072396:66334-66633 [Xanthomonas citri pv. fuscans]
ATGGCTGAAATAATCTGGTCGGTGCCGGCATTGGCTGATCTGGACGCAATCGCCGACTACATCGCAATCGATAACGCACC
CGCTGCAGCGGCGCTGGTGAAACGGGTGTTCGCGCACGTTGAGCAATTGATCGAACGCCCGGACAGCGGAAGCCGGCCAC
AGGAACTCAAGCGCTCGCGCTATCGCCAGATTGTCGAACCACCTTGCCGCGTGTTCTACCGCGTGGATGGGCAGCGCATC
GTGCTGGTGCACGTAATGCGGTCGGAGCGCGCGCTTCGCGGGAACCGTCTTTCACGCTGA

Antitoxin

Protein

• Length: 81 a.a.
• Molecular weight: 9451.75 Da
• Isoelectric Point: 4.3437

>AT163126 WP_043018956.1 NZ_CP056245:c4776521-4776279 [Citrobacter freundii]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVEYQRKLREEW

Nucleotide

• Length: 243 bp

>AT163126 NZ_CP072396:66089-66346 [Xanthomonas citri pv. fuscans]
ATGCGCACCGAACTTGTCACCACGCTCAAGCGTCAGGCGACCGAACTCCTTGCAGCTGCAGAGCGCGACAAGGAGCCAAT
CCTGATCACACAGCACGGTTTACCCAGTGCCTATCTGGTGGATGTTGCCAGCTATGAGCGCATGCAGCAGCGCATTGCGC
TCCTCGAAGGAATCGCCCGGGGAGAAATGGCAGTCGCGGAAGGCCGTACGCTGAGCCATGAACAGGCACAGCAACGCATG
GCGCGATGGCTGAAATAA

Structures

Antitoxin

• AlphaFold DB: A0A6B5NTK4