Detailed information of TA system TA162906

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4768900..4769516
• Replicon: chromosome
• Accession: NZ_CP056180
• Organism: Citrobacter sp. RHBSTW-01044

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HV352_RS22725
• Protein ID: WP_016155182.1
• Coordinates: 4768900..4769274 (-)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: R8WIS4
• Locus tag: HV352_RS22730
• Protein ID: WP_016155181.1
• Coordinates: 4769274..4769516 (-)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV352_RS22710	4766403..4767305	+	903	WP_003028691.1	formate dehydrogenase O subunit beta	-
HV352_RS22715	4767302..4767937	+	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
HV352_RS22720	4767934..4768863	+	930	WP_003028685.1	formate dehydrogenase accessory protein FdhE	-
HV352_RS22725	4768900..4769274	-	375	WP_016155182.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV352_RS22730	4769274..4769516	-	243	WP_016155181.1	ribbon-helix-helix domain-containing protein	Antitoxin
HV352_RS22735	4769721..4770650	+	930	WP_181635100.1	alpha/beta hydrolase	-
HV352_RS22740	4770735..4771046	+	312	WP_019077936.1	type II toxin-antitoxin system HigB family toxin	-
HV352_RS22745	4771043..4771495	+	453	WP_104651900.1	helix-turn-helix domain-containing protein	-
HV352_RS22750	4771513..4772454	-	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
HV352_RS22755	4772499..4772936	-	438	WP_016157874.1	D-tyrosyl-tRNA(Tyr) deacylase	-
HV352_RS22760	4772933..4773805	-	873	WP_019077938.1	virulence factor BrkB family protein	-
HV352_RS22765	4773799..4774398	-	600	WP_049282314.1	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

>T162906 WP_016155182.1 NZ_CP056180:c4769274-4768900 [Citrobacter sp. RHBSTW-01044]
MVTGSALFDTNILIDLFSGRSEAKLAIETWPPQNAISLITWMELMVGAKKYHQESRTRVALGAFNVIGVSQDIAERSVSI
RQEYGMKLPDAIILATAQIHRLTLVTRNTRDFAGISGVVTPYTL

Nucleotide

• Length: 375 bp

>T162906 NZ_CP072162:c3425619-3425290 [Rhizobium sp. B21/90]
GTGGATCGCGGAGACATCTGGCACGTCGATCTGGAACCGATCCGTGGACGTGAACAGGCCGGCGCGCGGTATGTGCTGGT
GGTTACCAAGAAAAGCTTCAATGCCATCGGCACGCCGATAGTGGTGCCTATAACGACCGGCGGTGAGTTTGCCCGTTTCA
AAGGATTTGCCGTGTCGTTGTCCGGCGCGGGAACGCGGAGTTCGGGTGTGATCATGTGCAATCAGTTGCGGTCGCTCGAC
CTTAGGGCGCGCGGCGGGAAATACGTGGAAAGTGTGCCCGATTTCATCATGTCCGAAGTTCTCGCCAGGATCAGTACGTT
CTTCGACTGA

Antitoxin

Protein

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

>AT162906 WP_016155181.1 NZ_CP056180:c4769516-4769274 [Citrobacter sp. RHBSTW-01044]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVDYQRKLREEW

Nucleotide

• Length: 243 bp

>AT162906 NZ_CP072162:c3425876-3425619 [Rhizobium sp. B21/90]
ATGGCGACATCGACACTTCGCAATGTGGGAGGCTCTGTCATGATGACGATCCCGAAAGCTGTCGTTGATGAGTTGGGACT
GACAGCCAATACCAAGGTCGAGGTATTGGCAGAGGATGGGCGCGTCGTTGCGGTTCCGCACAAGCGGCCGAAGTACACGC
TCGATGAGCTTTTGGCGCAGTGCGATCTTGATGCACCGTTCACAGAGGAAGATCGGCAATGGCTCGATGATGCACCGTCT
GGCCGAGAGGTCATCTAG

Structures

Antitoxin

• AlphaFold DB: R8WIS4