Detailed information of TA system TA162928

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 5038730..5039346
• Replicon: chromosome
• Accession: NZ_CP056185
• Organism: Citrobacter sp. RHBSTW-01013

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: HV350_RS24135
• Protein ID: WP_016155182.1
• Coordinates: 5038730..5039104 (-)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: R8WIS4
• Locus tag: HV350_RS24140
• Protein ID: WP_016155181.1
• Coordinates: 5039104..5039346 (-)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HV350_RS24120	5036233..5037135	+	903	WP_003028691.1	formate dehydrogenase O subunit beta	-
HV350_RS24125	5037132..5037767	+	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
HV350_RS24130	5037764..5038693	+	930	WP_181629491.1	formate dehydrogenase accessory protein FdhE	-
HV350_RS24135	5038730..5039104	-	375	WP_016155182.1	type II toxin-antitoxin system VapC family toxin	Toxin
HV350_RS24140	5039104..5039346	-	243	WP_016155181.1	ribbon-helix-helix domain-containing protein	Antitoxin
HV350_RS24145	5039552..5040460	+	909	WP_181626727.1	alpha/beta hydrolase	-
HV350_RS24150	5040525..5040767	+	243	WP_016155179.1	type II toxin-antitoxin system ParD family antitoxin	-
HV350_RS24155	5040760..5041047	+	288	WP_047415626.1	type II toxin-antitoxin system RelE/ParE family toxin	-
HV350_RS24160	5041053..5041994	-	942	WP_049282313.1	fatty acid biosynthesis protein FabY	-
HV350_RS24165	5042039..5042476	-	438	WP_003028671.1	D-tyrosyl-tRNA(Tyr) deacylase	-
HV350_RS24170	5042473..5043345	-	873	WP_019077938.1	virulence factor BrkB family protein	-
HV350_RS24175	5043339..5043938	-	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

>T162928 WP_016155182.1 NZ_CP056185:c5039104-5038730 [Citrobacter sp. RHBSTW-01013]
MVTGSALFDTNILIDLFSGRSEAKLAIETWPPQNAISLITWMELMVGAKKYHQESRTRVALGAFNVIGVSQDIAERSVSI
RQEYGMKLPDAIILATAQIHRLTLVTRNTRDFAGISGVVTPYTL

Nucleotide

• Length: 375 bp

>T162928 NZ_CP072172:c2037658-2037404 [Rhizobium sp. AB2/73]
ATGAATTGGCCATTGCAGGATGCAAAGAATCAGTTTTCCAAAGTCGTACAGAAAGCACGTAGCGAAGGGCCGCAAATCGT
CACCTTGCGCGGCGAACCCGCGGCGGTCGTTCTGTCTGCCGAAGACTATGATGCACTTCTGGCTGGCAAACCGAGCCTTG
CCGATGATCTGCTGTCGGGGCCGGCTTGGGACGACGAAATAGCCGAAGCCGTATCTAAGCGAGATAAAACGCCAAGCCGG
GATGTCCTTTTCTGA

Antitoxin

Protein

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

>AT162928 WP_016155181.1 NZ_CP056185:c5039346-5039104 [Citrobacter sp. RHBSTW-01013]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVDYQRKLREEW

Nucleotide

• Length: 243 bp

>AT162928 NZ_CP072172:c2037404-2036994 [Rhizobium sp. AB2/73]
ATGTATCTCGTCGATACCAACGTCGTCTCGGAACTCCGGCGCGGCAATTCCCAAGCGATTGCGTGGCTGCGCTCGGTCGA
TCCCTCCACCATTTATCTGAGTGTCATCACACTCGGAGAGATCATGCGTGGGATTGCGCTCAAGCGAAAATCGGACCCGC
GTACCGCAACACATCTGGAGGAATGGTTGCGCAAGCTCCGGCACGACCATCGCAATCGCATTCTTCCCATTACCGATCAG
ATTGCGGTCGAATGGGGGCGTATCGCGGCACAGCGACCGCGTGGTGACGCAGATGGGCTCATCGCGGCAACGGCGATCGT
TCATGACCTTATCGTCGTCACTCGCAACATCGGCGATTTCGACGACACCGGCGCCTTAATCGTCAACCCCTGGGATCAGA
AGCCTTACTGA

Structures

Antitoxin

• AlphaFold DB: R8WIS4