Detailed information of TA system TA152004

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 5048162..5048787
• Replicon: chromosome
• Accession: NZ_CP050009
• Organism: Citrobacter sp. Y3

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A381GI10
• Locus tag: HAP28_RS24425
• Protein ID: WP_042998865.1
• Coordinates: 5048162..5048548 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: HAP28_RS24430
• Protein ID: WP_162300700.1
• Coordinates: 5048548..5048787 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HAP28_RS24405	5043515..5044852	+	1338	WP_086512772.1	VWA domain-containing protein	-
HAP28_RS24410	5044870..5046366	+	1497	WP_109739661.1	HAMP domain-containing histidine kinase	-
HAP28_RS24415	5046371..5047057	+	687	WP_044257174.1	response regulator transcription factor	-
HAP28_RS24420	5047202..5048131	+	930	WP_042998866.1	formate dehydrogenase accessory protein FdhE	-
HAP28_RS24425	5048162..5048548	-	387	WP_042998865.1	type II toxin-antitoxin system VapC family toxin	Toxin
HAP28_RS24430	5048548..5048787	-	240	WP_162300700.1	ribbon-helix-helix domain-containing protein	Antitoxin
HAP28_RS24435	5048997..5049923	+	927	WP_061069448.1	alpha/beta hydrolase	-
HAP28_RS24440	5049939..5050880	-	942	WP_042998862.1	fatty acid biosynthesis protein FabY	-
HAP28_RS24445	5050925..5051362	-	438	WP_044265155.1	D-tyrosyl-tRNA(Tyr) deacylase	-
HAP28_RS24450	5051359..5052231	-	873	WP_044257165.1	virulence factor BrkB family protein	-
HAP28_RS24455	5052225..5052824	-	600	WP_044265152.1	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 (6-112)

Antitoxin

• Ribbon-helix-helix protein, CopG (12-46)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 14404.65 Da
• Isoelectric Point: 9.4114

>T152004 WP_042998865.1 NZ_CP050009:c5048548-5048162 [Citrobacter sp. Y3]
MQKGPVLFDTNILIDLFSGRQEAQQVLEAYPPQNAISLVTWMEVMVGAKKYHQEYRTRVALSAFNIIGVSQEIAERSVNL
RQEYGMKLPDAIILATAQIHRFALVTRNTRDFAGIPGVITPYQLQAGR

Nucleotide

• Length: 387 bp

>T152004 NZ_CP065906:1633-1920 [Paracoccus marcusii]
ATGAAACCCCTTGCCTTCTCGCCAGCGGCAGAGGCGGATATCGACGGCATCTGGGATTACAGCGCGCAGACCTGGGGGCC
GGACCAGGCTGATCGCTACACCGACGAAATCCGCGATGCCTGTTTGGCCCTGGCCCATGACCGCAAACAGGGGCGCCCCG
TCGATGTGCGCCCCGGATACCTGCGGCTCTCGACCGGATCGCATGTGATCTACTACCGAAATCGGGGCGACCGACTGGAT
GTCATTCGGGTCCTGCACAATCGCATGGATGCCGACCGCCATCTCTGA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9254.43 Da
• Isoelectric Point: 4.2075

>AT152004 WP_162300700.1 NZ_CP050009:c5048787-5048548 [Citrobacter sp. Y3]
MAGMDMGRILLDLSDEMIKRLDDLKQQRNLPRAELLREAVEQYLERQGQAETTISNALGLWQGCEEDGVEYQRTLREEW

Nucleotide

• Length: 240 bp

>AT152004 NZ_CP065906:1388-1636 [Paracoccus marcusii]
ATGCCGCGCACCACTTCCGTCTCGCTCGGTGAGCATTTCACCGGCTTCATTAGCGCCCAAGTCGATGCTGGCCGCTACGG
CTCGGCCAGCGACGTGGTCCGGGCGGGGCTGCGCCTGTTGGAAGAGCATGAGGCGAAGGTCAAAGCCCTGCAGGACGCCC
TGATCGCAGGGGAGCAGTCAGGGGAACCGCGTCCGTTTGACTTCGACAGCTTTAAGGCCCGAAAGCGGGCAGAGTTCGAG
GCCGGATGA

Structures

Toxin

• AlphaFold DB: A0A381GI10