Detailed information of TA system TA038877

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4520959..4521584
• Replicon: chromosome
• Accession: NZ_AP024585
• Organism: Citrobacter amalonaticus strain JCM 1661

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A381GI10
• Locus tag: KI228_RS21350
• Protein ID: WP_042998865.1
• Coordinates: 4520959..4521345 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: -
• Locus tag: KI228_RS21355
• Protein ID: WP_192575752.1
• Coordinates: 4521345..4521584 (-)
• Length: 80 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KI228_RS21330 (CIAM_41710)	4516312..4517649	+	1338	WP_086512772.1	VWA domain-containing protein	-
KI228_RS21335 (CIAM_41720)	4517667..4519163	+	1497	WP_061069451.1	HAMP domain-containing sensor histidine kinase	-
KI228_RS21340 (CIAM_41730)	4519168..4519854	+	687	WP_061069450.1	response regulator transcription factor	-
KI228_RS21345 (CIAM_41740)	4519999..4520928	+	930	WP_042998866.1	formate dehydrogenase accessory protein FdhE	-
KI228_RS21350 (CIAM_41750)	4520959..4521345	-	387	WP_042998865.1	type II toxin-antitoxin system VapC family toxin	Toxin
KI228_RS21355 (CIAM_41760)	4521345..4521584	-	240	WP_192575752.1	CopG family transcriptional regulator	Antitoxin
KI228_RS21360 (CIAM_41770)	4521794..4522720	+	927	WP_061069448.1	alpha/beta hydrolase	-
KI228_RS21365 (CIAM_41780)	4522736..4523677	-	942	WP_042998862.1	fatty acid biosynthesis protein FabY	-
KI228_RS21370 (CIAM_41790)	4523722..4524159	-	438	WP_044265155.1	D-aminoacyl-tRNA deacylase	-
KI228_RS21375 (CIAM_41800)	4524156..4525028	-	873	WP_044257165.1	virulence factor BrkB family protein	-
KI228_RS21380 (CIAM_41810)	4525022..4525621	-	600	WP_061069447.1	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

>T38877 WP_042998865.1 NZ_AP024585:c4521345-4520959 [Citrobacter amalonaticus]
MQKGPVLFDTNILIDLFSGRQEAQQVLEAYPPQNAISLVTWMEVMVGAKKYHQEYRTRVALSAFNIIGVSQEIAERSVNL
RQEYGMKLPDAIILATAQIHRFALVTRNTRDFAGIPGVITPYQLQAGR

Nucleotide

• Length: 387 bp

>T38877 NZ_AP024585:c4521345-4520959 [Citrobacter amalonaticus]
ATGCAAAAGGGTCCCGTGCTGTTCGATACCAATATCCTGATTGATTTATTCAGCGGGCGCCAGGAAGCACAGCAAGTACT
GGAAGCGTATCCGCCGCAGAATGCCATCAGCCTGGTTACCTGGATGGAAGTCATGGTGGGGGCAAAAAAATACCATCAGG
AATATCGTACACGTGTGGCGTTGAGTGCGTTCAACATCATCGGCGTTTCACAGGAAATTGCTGAGCGAAGCGTGAATCTC
AGGCAGGAATATGGGATGAAACTTCCGGACGCGATTATTCTGGCTACCGCGCAGATTCATCGGTTTGCGCTTGTAACGCG
CAACACCAGAGATTTCGCGGGGATACCTGGCGTCATTACGCCTTATCAGTTGCAAGCCGGACGATAA

Antitoxin

Protein

• Length: 80 a.a.
• Molecular weight: 9226.41 Da
• Isoelectric Point: 4.2075

>AT38877 WP_192575752.1 NZ_AP024585:c4521584-4521345 [Citrobacter amalonaticus]
MAGMDMGRILLDLSDEMIKRLDDLKQQRNLPRAELLREAVEQYLERQGQAETTISNALGLWQGCEEDGVEYQKTLREEW

Nucleotide

• Length: 240 bp

>AT38877 NZ_AP024585:c4521584-4521345 [Citrobacter amalonaticus]
ATGGCTGGAATGGACATGGGCAGAATATTACTCGACTTATCCGATGAGATGATCAAGCGCCTTGACGATCTCAAGCAGCA
GCGGAATCTGCCGCGTGCGGAGTTGTTGCGCGAAGCGGTTGAACAGTACCTTGAAAGGCAGGGACAGGCTGAAACCACGA
TTTCCAATGCGCTGGGGCTCTGGCAGGGCTGTGAGGAAGACGGCGTTGAGTATCAGAAGACGCTGCGCGAGGAATGGTAA

Structures

Toxin

• AlphaFold DB: A0A381GI10