Detailed information of TA system TA120248

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 176433..177049
• Replicon: chromosome
• Accession: NZ_CP037864
• Organism: Citrobacter sp. LY-1

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: E1B03_RS01810
• Protein ID: WP_103771918.1
• Coordinates: 176675..177049 (+)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A6B5NTK4
• Locus tag: E1B03_RS01805
• Protein ID: WP_043018956.1
• Coordinates: 176433..176675 (+)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
E1B03_RS01770	171843..172442	+	600	WP_103771915.1	glucose-1-phosphatase	-
E1B03_RS01775	172436..173308	+	873	WP_133085596.1	virulence factor BrkB family protein	-
E1B03_RS01780	173305..173742	+	438	WP_003028671.1	D-tyrosyl-tRNA(Tyr) deacylase	-
E1B03_RS01785	173787..174728	+	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
E1B03_RS01790	174665..175020	-	356	Protein_151	type II toxin-antitoxin system RelE/ParE family toxin	-
E1B03_RS01795	175013..175255	-	243	WP_133085597.1	type II toxin-antitoxin system ParD family antitoxin	-
E1B03_RS01800	175319..176227	-	909	WP_133085598.1	alpha/beta hydrolase	-
E1B03_RS01805	176433..176675	+	243	WP_043018956.1	ribbon-helix-helix domain-containing protein	Antitoxin
E1B03_RS01810	176675..177049	+	375	WP_103771918.1	type II toxin-antitoxin system VapC family toxin	Toxin
E1B03_RS01815	177086..178015	-	930	WP_103771919.1	formate dehydrogenase accessory protein FdhE	-
E1B03_RS01820	178012..178647	-	636	WP_040233076.1	formate dehydrogenase cytochrome b556 subunit	-
E1B03_RS01825	178644..179546	-	903	WP_003028691.1	formate dehydrogenase O subunit beta	-

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: 13677.94 Da
• Isoelectric Point: 10.3120

>T120248 WP_103771918.1 NZ_CP037864:176675-177049 [Citrobacter sp. LY-1]
MVKGSALFDTNILIDLFSGRNEAKLAIETWPPQNSISLITWMEVMVGAKKYHQEARTRVALGAFNVIGVSQDIAERSVSI
RQKHGMKLPDAIILATAQIHRLTLITRNTKDFAGISGVVTPYTL

Nucleotide

• Length: 375 bp

>T120248 NZ_CP037864:176675-177049 [Citrobacter sp. LY-1]
ATGGTCAAAGGATCAGCGCTTTTTGATACCAACATCCTCATCGACCTGTTTAGCGGGAGAAATGAAGCAAAACTAGCGAT
AGAAACATGGCCGCCACAGAACTCAATCAGTCTCATTACATGGATGGAAGTGATGGTGGGCGCAAAAAAATACCATCAGG
AAGCCCGTACTCGCGTTGCGCTAGGCGCTTTTAACGTGATCGGCGTTTCACAGGATATTGCTGAACGAAGCGTAAGTATC
AGACAGAAACATGGGATGAAATTGCCGGATGCCATTATTTTGGCCACAGCGCAGATTCATCGTCTTACGCTGATTACGCG
TAATACCAAGGATTTTGCAGGCATATCAGGCGTGGTCACGCCGTATACGTTATAA

Antitoxin

Protein

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

>AT120248 WP_043018956.1 NZ_CP037864:176433-176675 [Citrobacter sp. LY-1]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVEYQRKLREEW

Nucleotide

• Length: 243 bp

>AT120248 NZ_CP037864:176433-176675 [Citrobacter sp. LY-1]
ATGATGGCTGGGATGGATATGGGCAGAATTTTACTCGATTTATCAGATGAGGTGATTAAACGTCTTGATGATCTCAAGGT
TCAGCGCAACCTGCCGCGAGCAGAACTCTTACGGGAGGCTGTTGAACAGTACCTGGAGAGGCAGGATCAGGCTGAAACAA
CAATTTCACGTGCGCTTGGGCTGTGGCAAGGCTGTGAGGAAGATGGTGTTGAATATCAGCGTAAACTCCGTGAGGAATGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A6B5NTK4