Detailed information of TA system TA088329

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4268021..4268637
• Replicon: chromosome
• Accession: NZ_CP024680
• Organism: Citrobacter freundii strain UMH14

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CUC46_RS20885
• Protein ID: WP_121572147.1
• Coordinates: 4268263..4268637 (+)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A6B5NTK4
• Locus tag: CUC46_RS20880
• Protein ID: WP_043018956.1
• Coordinates: 4268021..4268263 (+)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CUC46_RS20850	4263871..4264470	+	600	WP_016151258.1	glucose-1-phosphatase	-
CUC46_RS20855	4264464..4265336	+	873	WP_003028669.1	virulence factor BrkB family protein	-
CUC46_RS20860	4265333..4265770	+	438	WP_003028671.1	D-tyrosyl-tRNA(Tyr) deacylase	-
CUC46_RS20865	4265815..4266756	+	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
CUC46_RS20875	4266907..4267815	-	909	WP_071687352.1	alpha/beta hydrolase	-
CUC46_RS20880	4268021..4268263	+	243	WP_043018956.1	ribbon-helix-helix domain-containing protein	Antitoxin
CUC46_RS20885	4268263..4268637	+	375	WP_121572147.1	type II toxin-antitoxin system VapC family toxin	Toxin
CUC46_RS20890	4268674..4269603	-	930	WP_003028685.1	formate dehydrogenase accessory protein FdhE	-
CUC46_RS20895	4269600..4270235	-	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
CUC46_RS20900	4270232..4271134	-	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 (7-110)

Antitoxin

• Ribbon-helix-helix protein, CopG (13-47)

Sequences

Toxin

Protein

• Length: 125 a.a.
• Molecular weight: 13688.92 Da
• Isoelectric Point: 9.5622

>T88329 WP_121572147.1 NZ_CP024680:4268263-4268637 [Citrobacter freundii]
MVKGSALFDTNILIDLFSGRNEAKLAIETWPPQNAISLITWMEVMVGAKKYHQEARTRVALGAFNVIGVSQDIAERSVSI
RQEYGMKLPDAIILATAQIHRLTLVTRNTKDFAGLSGVITPYTL

Nucleotide

• Length: 375 bp

>T88329 NZ_CP024680:4268263-4268637 [Citrobacter freundii]
ATGGTCAAAGGATCCGCGCTTTTTGATACCAACATCCTCATCGATCTGTTTAGTGGGAGAAATGAAGCAAAACTAGCGAT
AGAAACATGGCCGCCGCAGAATGCAATCAGCCTCATTACATGGATGGAGGTGATGGTGGGTGCAAAAAAATACCATCAGG
AAGCCCGTACTCGTGTTGCGCTAGGTGCTTTTAACGTGATCGGCGTTTCACAGGATATTGCTGAACGAAGCGTGAGTATC
AGACAGGAATATGGGATGAAATTGCCGGATGCCATTATTTTGGCAACAGCACAGATTCATCGTCTTACGCTGGTTACGCG
AAATACTAAGGATTTTGCAGGCCTATCCGGTGTGATCACACCGTATACATTATAA

Antitoxin

Protein

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

>AT88329 WP_043018956.1 NZ_CP024680:4268021-4268263 [Citrobacter freundii]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVEYQRKLREEW

Nucleotide

• Length: 243 bp

>AT88329 NZ_CP024680:4268021-4268263 [Citrobacter freundii]
ATGATGGCTGGGATGGATATGGGCAGAATTTTACTCGATTTATCAGATGAAGTGATTAAACGTCTTGATGATCTCAAGGT
GCAGCGCAACCTGCCGCGAGCAGAACTTTTACGGGAGGCCGTTGAACAGTATCTTGAGAGGCAGGATCAGGCTGAAACCA
CAATTTCACGTGCTCTTGGGCTGTGGCAAGGCTGTGAGGAAGATGGTGTTGAATACCAGCGTAAACTCCGTGAGGAATGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A6B5NTK4