Detailed information of TA system TA088316

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1(toxin)
• Location: 4569274..4569890
• Replicon: chromosome
• Accession: NZ_CP024679
• Organism: Citrobacter freundii strain UMH15

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CUC47_RS22730
• Protein ID: WP_003840448.1
• Coordinates: 4569516..4569890 (+)
• Length: 125 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: A0A6B5NTK4
• Locus tag: CUC47_RS22725
• Protein ID: WP_043018956.1
• Coordinates: 4569274..4569516 (+)
• Length: 81 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CUC47_RS22695	4565124..4565723	+	600	WP_016151258.1	glucose-1-phosphatase	-
CUC47_RS22700	4565717..4566589	+	873	WP_003840437.1	virulence factor BrkB family protein	-
CUC47_RS22705	4566586..4567023	+	438	WP_003840439.1	D-tyrosyl-tRNA(Tyr) deacylase	-
CUC47_RS22710	4567068..4568009	+	942	WP_003825286.1	fatty acid biosynthesis protein FabY	-
CUC47_RS22720	4568160..4569068	-	909	WP_032950680.1	alpha/beta hydrolase	-
CUC47_RS22725	4569274..4569516	+	243	WP_043018956.1	ribbon-helix-helix domain-containing protein	Antitoxin
CUC47_RS22730	4569516..4569890	+	375	WP_003840448.1	type II toxin-antitoxin system VapC family toxin	Toxin
CUC47_RS22735	4569927..4570856	-	930	WP_003840450.1	formate dehydrogenase accessory protein FdhE	-
CUC47_RS22740	4570853..4571488	-	636	WP_003028686.1	formate dehydrogenase cytochrome b556 subunit	-
CUC47_RS22745	4571485..4572387	-	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 (7-112)

Antitoxin

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

Sequences

Toxin

Protein

• Length: 125 a.a.
• Molecular weight: 13658.89 Da
• Isoelectric Point: 9.6923

>T88316 WP_003840448.1 NZ_CP024679:4569516-4569890 [Citrobacter freundii]
MVKGSALFDTNILIDLFSGRNEAKLAIETWPPQNAISLITWMEVMVGAKKYHQEARTRVALGAFNVIGVSQDIAERSVSI
RQEFGMKLPDAIILATAQIHRLTLVTRNTKDFAGLSGVVTPYTL

Nucleotide

• Length: 375 bp

>T88316 NZ_CP024679:4569516-4569890 [Citrobacter freundii]
ATGGTCAAAGGATCCGCGCTTTTTGATACCAACATCCTCATCGATCTGTTTAGTGGGAGAAATGAAGCAAAACTAGCGAT
AGAAACATGGCCGCCGCAGAATGCAATCAGCCTCATTACATGGATGGAGGTGATGGTGGGTGCAAAAAAATACCATCAGG
AAGCCCGTACTCGTGTTGCGCTAGGTGCTTTTAACGTGATCGGCGTTTCACAGGATATTGCTGAACGAAGCGTGAGTATC
AGACAGGAATTTGGGATGAAATTGCCGGATGCCATTATTTTGGCAACAGCACAGATTCATCGTCTTACGCTGGTTACGCG
AAATACTAAGGATTTTGCAGGCCTATCCGGTGTGGTCACACCGTATACATTATAA

Antitoxin

Protein

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

>AT88316 WP_043018956.1 NZ_CP024679:4569274-4569516 [Citrobacter freundii]
MMAGMDMGRILLDLSDEVIKRLDDLKVQRNLPRAELLREAVEQYLERQDQAETTISRALGLWQGCEEDGVEYQRKLREEW

Nucleotide

• Length: 243 bp

>AT88316 NZ_CP024679:4569274-4569516 [Citrobacter freundii]
ATGATGGCTGGGATGGATATGGGCAGAATTTTACTCGATTTATCAGATGAAGTGATTAAACGTCTTGATGATCTCAAGGT
GCAGCGCAACCTGCCGCGAGCAGAACTTTTACGGGAGGCCGTTGAACAGTATCTTGAGAGGCAGGATCAGGCTGAAACCA
CAATTTCACGTGCTCTTGGGCTGTGGCAAGGCTGTGAGGAAGATGGTGTTGAATACCAGCGTAAACTCCGTGAGGAATGG
TAA

Structures

Antitoxin

• AlphaFold DB: A0A6B5NTK4