Detailed information of TA system TA197460

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-Phd
• Location: 2036994..2037658
• Replicon: chromosome
• Accession: NZ_CP072172
• Organism: Rhizobium sp. AB2/73

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: J5284_RS09955
• Protein ID: WP_113366625.1
• Coordinates: 2036994..2037404 (-)
• Length: 137 a.a.

Antitoxin (Protein)

• Gene name: vapC
• Uniprot ID: A0A1E4YDV8
• Locus tag: J5284_RS09960
• Protein ID: WP_069611741.1
• Coordinates: 2037404..2037658 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
J5284_RS09935 (J5284_09940)	2032183..2033061	+	879	WP_069611746.1	choline/ethanolamine kinase family protein	-
J5284_RS09940 (J5284_09945)	2033071..2035518	+	2448	WP_069611745.1	FAD-dependent oxidoreductase	-
J5284_RS09945 (J5284_09950)	2035531..2036070	-	540	WP_069611744.1	AAA family ATPase	-
J5284_RS09950 (J5284_09955)	2036299..2037000	+	702	WP_069611743.1	uracil-DNA glycosylase	-
J5284_RS09955 (J5284_09960)	2036994..2037404	-	411	WP_113366625.1	type II toxin-antitoxin system VapC family toxin	Toxin
J5284_RS09960 (J5284_09965)	2037404..2037658	-	255	WP_069611741.1	type II toxin-antitoxin system Phd/YefM family antitoxin	Antitoxin
J5284_RS09965 (J5284_09970)	2037882..2038814	+	933	WP_069611740.1	VOC family protein	-
J5284_RS09970 (J5284_09975)	2038830..2039441	+	612	WP_069611739.1	alpha/beta hydrolase	-
J5284_RS09975 (J5284_09980)	2039492..2039917	-	426	WP_069611738.1	hypothetical protein	-
J5284_RS09980 (J5284_09985)	2040165..2041061	+	897	WP_069611737.1	DMT family transporter	-
J5284_RS09985 (J5284_09990)	2041123..2041512	+	390	WP_069611736.1	RidA family protein	-
J5284_RS09990 (J5284_09995)	2041512..2042018	+	507	WP_069611735.1	VOC family protein	-

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 (2-116)

Antitoxin

• Type II toxin-antitoxin system, antitoxin Phd/YefM (3-69)

Sequences

Toxin

Protein

• Length: 137 a.a.
• Molecular weight: 15390.63 Da
• Isoelectric Point: 8.5732

>T197460 WP_113366625.1 NZ_CP072172:c2037404-2036994 [Rhizobium sp. AB2/73]
MYLVDTNVVSELRRGNSQAIAWLRSVDPSTIYLSVITLGEIMRGIALKRKSDPRTATHLEEWLRKLRHDHRNRILPITDQ
IAVEWGRIAAQRPRGDADGLIAATAIVHDLIVVTRNIGDFDDTGALIVNPWDQKPY

Nucleotide

• Length: 411 bp

>T197460 NZ_CP096200:1040718-1041020 [Vibrio sinaloensis]
ATGGTTGAAGTAATCTGGACTGAACCAGCGTTATCTGACCTCAATGATATCGCTGAATATATCGCACTTGAAAATATCGT
AGCTGCAAAGCAGTTAGTACAAACGATCTTCTCGAAGGTCGAACGCCTACAAACTTTCCCGGAGTCAGGTCGTATTCCAC
CCGAACTAGAACATTTAAGTTATCGTGAAGTTGTCGTTAATCCATGTCGTGTTTTCTATAAACAAGACGGTGACAAAGTA
TTTGTTCTGTTTGTTATGCGTGCAGAGAGAGATTTGAGAAAGTTCTTGTTGAGTAAGCAGTAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9138.28 Da
• Isoelectric Point: 4.3951

>AT197460 WP_069611741.1 NZ_CP072172:c2037658-2037404 [Rhizobium sp. AB2/73]
MNWPLQDAKNQFSKVVQKARSEGPQIVTLRGEPAAVVLSAEDYDALLAGKPSLADDLLSGPAWDDEIAEAVSKRDKTPSR
DVLF

Nucleotide

• Length: 255 bp

>AT197460 NZ_CP096200:1040473-1040730 [Vibrio sinaloensis]
ATGAAAGTAGAACTAGTTACATCACTTAAACGACAAGCAACTAAGATCCTCGCCGATCTCCACGATAGCAAAGAGCCAGT
GTTAATTACTGAGCATGGTAAGCCATCTGCGTATCTCGTTGATGTTGATGATTACGAATTTATGCAGAATCGTTTAGCTA
TTCTTGAGGGTATTGCAAGAGGTGAGCGTGCGCTAGCTGACGGTAAAGTGGTAAGTCATGATGAAGCCAAGGACAAAATG
TCAAAATGGTTGAAGTAA

Structures

Antitoxin

• AlphaFold DB: A0A1E4YDV8