Detailed information of TA system TA077459

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 767373..768013
• Replicon: plasmid psymB
• Accession: NZ_CP021802
• Organism: Sinorhizobium meliloti strain USDA1021

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: CDO29_RS28375
• Protein ID: WP_003533691.1
• Coordinates: 767373..767759 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: CDO29_RS28380
• Protein ID: WP_003533689.1
• Coordinates: 767759..768013 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO29_RS28350	762837..763316	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
CDO29_RS28355	763360..763809	-	450	WP_003537305.1	nucleoside deaminase	-
CDO29_RS28360	763884..765605	+	1722	WP_088203762.1	pseudouridine synthase	-
CDO29_RS28365	765612..766172	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
CDO29_RS28370	766245..767144	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
CDO29_RS28375	767373..767759	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO29_RS28380	767759..768013	-	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
CDO29_RS28385	768152..769984	-	1833	WP_010968833.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
CDO29_RS28390	770136..771482	+	1347	WP_014529073.1	TldD/PmbA family protein	-
CDO29_RS28395	771591..772409	+	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
CDO29_RS28400	772470..772706	+	237	WP_003533684.1	DUF4170 domain-containing protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Mobilizable plasmid	-	fliQ / flhA / icl / htpB / htpB	1..2011522	2011522

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 (1-124)

Antitoxin

• Antitoxin VapB-like (1-83)

Sequences

Toxin

Protein

• Length: 129 a.a.
• Molecular weight: 13904.77 Da
• Isoelectric Point: 4.5716

>T77459 WP_003533691.1 NZ_CP021802:c767759-767373 [Sinorhizobium meliloti]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T77459 NZ_CP021802:c767759-767373 [Sinorhizobium meliloti]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

• Length: 85 a.a.
• Molecular weight: 9472.63 Da
• Isoelectric Point: 4.8660

>AT77459 WP_003533689.1 NZ_CP021802:c768013-767759 [Sinorhizobium meliloti]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT77459 NZ_CP021802:c768013-767759 [Sinorhizobium meliloti]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0