Detailed information of TA system TA029038

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 882946..883586
• Replicon: chromosome
• Accession: NC_020528
• Organism: Sinorhizobium meliloti 2011

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: SM2011_RS18410
• Protein ID: WP_003533691.1
• Coordinates: 882946..883332 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: SM2011_RS18415
• Protein ID: WP_003533689.1
• Coordinates: 883332..883586 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SM2011_RS18385	878410..878889	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
SM2011_RS18390	878933..879382	-	450	WP_003537305.1	nucleoside deaminase	-
SM2011_RS18395	879457..881178	+	1722	WP_010968830.1	pseudouridine synthase	-
SM2011_RS18400	881185..881745	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
SM2011_RS18405	881818..882717	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
SM2011_RS18410	882946..883332	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
SM2011_RS18415	883332..883586	-	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
SM2011_RS18420	883725..885557	-	1833	WP_010968833.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
SM2011_RS18425	885709..887055	+	1347	WP_010968834.1	TldD/PmbA family protein	-
SM2011_RS18430	887164..887982	+	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
SM2011_RS18435	888043..888279	+	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)

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

>T29038 WP_003533691.1 NC_020528:c883332-882946 [Sinorhizobium meliloti 2011]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T29038 NC_020528:c883332-882946 [Sinorhizobium meliloti 2011]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

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

>AT29038 WP_003533689.1 NC_020528:c883586-883332 [Sinorhizobium meliloti 2011]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT29038 NC_020528:c883586-883332 [Sinorhizobium meliloti 2011]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0