Detailed information of TA system TA028618

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 851959..852599
• Replicon: chromosome
• Accession: NC_019845
• Organism: Sinorhizobium meliloti GR4

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: C770_RS03965
• Protein ID: WP_003533691.1
• Coordinates: 851959..852345 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: C770_RS03970
• Protein ID: WP_003533689.1
• Coordinates: 852345..852599 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C770_RS03940	847423..847902	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
C770_RS03945	847946..848395	-	450	WP_003537305.1	nucleoside deaminase	-
C770_RS03950	848470..850191	+	1722	WP_010968830.1	pseudouridine synthase	-
C770_RS03955	850198..850758	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
C770_RS03960	850831..851730	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
C770_RS03965	851959..852345	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
C770_RS03970	852345..852599	-	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
C770_RS03975	852738..854570	-	1833	WP_015241069.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
C770_RS03980	854722..856068	+	1347	WP_010968834.1	TldD/PmbA family protein	-
C770_RS03985	856177..856995	+	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
C770_RS03990	857056..857292	+	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

>T28618 WP_003533691.1 NC_019845:c852345-851959 [Sinorhizobium meliloti GR4]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T28618 NC_019845:c852345-851959 [Sinorhizobium meliloti GR4]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

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

>AT28618 WP_003533689.1 NC_019845:c852599-852345 [Sinorhizobium meliloti GR4]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT28618 NC_019845:c852599-852345 [Sinorhizobium meliloti GR4]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0