Detailed information of TA system TA028397

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 479155..479795
• Replicon: chromosome
• Accession: NC_018700
• Organism: Sinorhizobium meliloti Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: BN406_RS02310
• Protein ID: WP_003533691.1
• Coordinates: 479155..479541 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: BN406_RS02315
• Protein ID: WP_003533689.1
• Coordinates: 479541..479795 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BN406_RS02285	474648..475127	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
BN406_RS02290	475169..475618	-	450	WP_003537305.1	nucleoside deaminase	-
BN406_RS02295	475693..477387	+	1695	WP_015007224.1	pseudouridine synthase	-
BN406_RS02300	477394..477954	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
BN406_RS02305	478027..478926	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
BN406_RS02310	479155..479541	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
BN406_RS02315	479541..479795	-	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
BN406_RS02320	479934..481766	-	1833	WP_003533687.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
BN406_RS02325	481918..483264	+	1347	WP_015007225.1	TldD/PmbA family protein	-
BN406_RS02330	483373..484197	+	825	WP_015007226.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
BN406_RS02335	484251..484487	+	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

>T28397 WP_003533691.1 NC_018700:c479541-479155 [Sinorhizobium meliloti Rm41]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T28397 NC_018700:c479541-479155 [Sinorhizobium meliloti Rm41]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

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

>AT28397 WP_003533689.1 NC_018700:c479795-479541 [Sinorhizobium meliloti Rm41]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT28397 NC_018700:c479795-479541 [Sinorhizobium meliloti Rm41]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0