Detailed information of TA system TA020644

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 882944..883584
• Replicon: chromosome
• Accession: NC_003047
• Organism: Sinorhizobium meliloti 1021

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: SM_RS04105
• Protein ID: WP_003533691.1
• Coordinates: 882944..883330 (-)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: SM_RS04110
• Protein ID: WP_003533689.1
• Coordinates: 883330..883584 (-)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SM_RS04080 (SMc00906)	878408..878887	+	480	WP_003537307.1	GNAT family N-acetyltransferase	-
SM_RS04085 (SMc00905)	878931..879380	-	450	WP_003537305.1	nucleoside deaminase	-
SM_RS04090 (SMc00904)	879455..881176	+	1722	WP_010968830.1	pseudouridine synthase	-
SM_RS04095 (SMc00902)	881183..881743	+	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
SM_RS04100 (SMc00930)	881816..882715	+	900	WP_010968832.1	patatin-like phospholipase family protein	-
SM_RS04105 (SMc00900)	882944..883330	-	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
SM_RS04110 (SMc00899)	883330..883584	-	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
SM_RS04115 (SMc00898)	883723..885555	-	1833	WP_010968833.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
SM_RS04120 (SMc00897)	885707..887053	+	1347	WP_010968834.1	TldD/PmbA family protein	-
SM_RS04125 (SMc00896)	887162..887980	+	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
SM_RS04130 (SMc00895)	888041..888277	+	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

>T20644 WP_003533691.1 NC_003047:c883330-882944 [Sinorhizobium meliloti 1021]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T20644 NC_003047:c883330-882944 [Sinorhizobium meliloti 1021]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

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

>AT20644 WP_003533689.1 NC_003047:c883584-883330 [Sinorhizobium meliloti 1021]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT20644 NC_003047:c883584-883330 [Sinorhizobium meliloti 1021]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0