Detailed information of TA system TA077464

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC(toxin)
• Location: 1275432..1276072
• Replicon: chromosome
• Accession: NZ_CP021804
• Organism: Sinorhizobium meliloti strain T073

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: H0G6N1
• Locus tag: CDO28_RS06570
• Protein ID: WP_003533691.1
• Coordinates: 1275686..1276072 (+)
• Length: 129 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0G6N0
• Locus tag: CDO28_RS06565
• Protein ID: WP_003533689.1
• Coordinates: 1275432..1275686 (+)
• Length: 85 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO28_RS06545	1270739..1270975	-	237	WP_003533684.1	DUF4170 domain-containing protein	-
CDO28_RS06550	1271036..1271854	-	819	WP_010968835.1	3'(2'),5'-bisphosphate nucleotidase CysQ	-
CDO28_RS06555	1271963..1273309	-	1347	WP_010968834.1	TldD/PmbA family protein	-
CDO28_RS06560	1273461..1275293	+	1833	WP_010968833.1	monovalent cation:proton antiporter-2 (CPA2) family protein	-
CDO28_RS06565	1275432..1275686	+	255	WP_003533689.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
CDO28_RS06570	1275686..1276072	+	387	WP_003533691.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO28_RS06575	1276301..1277200	-	900	WP_010968832.1	patatin-like phospholipase family protein	-
CDO28_RS06580	1277273..1277833	-	561	WP_010968831.1	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	-
CDO28_RS06585	1277840..1279561	-	1722	WP_010968830.1	pseudouridine synthase	-
CDO28_RS06590	1279636..1280085	+	450	WP_003537305.1	nucleoside deaminase	-
CDO28_RS06595	1280129..1280608	-	480	WP_003537307.1	GNAT family N-acetyltransferase	-

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

>T77464 WP_003533691.1 NZ_CP021804:1275686-1276072 [Sinorhizobium meliloti]
MVIDTSAIAAIAFNEQEAGSFREKIADDPVRLISAATALEAAMVIETRLGEAAGAELDLWLYKANVEIVAVTAEHMDQAR
RAWRRFGKGRHPAGLNFGDCFSYALAFLTNEPLLFKGSDFSQTDIPAA

Nucleotide

• Length: 387 bp

>T77464 NZ_CP021804:1275686-1276072 [Sinorhizobium meliloti]
ATGGTCATCGACACATCCGCCATTGCCGCGATTGCCTTCAATGAACAGGAGGCCGGAAGTTTCCGCGAAAAAATCGCGGA
CGACCCGGTTCGGCTCATCTCCGCGGCAACCGCTCTGGAAGCGGCCATGGTAATCGAAACCCGGTTAGGCGAAGCTGCCG
GAGCGGAACTTGATCTTTGGCTTTACAAGGCAAACGTGGAGATTGTTGCGGTAACCGCCGAGCATATGGACCAGGCCCGC
CGTGCCTGGCGCCGTTTCGGCAAAGGCCGTCATCCGGCCGGTTTGAATTTCGGTGATTGTTTTTCCTATGCCCTGGCCTT
TCTGACAAATGAACCGCTTCTCTTCAAGGGAAGCGATTTCTCGCAAACCGATATCCCGGCGGCATAA

Antitoxin

Protein

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

>AT77464 WP_003533689.1 NZ_CP021804:1275432-1275686 [Sinorhizobium meliloti]
MALSIKDTETEQLARTLARRTGESITLATKRALEERLRRTDTAARRAALLEDLEAIQRRWNAMPVLDSRSSDDIIGYDED
GLPS

Nucleotide

• Length: 255 bp

>AT77464 NZ_CP021804:1275432-1275686 [Sinorhizobium meliloti]
ATGGCGCTGAGCATCAAGGACACTGAAACCGAGCAGCTTGCCCGCACACTTGCCCGGCGGACAGGGGAATCCATCACGCT
TGCCACCAAGCGTGCCCTCGAAGAACGATTGCGCCGAACCGACACCGCTGCCCGGCGCGCGGCTCTTCTGGAGGATCTGG
AAGCCATTCAACGCCGCTGGAATGCCATGCCCGTCCTCGACAGTCGCAGCTCCGATGACATTATCGGTTATGACGAGGAT
GGACTCCCCTCATAA

Structures

Toxin

• AlphaFold DB: H0G6N1

Antitoxin

• AlphaFold DB: H0G6N0