Detailed information of TA system TA028380

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/VapC-VapB
• Location: 477843..478423
• Replicon: plasmid pSYMA
• Accession: NC_018683
• Organism: Sinorhizobium meliloti Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: BN406_RS35265
• Protein ID: WP_080599828.1
• Coordinates: 477843..478226 (-)
• Length: 128 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: F7XCL0
• Locus tag: BN406_RS21135
• Protein ID: WP_013851145.1
• Coordinates: 478223..478423 (-)
• Length: 67 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BN406_RS21105	473175..473669	-	495	WP_014989782.1	DUF4411 family protein	-
BN406_RS21110	473666..474826	-	1161	WP_014989783.1	ImmA/IrrE family metallo-endopeptidase	-
BN406_RS21115	475322..476521	-	1200	WP_014989784.1	NAD-dependent formate dehydrogenase	-
BN406_RS38085	476915..477688	+	774	WP_172643728.1	RepB plasmid partition	-
BN406_RS35265	477843..478226	-	384	WP_080599828.1	type II toxin-antitoxin system VapC family toxin	Toxin
BN406_RS21135	478223..478423	-	201	WP_013851145.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
BN406_RS21140	478939..479466	+	528	WP_080590796.1	TIGR02444 family protein	-
BN406_RS21145	479657..480430	+	774	WP_014989787.1	UTRA domain-containing protein	-
BN406_RS21150	480519..481895	-	1377	WP_014989788.1	NAD(P)/FAD-dependent oxidoreductase	-
BN406_RS21155	481892..482206	-	315	WP_014528248.1	(2Fe-2S)-binding protein	-
BN406_RS21160	482196..483302	-	1107	WP_014989789.1	FAD-binding oxidoreductase	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aac(3)-IIc	htpB	1..1559666	1559666

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 (2-113)

Antitoxin

• Bacterial antitoxin of type II TA system, VapB (1-42)

Sequences

Toxin

Protein

• Length: 128 a.a.
• Molecular weight: 14256.47 Da
• Isoelectric Point: 6.9172

>T28380 WP_080599828.1 NC_018683:c478226-477843 [Sinorhizobium meliloti Rm41]
VILADTSIWIDHFRHTDAELRRIIEDDRLLCHPAVIGELALGSLRERSSVIAFLMAQREALVATHQEVMIMIDRHAIFSI
GIGYTDAHLLASVLLDQRMALWTRDKRLQAAAEKAGASLHTPAHTRN

Nucleotide

• Length: 384 bp

>T28380 NC_018683:c478226-477843 [Sinorhizobium meliloti Rm41]
GTGATTCTTGCCGACACTTCAATCTGGATTGATCATTTCCGGCATACCGATGCCGAGCTGCGTAGGATTATTGAGGACGA
TCGTCTCCTCTGCCATCCGGCCGTGATCGGAGAGCTTGCACTTGGCAGCCTTCGGGAACGCAGTAGCGTGATAGCATTCC
TGATGGCTCAGCGCGAAGCACTCGTCGCAACGCACCAGGAGGTCATGATAATGATCGATCGCCACGCCATTTTTAGCATC
GGGATTGGCTACACGGATGCCCATTTGCTGGCCTCGGTTCTCCTCGATCAGCGAATGGCTTTGTGGACGAGAGACAAGCG
TTTGCAGGCAGCGGCCGAAAAGGCGGGGGCGTCGCTGCACACCCCCGCCCATACGCGGAACTGA

Antitoxin

Protein

• Length: 67 a.a.
• Molecular weight: 7096.22 Da
• Isoelectric Point: 11.1107

>AT28380 WP_013851145.1 NC_018683:c478423-478223 [Sinorhizobium meliloti Rm41]
MRSTINLDDTLMERAKSLTGTKETAALVRQALETLVRVESGKRLIALGGTMPDAEAAPRRRSAAAK

Nucleotide

• Length: 201 bp

>AT28380 NC_018683:c478423-478223 [Sinorhizobium meliloti Rm41]
ATGCGATCGACTATCAACCTCGACGACACTCTCATGGAAAGGGCTAAGTCCCTAACCGGCACAAAAGAAACCGCCGCTCT
GGTCCGCCAGGCATTGGAGACGCTTGTTCGTGTGGAGTCAGGAAAACGCCTCATCGCGCTCGGGGGAACTATGCCGGATG
CGGAAGCAGCTCCACGCCGCCGGAGCGCAGCTGCCAAGTGA

Structures

Antitoxin

• AlphaFold DB: A0A7W6MID2