Detailed information of TA system TA029042

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2611013..2611686
• Replicon: chromosome
• Accession: NC_020528
• Organism: Sinorhizobium meliloti 2011

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: SM2011_RS26680
• Protein ID: WP_010969926.1
• Coordinates: 2611282..2611686 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: SM2011_RS26675
• Protein ID: WP_003536345.1
• Coordinates: 2611013..2611285 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SM2011_RS26655	2607004..2608644	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
SM2011_RS26660	2608692..2609747	-	1056	WP_010969924.1	dipeptidase	-
SM2011_RS26665	2609927..2610268	-	342	WP_003536339.1	EamA family transporter	-
SM2011_RS26670	2610316..2610876	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
SM2011_RS26675	2611013..2611285	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SM2011_RS26680	2611282..2611686	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
SM2011_RS26685	2611814..2612206	+	393	WP_003536349.1	globin	-
SM2011_RS26690	2612212..2612586	+	375	WP_010969927.1	DUF423 domain-containing protein	-
SM2011_RS26695	2612709..2612969	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
SM2011_RS26700	2613084..2613398	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
SM2011_RS26705	2613411..2613677	-	267	WP_010969929.1	hypothetical protein	-
SM2011_RS26710	2613730..2614143	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
SM2011_RS26715	2614267..2615193	-	927	WP_010969930.1	energy transducer TonB	-
SM2011_RS26720	2615234..2615668	-	435	WP_010969931.1	hypothetical protein	-
SM2011_RS26725	2615898..2616038	+	141	WP_010969932.1	hemin uptake protein HemP	-

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 (4-124)

Antitoxin

• SpoVT-AbrB domain (16-54)

Sequences

Toxin

Protein

• Length: 135 a.a.
• Molecular weight: 14747.98 Da
• Isoelectric Point: 5.1974

>T29042 WP_010969926.1 NC_020528:2611282-2611686 [Sinorhizobium meliloti 2011]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T29042 NC_020528:2611282-2611686 [Sinorhizobium meliloti 2011]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

• Length: 91 a.a.
• Molecular weight: 10334.02 Da
• Isoelectric Point: 6.3950

>AT29042 WP_003536345.1 NC_020528:2611013-2611285 [Sinorhizobium meliloti 2011]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT29042 NC_020528:2611013-2611285 [Sinorhizobium meliloti 2011]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10