Detailed information of TA system TA025328

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2469108..2469781
• Replicon: chromosome
• Accession: NC_015590
• Organism: Sinorhizobium meliloti AK83

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: SINME_RS12235
• Protein ID: WP_010969926.1
• Coordinates: 2469377..2469781 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: SINME_RS12230
• Protein ID: WP_003536345.1
• Coordinates: 2469108..2469380 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SINME_RS12210	2465099..2466739	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
SINME_RS12215	2466787..2467842	-	1056	WP_014529838.1	dipeptidase	-
SINME_RS12220	2468022..2468363	-	342	WP_003536339.1	EamA family transporter	-
SINME_RS12225	2468411..2468971	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
SINME_RS12230	2469108..2469380	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
SINME_RS12235	2469377..2469781	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
SINME_RS12240	2469909..2470301	+	393	WP_003536349.1	globin	-
SINME_RS12245	2470307..2470681	+	375	WP_010969927.1	DUF423 domain-containing protein	-
SINME_RS12250	2470804..2471064	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
SINME_RS12255	2471179..2471493	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
SINME_RS12260	2471506..2471772	-	267	WP_010969929.1	hypothetical protein	-
SINME_RS12265	2471825..2472238	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
SINME_RS12270	2472446..2473372	-	927	WP_010969930.1	energy transducer TonB	-
SINME_RS12275	2473413..2473847	-	435	WP_010969931.1	hypothetical protein	-
SINME_RS12280	2474077..2474217	+	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

>T25328 WP_010969926.1 NC_015590:2469377-2469781 [Sinorhizobium meliloti AK83]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T25328 NC_015590:2469377-2469781 [Sinorhizobium meliloti AK83]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT25328 WP_003536345.1 NC_015590:2469108-2469380 [Sinorhizobium meliloti AK83]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT25328 NC_015590:2469108-2469380 [Sinorhizobium meliloti AK83]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10