Detailed information of TA system TA028400

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2324828..2325501
• Replicon: chromosome
• Accession: NC_018700
• Organism: Sinorhizobium meliloti Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: BN406_RS11425
• Protein ID: WP_010969926.1
• Coordinates: 2325097..2325501 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: BN406_RS11420
• Protein ID: WP_003536345.1
• Coordinates: 2324828..2325100 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BN406_RS11400	2320819..2322459	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
BN406_RS11405	2322507..2323562	-	1056	WP_014529838.1	dipeptidase	-
BN406_RS11410	2323742..2324083	-	342	WP_003536339.1	EamA family transporter	-
BN406_RS11415	2324131..2324691	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
BN406_RS11420	2324828..2325100	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
BN406_RS11425	2325097..2325501	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
BN406_RS11430	2325629..2326021	+	393	WP_003536349.1	globin	-
BN406_RS11435	2326027..2326401	+	375	WP_010969927.1	DUF423 domain-containing protein	-
BN406_RS11440	2326524..2326784	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
BN406_RS11445	2326899..2327213	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
BN406_RS11450	2327226..2327492	-	267	WP_010969929.1	hypothetical protein	-
BN406_RS11455	2327545..2327958	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
BN406_RS11460	2328166..2329092	-	927	WP_010969930.1	energy transducer TonB	-
BN406_RS11465	2329133..2329567	-	435	WP_010969931.1	hypothetical protein	-
BN406_RS11470	2329797..2329937	+	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

>T28400 WP_010969926.1 NC_018700:2325097-2325501 [Sinorhizobium meliloti Rm41]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T28400 NC_018700:2325097-2325501 [Sinorhizobium meliloti Rm41]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT28400 WP_003536345.1 NC_018700:2324828-2325100 [Sinorhizobium meliloti Rm41]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT28400 NC_018700:2324828-2325100 [Sinorhizobium meliloti Rm41]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10