Detailed information of TA system TA220829

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2584899..2585572
• Replicon: chromosome
• Accession: NZ_CP085525
• Organism: Sinorhizobium meliloti strain L6-AK89

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: LJD24_RS12395
• Protein ID: WP_010969926.1
• Coordinates: 2585168..2585572 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: LJD24_RS12390
• Protein ID: WP_003536345.1
• Coordinates: 2584899..2585171 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LJD24_RS12370 (LJD24_12370)	2580890..2582530	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
LJD24_RS12375 (LJD24_12375)	2582578..2583633	-	1056	WP_014529838.1	dipeptidase	-
LJD24_RS12380 (LJD24_12380)	2583813..2584154	-	342	WP_003536339.1	SMR family transporter	-
LJD24_RS12385 (LJD24_12385)	2584202..2584762	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
LJD24_RS12390 (LJD24_12390)	2584899..2585171	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
LJD24_RS12395 (LJD24_12395)	2585168..2585572	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
LJD24_RS12400 (LJD24_12400)	2585700..2586092	+	393	WP_003536349.1	globin	-
LJD24_RS12405 (LJD24_12405)	2586098..2586472	+	375	WP_010969927.1	DUF423 domain-containing protein	-
LJD24_RS12410 (LJD24_12410)	2586595..2586795	+	201	WP_042709455.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
LJD24_RS12415 (LJD24_12415)	2586969..2587283	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
LJD24_RS12420 (LJD24_12420)	2587296..2587562	-	267	WP_010969929.1	hypothetical protein	-
LJD24_RS12425 (LJD24_12425)	2587615..2588028	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
LJD24_RS12430 (LJD24_12430)	2588236..2589162	-	927	WP_010969930.1	energy transducer TonB	-
LJD24_RS12435 (LJD24_12435)	2589203..2589637	-	435	WP_010969931.1	hypothetical protein	-
LJD24_RS12440 (LJD24_12440)	2589867..2590007	+	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

>T220829 WP_010969926.1 NZ_CP085525:2585168-2585572 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T220829 NZ_CP117298:364365-364667 [Mycobacterium tuberculosis variant bovis]
TTGATCGCTCCCGGCGACATCGCGCCGCGCCGCGACAGTGAACACGAGCTCTACGTCGCCGTCTTGTCCAACGCGCTCCA
TCGGGCCGCGGACACCGGACGGGTGATCACCTGCCCATTCATTCCGGGCCGGGTCCCCGAGGATCTCTTGGCGATGGTGG
TGGCGGTCGAGCAACCCAACGGCACGCTGCTGCCGGAACTCGTGCAGTGGCTTCATGTTGCCGCGCTCGGTGCGCCACTC
GGCAACGCGGGCGTGGCCGCCCTACGCGAGGCTGCCTCGGTCGTGACAGCTCTGCTCTGTTAG

Antitoxin

Protein

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

>AT220829 WP_003536345.1 NZ_CP085525:2584899-2585171 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT220829 NZ_CP117298:364141-364368 [Mycobacterium tuberculosis variant bovis]
ATGACGAAAGAGAAGATCTCCGTGACGGTGGACGCGGCCGTCCTCGCGGCGATCGACGCGGACGCCAGGGCGGCGGGTTT
GAATCGGTCGGAAATGATTGAGCAGGCACTGCGCAACGAGCACCTGCGTGTCGCTCTGCGCGATTACACGGCTAAAACCG
TACCGGCGTTGGACATCGATGCCTACGCACAGCGGGTGTACCAGGCGAACCGGGCGGCCGGAAGTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10