Detailed information of TA system TA077512

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2824578..2825251
• Replicon: chromosome
• Accession: NZ_CP021818
• Organism: Sinorhizobium meliloti strain M162

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO25_RS14125
• Protein ID: WP_010969926.1
• Coordinates: 2824847..2825251 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO25_RS14120
• Protein ID: WP_003536345.1
• Coordinates: 2824578..2824850 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO25_RS14100	2820569..2822209	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
CDO25_RS14105	2822257..2823312	-	1056	WP_014529838.1	dipeptidase	-
CDO25_RS14110	2823492..2823833	-	342	WP_003536339.1	EamA family transporter	-
CDO25_RS14115	2823881..2824441	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
CDO25_RS14120	2824578..2824850	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO25_RS14125	2824847..2825251	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO25_RS14130	2825379..2825771	+	393	WP_003536349.1	globin	-
CDO25_RS14135	2825777..2826151	+	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO25_RS14140	2826274..2826534	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO25_RS14145	2826649..2826963	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO25_RS14150	2826976..2827242	-	267	WP_010969929.1	hypothetical protein	-
CDO25_RS14155	2827295..2827708	-	414	WP_088200630.1	DUF2325 domain-containing protein	-
CDO25_RS14160	2827916..2828842	-	927	WP_010969930.1	energy transducer TonB	-
CDO25_RS14165	2828883..2829317	-	435	WP_010969931.1	hypothetical protein	-
CDO25_RS14170	2829547..2829687	+	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

>T77512 WP_010969926.1 NZ_CP021818:2824847-2825251 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77512 NZ_CP021818:2824847-2825251 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77512 WP_003536345.1 NZ_CP021818:2824578-2824850 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77512 NZ_CP021818:2824578-2824850 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10