Detailed information of TA system TA077528

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 3369612..3370285
• Replicon: chromosome
• Accession: NZ_CP021822
• Organism: Sinorhizobium meliloti strain KH46

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO24_RS16595
• Protein ID: WP_010969926.1
• Coordinates: 3369881..3370285 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO24_RS16590
• Protein ID: WP_003536345.1
• Coordinates: 3369612..3369884 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO24_RS16570	3365603..3367243	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
CDO24_RS16575	3367291..3368346	-	1056	WP_014529838.1	dipeptidase	-
CDO24_RS16580	3368526..3368867	-	342	WP_003536339.1	EamA family transporter	-
CDO24_RS16585	3368915..3369475	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
CDO24_RS16590	3369612..3369884	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO24_RS16595	3369881..3370285	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO24_RS16600	3370413..3370805	+	393	WP_003536349.1	globin	-
CDO24_RS16605	3370811..3371185	+	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO24_RS16610	3371308..3371565	+	258	Protein_3151	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO24_RS16615	3371683..3371997	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO24_RS16620	3372010..3372276	-	267	WP_010969929.1	hypothetical protein	-
CDO24_RS16625	3372329..3372742	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
CDO24_RS16630	3372950..3373876	-	927	WP_010969930.1	energy transducer TonB	-
CDO24_RS16635	3373917..3374351	-	435	WP_088199559.1	hypothetical protein	-
CDO24_RS16640	3374581..3374721	+	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

>T77528 WP_010969926.1 NZ_CP021822:3369881-3370285 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77528 NZ_CP021822:3369881-3370285 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77528 WP_003536345.1 NZ_CP021822:3369612-3369884 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77528 NZ_CP021822:3369612-3369884 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10