Detailed information of TA system TA077452

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 3285533..3286206
• Replicon: chromosome
• Accession: NZ_CP021800
• Organism: Sinorhizobium meliloti strain USDA1021

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO29_RS16345
• Protein ID: WP_010969926.1
• Coordinates: 3285533..3285937 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO29_RS16350
• Protein ID: WP_003536345.1
• Coordinates: 3285934..3286206 (-)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO29_RS16300	3281097..3281237	-	141	WP_010969932.1	hemin uptake protein HemP	-
CDO29_RS16305	3281467..3281901	+	435	WP_010969931.1	hypothetical protein	-
CDO29_RS16310	3281942..3282868	+	927	WP_010969930.1	energy transducer TonB	-
CDO29_RS16315	3283076..3283489	+	414	WP_003536357.1	DUF2325 domain-containing protein	-
CDO29_RS16320	3283542..3283808	+	267	WP_010969929.1	hypothetical protein	-
CDO29_RS16325	3283821..3284135	+	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO29_RS16330	3284250..3284510	-	261	WP_088203376.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO29_RS16335	3284633..3285007	-	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO29_RS16340	3285013..3285405	-	393	WP_003536349.1	globin	-
CDO29_RS16345	3285533..3285937	-	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO29_RS16350	3285934..3286206	-	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO29_RS16355	3286343..3286903	+	561	WP_088203377.1	TetR/AcrR family transcriptional regulator	-
CDO29_RS16360	3286951..3287292	+	342	WP_003536339.1	EamA family transporter	-
CDO29_RS16365	3287472..3288527	+	1056	WP_014529838.1	dipeptidase	-
CDO29_RS16370	3288575..3290215	+	1641	WP_003536336.1	ABC transporter substrate-binding protein	-

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

>T77452 WP_010969926.1 NZ_CP021800:c3285937-3285533 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77452 NZ_CP021800:c3285937-3285533 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77452 WP_003536345.1 NZ_CP021800:c3286206-3285934 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77452 NZ_CP021800:c3286206-3285934 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10