Detailed information of TA system TA077469

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 3073103..3073776
• Replicon: chromosome
• Accession: NZ_CP021804
• Organism: Sinorhizobium meliloti strain T073

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO28_RS15120
• Protein ID: WP_010969926.1
• Coordinates: 3073103..3073507 (-)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO28_RS15125
• Protein ID: WP_003536345.1
• Coordinates: 3073504..3073776 (-)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO28_RS15075	3068398..3068538	-	141	WP_027990619.1	hemin uptake protein HemP	-
CDO28_RS15080	3068768..3069202	+	435	WP_027990618.1	hypothetical protein	-
CDO28_RS15085	3069243..3070169	+	927	WP_027990617.1	energy transducer TonB	-
CDO28_RS15090	3070375..3070788	+	414	WP_027990616.1	DUF2325 domain-containing protein	-
CDO28_RS15095	3070841..3071107	+	267	WP_027990615.1	hypothetical protein	-
CDO28_RS15100	3071390..3071704	+	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO28_RS15105	3071820..3072080	-	261	WP_027990614.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO28_RS15110	3072203..3072577	-	375	WP_027990613.1	DUF423 domain-containing protein	-
CDO28_RS15115	3072583..3072975	-	393	WP_027990612.1	globin	-
CDO28_RS15120	3073103..3073507	-	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO28_RS15125	3073504..3073776	-	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO28_RS15130	3073913..3074473	+	561	WP_027990611.1	TetR/AcrR family transcriptional regulator	-
CDO28_RS15135	3074521..3074862	+	342	WP_003536339.1	EamA family transporter	-
CDO28_RS15140	3075042..3076097	+	1056	WP_027990610.1	dipeptidase	-
CDO28_RS15145	3076145..3077785	+	1641	WP_027990609.1	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

>T77469 WP_010969926.1 NZ_CP021804:c3073507-3073103 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77469 NZ_CP021804:c3073507-3073103 [Sinorhizobium meliloti]
TTGAACGGGTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCGTATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77469 WP_003536345.1 NZ_CP021804:c3073776-3073504 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77469 NZ_CP021804:c3073776-3073504 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTCGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10