Detailed information of TA system TA077478

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 1463477..1464150
• Replicon: chromosome
• Accession: NZ_CP021808
• Organism: Sinorhizobium meliloti strain Rm41

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: CDO27_RS07505
• Protein ID: WP_010969926.1
• Coordinates: 1463746..1464150 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: CDO27_RS07500
• Protein ID: WP_003536345.1
• Coordinates: 1463477..1463749 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CDO27_RS07480	1459468..1461108	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
CDO27_RS07485	1461156..1462211	-	1056	WP_014529838.1	dipeptidase	-
CDO27_RS07490	1462391..1462732	-	342	WP_003536339.1	EamA family transporter	-
CDO27_RS07495	1462780..1463340	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
CDO27_RS07500	1463477..1463749	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
CDO27_RS07505	1463746..1464150	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
CDO27_RS07510	1464278..1464670	+	393	WP_003536349.1	globin	-
CDO27_RS07515	1464676..1465050	+	375	WP_010969927.1	DUF423 domain-containing protein	-
CDO27_RS07520	1465173..1465433	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
CDO27_RS07525	1465548..1465862	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
CDO27_RS07530	1465875..1466141	-	267	WP_010969929.1	hypothetical protein	-
CDO27_RS07535	1466194..1466607	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
CDO27_RS07540	1466815..1467741	-	927	WP_010969930.1	energy transducer TonB	-
CDO27_RS07545	1467782..1468216	-	435	WP_010969931.1	hypothetical protein	-
CDO27_RS07550	1468446..1468586	+	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

>T77478 WP_010969926.1 NZ_CP021808:1463746-1464150 [Sinorhizobium meliloti]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T77478 NZ_CP021808:1463746-1464150 [Sinorhizobium meliloti]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT77478 WP_003536345.1 NZ_CP021808:1463477-1463749 [Sinorhizobium meliloti]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT77478 NZ_CP021808:1463477-1463749 [Sinorhizobium meliloti]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10