Detailed information of TA system TA028622

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/LOTUS_5_Limkain_b1-VagC
• Location: 2648916..2649589
• Replicon: chromosome
• Accession: NC_019845
• Organism: Sinorhizobium meliloti GR4

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: -
• Locus tag: C770_RS12455
• Protein ID: WP_010969926.1
• Coordinates: 2649185..2649589 (+)
• Length: 135 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: H0GA10
• Locus tag: C770_RS12450
• Protein ID: WP_003536345.1
• Coordinates: 2648916..2649188 (+)
• Length: 91 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C770_RS12430	2644907..2646547	-	1641	WP_003536336.1	ABC transporter substrate-binding protein	-
C770_RS12435	2646595..2647650	-	1056	WP_014529838.1	dipeptidase	-
C770_RS12440	2647830..2648171	-	342	WP_003536339.1	EamA family transporter	-
C770_RS12445	2648219..2648779	-	561	WP_010969925.1	TetR/AcrR family transcriptional regulator	-
C770_RS12450	2648916..2649188	+	273	WP_003536345.1	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	Antitoxin
C770_RS12455	2649185..2649589	+	405	WP_010969926.1	type II toxin-antitoxin system VapC family toxin	Toxin
C770_RS12460	2649717..2650109	+	393	WP_003536349.1	globin	-
C770_RS12465	2650115..2650489	+	375	WP_010969927.1	DUF423 domain-containing protein	-
C770_RS12470	2650612..2650872	+	261	WP_010969928.1	type II toxin-antitoxin system Phd/YefM family antitoxin	-
C770_RS12475	2650987..2651301	-	315	WP_003536354.1	antibiotic biosynthesis monooxygenase	-
C770_RS12480	2651314..2651580	-	267	WP_010969929.1	hypothetical protein	-
C770_RS12485	2651633..2652046	-	414	WP_003536357.1	DUF2325 domain-containing protein	-
C770_RS12490	2652254..2653180	-	927	WP_010969930.1	energy transducer TonB	-
C770_RS12495	2653221..2653655	-	435	WP_010969931.1	hypothetical protein	-
C770_RS12500	2653885..2654025	+	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

>T28622 WP_010969926.1 NC_019845:2649185-2649589 [Sinorhizobium meliloti GR4]
MNGYLLDTNIISDVIHNPFGPAAQRIERIGPKEIYTSIVVASELRYGCAKKGSAKLLAKVESLLEIVPVLPLDIPADTRY
GSIRAELESLGQTIGSNDLLIAAHAYALDLTLVTDNIREFSRVRGLSLENWLER

Nucleotide

• Length: 405 bp

>T28622 NC_019845:2649185-2649589 [Sinorhizobium meliloti GR4]
TTGAACGGCTATCTTCTCGATACGAACATCATCAGCGACGTCATTCACAATCCGTTCGGACCGGCTGCGCAACGCATCGA
ACGGATCGGCCCGAAGGAGATTTACACCAGCATCGTCGTCGCGTCCGAGTTGCGGTATGGTTGCGCAAAAAAGGGATCGG
CGAAGTTGCTCGCCAAGGTCGAAAGCTTGCTGGAAATCGTCCCGGTGCTGCCATTGGATATTCCGGCCGACACCCGATAT
GGCAGCATTCGTGCGGAATTGGAGTCTCTGGGGCAGACCATCGGCTCCAACGATCTGTTGATTGCCGCGCATGCATATGC
GCTGGACCTGACGCTGGTGACGGACAATATCCGTGAGTTCAGCCGCGTTCGTGGCCTTAGTCTGGAAAACTGGCTTGAGC
GATAG

Antitoxin

Protein

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

>AT28622 WP_003536345.1 NC_019845:2648916-2649188 [Sinorhizobium meliloti GR4]
MPVPLPSSRPKEVKLFRNNRSQAVRIPAEFELPGDRVLIRREGTRLIIEPIARPADIVELLAEWKKEAPLGPEDRFPDVE
DIPARPEKIF

Nucleotide

• Length: 273 bp

>AT28622 NC_019845:2648916-2649188 [Sinorhizobium meliloti GR4]
ATGCCCGTCCCGTTGCCGTCATCGCGACCTAAAGAAGTAAAGCTGTTCCGCAATAACCGCAGCCAGGCAGTCCGTATTCC
TGCGGAGTTCGAGTTGCCTGGAGACCGTGTGTTGATCCGTCGCGAAGGAACGAGACTCATTATCGAACCGATAGCCAGGC
CAGCCGATATCGTGGAGCTTCTCGCGGAGTGGAAGAAGGAAGCTCCCCTCGGACCTGAAGACCGGTTCCCGGATGTTGAG
GATATACCCGCCCGGCCGGAGAAAATCTTTTGA

Structures

Antitoxin

• AlphaFold DB: H0GA10