Detailed information of TA system TA000078

Experimentally validated

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/AbrB-PIN
• Location: 697154..697800
• Replicon: chromosome
• Accession: NC_000962
• Organism: Mycobacterium tuberculosis H37Rv

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: P9WF83
• Locus tag: Rv0598c
• Protein ID: NP_215112.1
• Coordinates: 697154..697567 (-)
• Length: 138 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: O07779
• Locus tag: Rv0599c
• Protein ID: NP_215113.1
• Coordinates: 697564..697800 (-)
• Length: 79 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
Rv0594	693237..694787	+	1551	NP_215108.1	Mce family protein Mce2F	-
Rv0595c	694839..695231	-	393	NP_215109.1	ribonuclease VapC4	-
Rv0596c	695228..695485	-	258	NP_215110.1	antitoxin VapB4	-
Rv0597c	695668..696903	-	1236	NP_215111.1	hypothetical protein	-
Rv0598c	697154..697567	-	414	NP_215112.1	ribonuclease VapC27	Toxin
Rv0599c	697564..697800	-	237	NP_215113.1	antitoxin VapB27	Antitoxin
Rv0600c	697904..698410	-	507	NP_215114.2	two component sensor kinase HK1	-
Rv0601c	698524..698994	-	471	NP_215115.1	two component sensor kinase HK2	-
Rv0602c	699038..699799	-	762	NP_215116.1	two component DNA binding transcriptional regulator TcrA	-
Rv0603	699856..700167	+	312	NP_215117.1	hypothetical protein	-
Rv0604	700239..701189	+	951	NP_215118.1	lipoprotein LpqO	-
Rv0605	701430..702014	+	585	NP_215119.2	IS1536 family serine type transposase	-

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 (7-126)

Antitoxin

• SpoVT-AbrB domain (3-43)

Sequences

Toxin

Protein

• Length: 138 a.a.
• Molecular weight: 14786.14 Da
• Isoelectric Point: 8.1405

>T78 NP_215112.1 NC_000962:c697567-697154 [Mycobacterium tuberculosis H37Rv]
VKPPLAVDTSVAIPLLVRTHTAHAAVVAWWAHREAALCGHALAETYSVLTRLPRDLRLAPMDAARLLTERFAAPLLLSSR
TTEHLPRVLAQFEITGGAVYDALVALAAAEHRAELATRDARAKDTYEKIGVHVVVAA

Nucleotide

• Length: 414 bp

>T78 NC_000962:c697567-697154 [Mycobacterium tuberculosis H37Rv]
GTGAAACCGCCGCTGGCAGTGGACACCAGCGTCGCGATTCCGTTGCTGGTACGGACCCATACCGCGCATGCGGCGGTTGT
CGCCTGGTGGGCACATCGGGAGGCCGCGCTGTGCGGGCACGCCCTGGCCGAAACCTACTCCGTGCTGACCCGCCTGCCGC
GTGACCTACGACTGGCACCGATGGACGCCGCGCGGCTTCTTACCGAACGCTTTGCGGCACCGCTGTTGTTGAGTTCCCGC
ACCACTGAACATCTCCCACGCGTGCTGGCCCAATTCGAGATCACTGGTGGCGCGGTCTATGACGCTCTCGTGGCCCTTGC
CGCCGCCGAGCACCGGGCTGAACTCGCCACACGCGATGCTCGAGCCAAGGACACTTACGAAAAGATCGGCGTCCACGTCG
TTGTCGCCGCGTGA

Antitoxin

Protein

• Length: 79 a.a.
• Molecular weight: 8212.41 Da
• Isoelectric Point: 5.0351

>AT78 NP_215113.1 NC_000962:c697800-697564 [Mycobacterium tuberculosis H37Rv]
MKAVVDAAGRIVVPKPLREALGLQPGSTVEISRYGAGLHLIPTGRTARLEEENGVLVATGETTIDDEVVFGLIDSGRK

Nucleotide

• Length: 237 bp

>AT78 NC_000962:c697800-697564 [Mycobacterium tuberculosis H37Rv]
ATGAAGGCTGTTGTGGATGCGGCTGGCCGCATCGTCGTACCCAAACCGCTGCGCGAAGCCTTGGGGCTGCAACCGGGGTC
CACCGTGGAAATATCCCGCTATGGCGCTGGTCTCCACCTGATTCCCACCGGACGAACAGCGCGTCTCGAAGAGGAGAATG
GCGTACTGGTGGCCACCGGTGAGACCACGATCGACGATGAGGTCGTGTTCGGCCTTATCGATAGCGGCCGGAAGTGA

Structures

Toxin

• AlphaFold DB: P9WF83

Antitoxin

• AlphaFold DB: O07779

References

(1) Holly R Ramage et al. (2009) Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genetics 5(12):e1000767. [PubMed:20011113]

(2) Abigail Sharrock et al. (2018) VapC proteins from Mycobacterium tuberculosis share ribonuclease sequence specificity but differ in regulation and toxicity. PloS One 13(8):e0203412. [PubMed:30169502]


 experimental literature