Detailed information of TA system TA000112

Experimentally validated

Overview

TA module

• Type: II
• Classification (family/domain): vapBC/RHH-PIN
• Location: 2808083..2808735
• Replicon: chromosome
• Accession: NC_000962
• Organism: Mycobacterium tuberculosis H37Rv

Toxin (Protein)

• Gene name: vapC
• Uniprot ID: O53219
• Locus tag: Rv2494
• Protein ID: NP_217010.1
• Coordinates: 2808310..2808735 (+)
• Length: 142 a.a.

Antitoxin (Protein)

• Gene name: vapB
• Uniprot ID: P9WJ25
• Locus tag: Rv2493
• Protein ID: NP_217009.1
• Coordinates: 2808083..2808304 (+)
• Length: 74 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
Rv2490a	2806323..2806529	-	207	YP_009030040.1	hypothetical protein	-
Rv2491	2806665..2807288	+	624	NP_217007.1	hypothetical protein	-
Rv2492	2807278..2808030	+	753	NP_217008.1	hypothetical protein	-
Rv2493	2808083..2808304	+	222	NP_217009.1	antitoxin VapB38	Antitoxin
Rv2494	2808310..2808735	+	426	NP_217010.1	ribonuclease VapC38	Toxin
Rv2495c	2808758..2809939	-	1182	NP_217011.1	branched-chain keto acid dehydrogenase E2 component	-
Rv2496c	2809936..2810982	-	1047	NP_217012.1	3-methyl-2-oxobutanoate dehydrogenase subunit beta	-
Rv2497c	2810993..2812096	-	1104	NP_217013.1	3-methyl-2-oxobutanoate dehydrogenase subunit alpha	-
Rv2498c	2812355..2813176	-	822	NP_217014.1	citrate (pro-3S)-lyase subunit beta	-
Rv2499c	2813173..2813730	-	558	NP_217015.1	oxidase regulatory-like 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 (3-121)

Antitoxin

No domain identified.

Sequences

Toxin

Protein

• Length: 142 a.a.
• Molecular weight: 15392.89 Da
• Isoelectric Point: 9.2386

>T112 NP_217010.1 NC_000962:2808310-2808735 [Mycobacterium tuberculosis H37Rv]
VALLDVNALVALAWDSHIHHARIREWFTANATLGWATCPLTEAGFVRVSTNPKVLPSAIGIADARRVLVALRAVGGHRFL
ADDVSLVDDDVPLIVGYRQVTDAHLLTLARRRGVRLVTFDAGVFTLAQQRPKTPVELLTIL

Nucleotide

• Length: 426 bp

>T112 NC_000962:2808310-2808735 [Mycobacterium tuberculosis H37Rv]
GTGGCGCTGCTCGACGTCAACGCATTGGTCGCGCTGGCGTGGGACTCACACATCCACCACGCCCGGATCCGCGAGTGGTT
TACCGCCAACGCCACGCTCGGCTGGGCGACTTGCCCGCTCACCGAAGCCGGCTTCGTGCGGGTGTCGACGAACCCAAAAG
TACTTCCCAGCGCGATCGGGATCGCAGACGCTCGACGGGTCCTCGTGGCACTACGCGCCGTGGGAGGCCACCGCTTCCTG
GCTGACGACGTATCGCTCGTCGATGACGATGTTCCGTTGATCGTCGGTTATCGCCAGGTGACCGACGCCCATCTGCTGAC
ACTCGCCCGCCGGCGCGGCGTCCGCCTGGTCACCTTCGACGCCGGTGTCTTCACCCTCGCCCAACAACGCCCCAAGACGC
CAGTGGAGCTGCTGACCATCCTCTAA

Antitoxin

Protein

• Length: 74 a.a.
• Molecular weight: 7864.93 Da
• Isoelectric Point: 4.5258

>AT112 NP_217009.1 NC_000962:2808083-2808304 [Mycobacterium tuberculosis H37Rv]
VRTTLDLDDDVIAAARELASSQRRSLGSVISELARRGLMPGRVEADDGLPVIRVPAGTPPITPEMVRRALDED

Nucleotide

• Length: 222 bp

>AT112 NC_000962:2808083-2808304 [Mycobacterium tuberculosis H37Rv]
GTGCGAACGACACTTGACCTTGACGACGATGTGATCGCCGCGGCACGTGAACTTGCCTCCAGCCAGCGCCGCTCGCTCGG
CTCGGTGATTTCCGAACTCGCACGCCGTGGTCTCATGCCCGGACGCGTCGAGGCTGACGACGGGCTGCCGGTGATCCGCG
TTCCAGCCGGGACCCCGCCGATCACACCGGAGATGGTCCGTCGCGCGCTCGATGAGGACTGA

Similar Proteins

Only experimentally validated proteins are listed.

Toxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
T114	Mycobacterium tuberculosis H37Rv	46.259	100	0.482
T129	Mycobacterium tuberculosis H37Rv	41.6	88.652	0.369
T80	Mycobacterium tuberculosis H37Rv	39.516	93.233	0.368

Multiple sequence alignment

Antitoxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
AT114	Mycobacterium tuberculosis H37Rv	52.055	100	0.521

Multiple sequence alignment

Structures

Toxin

• AlphaFold DB: O53219

Antitoxin

• AlphaFold DB: P9WJ25

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]


 experimental literature