Detailed view for Rv1220c

Basic information

TDR Targets ID: 7819
Mycobacterium tuberculosis, Probable methyltransferase
Source Database / ID:  Tuberculist 

pI: 4.6069 | Length (AA): 215 | MW (Da): 22107 | Paralog Number: 1

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG2

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF01596   O-methyltransferase

Gene Ontology

Mouse over links to read term descriptions.
GO:0008171   O-methyltransferase activity  
GO:0008168   methyltransferase activity  
GO:0008152   metabolic process  

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
11 215 5x7f (A) 11 215 99.99 0 1 2.16699 -1.56

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

PDB tag
  • 5X7F:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. murphy
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_128394)

Species Accession Gene Product
Arabidopsis thaliana AT1G67980   caffeoyl-CoA 3-O-methyltransferase
Arabidopsis thaliana AT3G62000   S-adenosyl-L-methionine-dependent methyltransferase-like protein
Arabidopsis thaliana AT3G61990   methyltransferase family protein 3
Arabidopsis thaliana AT1G67990   tapetum-specific methyltransferase 1
Arabidopsis thaliana AT1G24735   S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Arabidopsis thaliana AT4G34050   putative caffeoyl-CoA O-methyltransferase
Brugia malayi Bm1_27895   O-methyltransferase family protein
Caenorhabditis elegans CELE_Y40B10A.6   Protein COMT-4
Caenorhabditis elegans CELE_Y40B10A.7   Protein COMT-5
Caenorhabditis elegans CELE_Y40B10A.2   Protein COMT-3
Caenorhabditis elegans CELE_Y32B12A.3   Protein COMT-2
Dictyostelium discoideum DDB_G0271590   O-methyltransferase family 3 protein
Dictyostelium discoideum DDB_G0275501   O-methyltransferase family 3 protein
Dictyostelium discoideum DDB_G0275499   O-methyltransferase family 3 protein
Homo sapiens ENSG00000165644   catechol-O-methyltransferase domain containing 1
Loa Loa (eye worm) LOAG_09317   hypothetical protein
Loa Loa (eye worm) LOAG_06981   O-methyltransferase
Loa Loa (eye worm) LOAG_00417   hypothetical protein
Mycobacterium leprae ML1075c   PROBABLE METHYLTRANSFERASE
Mus musculus ENSMUSG00000021773   catechol-O-methyltransferase domain containing 1
Mycobacterium tuberculosis Rv1220c   Probable methyltransferase
Mycobacterium tuberculosis Rv0187   Probable O-methyltransferase
Mycobacterium ulcerans MUL_4520   methyltransferase
Oryza sativa 4347397   Os09g0481400
Oryza sativa 4344681   Os08g0154000
Oryza sativa 4345936   Os08g0498600
Oryza sativa 4345935   Os08g0498400
Oryza sativa 4345934   Os08g0498100
Oryza sativa 4340240   Os06g0165800
Onchocerca volvulus OVOC3673  
Schistosoma japonicum Sjp_0203690   ko:K00599 O-methyltransferase [EC:2.1.1.-], putative
Schistosoma mansoni Smp_012560   o-methyltransferase
Schistosoma mansoni Smp_052430   o-methyltransferase
Schistosoma mansoni Smp_052470   o-methyltransferase
Schmidtea mediterranea mk4.002014.00  
Wolbachia endosymbiont of Brugia malayi Wbm0436   O-methyltransferase

Essentiality

Rv1220c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1241 this record Mycobacterium tuberculosis non-essential nmpdr
CELE_Y40B10A.7 Caenorhabditis elegans slow growth wormbase
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

63 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier Rv1220c (Mycobacterium tuberculosis), Probable methyltransferase
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