Detailed view for Rv1300

Basic information

TDR Targets ID: 6205
Mycobacterium tuberculosis, Probable HemK protein homolog HemK
Source Database / ID:  Tuberculist 

pI: 6.7647 | Length (AA): 325 | MW (Da): 34590 | Paralog Number: 0

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

PF13649   Methyltransferase domain
PF13659  

Gene Ontology

Mouse over links to read term descriptions.
GO:0008168   methyltransferase activity  
GO:0003676   nucleic acid binding  
GO:0008276   protein methyltransferase activity  
GO:0006479   protein amino acid methylation  
GO:0032259   methylation  

Metabolic Pathways

Porphyrin and chlorophyll metabolism (KEGG)

Structural information

Modbase 3D models:

There are 5 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
22 302 2b3t (A) 1 275 28.00 0 1 1.12082 0.1
22 300 2b3t (A) 1 274 26.00 0 1 1.13976 0.24
58 119 2gb4 (A) 146 202 39.00 0.27 0.32 0.496969 0.26
108 308 3dr5 (A) 33 204 15.00 0 0.65 0.490662 0.36
128 211 3lpm (A) 46 128 30.00 0.16 0.95 0.530662 -0.47

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:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. hasan
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_128078)

Species Accession Gene Product
Arabidopsis thaliana AT5G64150   RNA methyltransferase family protein
Candida albicans CaO19.499   similar to S. cerevisiae YNL063W
Candida albicans CaO19.8129   similar to S. cerevisiae YNL063W
Chlamydia trachomatis CT_024   release factor glutamine methyltransferase
Dictyostelium discoideum DDB_G0278505   hypothetical protein
Drosophila melanogaster Dmel_CG9531   CG9531 gene product from transcript CG9531-RA
Escherichia coli b1212   N5-glutamine methyltransferase, modifies release factors RF-1 and RF-2
Homo sapiens ENSG00000114735   HemK methyltransferase family member 1
Leishmania braziliensis LbrM.35.4730   hypothetical protein, conserved
Leishmania donovani LdBPK_364710.1   hypothetical protein, conserved
Leishmania infantum LinJ.36.4710   hypothetical protein, conserved
Leishmania major LmjF.36.4490   hypothetical protein, conserved
Leishmania mexicana LmxM.36.4490   hypothetical protein, conserved
Mycobacterium leprae ML1135   PROBABLE PROTOPORHYRINOGEN OXIDASE HEMK HOMOLOG
Mus musculus ENSMUSG00000032579   HemK methyltransferase family member 1
Mycobacterium tuberculosis Rv1300   Probable HemK protein homolog HemK
Mycobacterium ulcerans MUL_3964   modification methylase HemK
Oryza sativa 4352776   Os12g0612500
Saccharomyces cerevisiae YNL063W   Mtq1p
Schmidtea mediterranea mk4.075522.01  
Schmidtea mediterranea mk4.005663.00   HemK methyltransferase family member 1
Trypanosoma brucei gambiense Tbg972.10.12030   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.9860   Mitochondrial N(5)-glutamine methyltransferase MTQ1, putative
Trypanosoma congolense TcIL3000_10_8510   Mitochondrial N(5)-glutamine methyltransferase MTQ1, putative
Trypanosoma cruzi TcCLB.504147.40   Mitochondrial N(5)-glutamine methyltransferase MTQ1, putative
Treponema pallidum TP0052   protoporphyrinogen oxidase (hemK)
Wolbachia endosymbiont of Brugia malayi Wbm0285   methylase of polypeptide chain release factor

Essentiality

Rv1300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1322 this record Mycobacterium tuberculosis essential nmpdr
Tb927.10.9860 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.9860 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.9860 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.9860 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1212 Escherichia coli essential goodall
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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.

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Gene identifier Rv1300 (Mycobacterium tuberculosis), Probable HemK protein homolog HemK
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