Detailed view for Rv1454c

Basic information

TDR Targets ID: 6982
Mycobacterium tuberculosis, Probable quinone reductase Qor (NADPH:quinone reductase) (zeta-crystallin homolog protein)
Source Database / ID:  Tuberculist 

pI: 5.3427 | Length (AA): 328 | MW (Da): 34047 | 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

PF00107   Zinc-binding dehydrogenase
PF08240   Alcohol dehydrogenase GroES-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0016491   oxidoreductase activity  
GO:0008270   zinc ion binding  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

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
1 328 4rvu (A) 1 328 99.99 0 1 2.2352 -1.44

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
  • 4RVS:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4RVU:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_128594)

Species Accession Gene Product
Arabidopsis thaliana AT5G61510   GroES-like zinc-binding alcohol dehydrogenase family protein
Candida albicans CaO19.2262   similar to S. cerevisiae ZTA1 (YBR046C) zeta-crystallin homolog and to quinone oxidoreductases
Candida albicans CaO19.9802   similar to S. cerevisiae ZTA1 (YBR046C) zeta-crystallin homolog and to quinone oxidoreductases
Caenorhabditis elegans CELE_F39B2.3   Protein F39B2.3
Dictyostelium discoideum DDB_G0271884   alcohol dehydrogenase
Escherichia coli b4051   quinone oxidoreductase, NADPH-dependent
Homo sapiens ENSG00000116791   crystallin, zeta (quinone reductase)
Leishmania braziliensis LbrM.03.0480   quinone oxidoreductase, putative
Leishmania donovani LdBPK_030550.1   quinone oxidoreductase, putative
Leishmania infantum LinJ.03.0550   quinone oxidoreductase, putative
Leishmania major LmjF.03.0570   quinone oxidoreductase, putative
Leishmania mexicana LmxM.03.0570   quinone oxidoreductase, putative
Mus musculus ENSMUSG00000028199   crystallin, zeta
Mycobacterium tuberculosis Rv1454c   Probable quinone reductase Qor (NADPH:quinone reductase) (zeta-crystallin homolog protein)
Mycobacterium ulcerans MUL_1855   quinone reductase Qor
Oryza sativa 4349382   Os10g0561100
Oryza sativa 4331289   Os03g0101600
Saccharomyces cerevisiae YBR046C   Zta1p
Schmidtea mediterranea mk4.000392.15  
Schmidtea mediterranea mk4.000392.14   Quinone oxidoreductase
Schmidtea mediterranea mk4.000392.16  
Trypanosoma cruzi TcCLB.510311.90   quinone oxidoreductase, putative
Trypanosoma cruzi TcCLB.510265.10   quinone oxidoreductase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0629   NADPH:quinone reductase

Essentiality

Rv1454c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1477 this record Mycobacterium tuberculosis non-essential nmpdr
b4051 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • 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
  • 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.
  • 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
  • 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.

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

Druggability index (range: 0 to 1): 0.5

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

No literature references available for this target.

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 Rv1454c (Mycobacterium tuberculosis), Probable quinone reductase Qor (NADPH:quinone reductase) (zeta-crystallin homolog protein)
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