Detailed view for Rv2953

Basic information

TDR Targets ID: 8852
Mycobacterium tuberculosis, Enoyl reductase
Source Database / ID:  Tuberculist 

pI: 9.3181 | Length (AA): 418 | MW (Da): 45104 | Paralog Number: 1

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

Druggability Group : DG1

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

PF03435   Saccharopine dehydrogenase NADP binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003824   catalytic activity  
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 are 3 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
10 417 4ina (A) 4 395 15.00 0 0.86 1.00318 0.61
11 188 1spx (A) 10 197 25.00 0.24 0.97 0.602137 0.31
97 219 1n2s (A) 58 190 29.00 0.19 0.21 0.366558 0.69

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
Mid 40-60% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. murphy
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_128445)

Species Accession Gene Product
Arabidopsis thaliana AT5G39410   Saccharopine dehydrogenase
Brugia malayi Bm1_50930   AT14148p
Caenorhabditis elegans CELE_Y50D4B.2   Protein Y50D4B.2
Caenorhabditis elegans CELE_F22F7.1   Protein F22F7.1, isoform B
Caenorhabditis elegans CELE_F22F7.2   Protein F22F7.2
Cryptosporidium hominis Chro.40088   bll4978
Cryptosporidium parvum cgd4_700   conserved protein of possible plant or bacterial origin
Drosophila melanogaster Dmel_CG2604   CG2604 gene product from transcript CG2604-RC
Drosophila melanogaster Dmel_CG5167   CG5167 gene product from transcript CG5167-RA
Homo sapiens ENSG00000143653   saccharopine dehydrogenase (putative)
Leishmania braziliensis LbrM.28.0390   hypothetical protein, conserved
Leishmania donovani LdBPK_280520.1   saccharopine dehydrogenase, putative
Leishmania infantum LinJ.28.0520   hypothetical protein, conserved
Leishmania major LmjF.28.0380   hypothetical protein, conserved
Leishmania mexicana LmxM.28.0380   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_07492   hypothetical protein
Mycobacterium leprae ML0129c   Conserved hypothetical protein
Mus musculus ENSMUSG00000038936   saccharopine dehydrogenase (putative)
Mycobacterium tuberculosis Rv2449c   Conserved protein
Mycobacterium tuberculosis Rv2953   Enoyl reductase
Mycobacterium ulcerans MUL_2000   hypothetical protein
Mycobacterium ulcerans MUL_3722   hypothetical protein
Neospora caninum NCLIV_052240   saccharopine dehydrogenase, putative
Oryza sativa 4343797   Os07g0597100
Onchocerca volvulus OVOC7008  
Onchocerca volvulus OVOC7011  
Plasmodium falciparum PF3D7_0219100   conserved protein, unknown function
Plasmodium knowlesi PKNH_0401800   conserved protein, unknown function
Plasmodium vivax PVX_002600   hypothetical protein, conserved
Schmidtea mediterranea mk4.007273.00   Saccharopine dehydrogenase-like oxidoreductase
Schmidtea mediterranea mk4.002168.05   Saccharopine dehydrogenase-like oxidoreductase
Trypanosoma cruzi TcCLB.506163.50   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508821.40   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508177.90   hypothetical protein, conserved
Toxoplasma gondii TGME49_215290   saccharopine dehydrogenase domain-containing protein

Essentiality

Rv2953 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3002 this record Mycobacterium tuberculosis non-essential nmpdr
TGME49_215290 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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

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.

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Gene identifier Rv2953 (Mycobacterium tuberculosis), Enoyl reductase
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