Detailed view for Rv0148

Basic information

TDR Targets ID: 7191
Mycobacterium tuberculosis, Probable short-chain type dehydrogenase/reductase

Source Database / ID: Tuberculist / Rv0148 

pI: 5.1201 | Length (AA): 286 | MW (Da): 29779 | Paralog Number: 2

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

Pfam domains

PF00106   short chain dehydrogenase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Network

Metabolic Pathways

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

Structural information

Modbase 3D models: 3

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
3 284 2et6 (A) 5 285 47.00 0 1 1.51831 -0.25
3 282 1gz6 (A) 6 285 51.00 0 1 1.59332 -0.37
7 242 1edo (A) 18 257 34.00 0 1 1.21537 -0.78

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 Shows this level of upregulation in
This gene ranks in the upper 80-100% group of genes. Dormant phase.
Upregulation Percent Ranking Shows this level of upregulation in
This gene ranks in the lower 20-40% group of genes. Dormant phase.
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_129142)
Species Accession Gene Product
Arabidopsis thaliana AT1G76150   enoyl-CoA hydratase 2
Brugia malayi Bm1_44740   oxidoreductase, short chain dehydrogenase/reductase family protein
Brugia malayi Bm1_24050   maoC like domain containing protein
Candida albicans CaO19.1809   similar to C.tropicalis HDE1 (P22414) peroxisomal trifunctional hydratase-dehydrogenase-epimerase important in fatty acid beta-o
Caenorhabditis elegans CELE_E04F6.3   Protein MAOC-1
Caenorhabditis elegans CELE_M03A8.1   Protein DHS-28
Dictyostelium discoideum DDB_G0291247   hypothetical protein
Dictyostelium discoideum DDB_G0277911   hypothetical protein
Drosophila melanogaster Dmel_CG3415   peroxisomal Multifunctional enzyme type 2
Homo sapiens ENSG00000133835   hydroxysteroid (17-beta) dehydrogenase 4
Loa Loa (eye worm) LOAG_08780   short chain dehydrogenase/reductase family oxidoreductase
Loa Loa (eye worm) LOAG_00696   hypothetical protein
Mus musculus ENSMUSG00000024507   hydroxysteroid (17-beta) dehydrogenase 4
Mycobacterium tuberculosis Rv0148 this record   Probable short-chain type dehydrogenase/reductase
Mycobacterium tuberculosis Rv3389c   Probable 3-hydroxyacyl-thioester dehydratase HtdY
Mycobacterium tuberculosis Rv3538   Probable dehydrogenase. Possible 2-enoyl acyl-CoA hydratase.
Mycobacterium ulcerans MUL_4099   dehydratase
Mycobacterium ulcerans MUL_0920   hypothetical protein
Mycobacterium ulcerans MUL_4759   short-chain type dehydrogenase/reductase
Mycobacterium ulcerans MUL_4812   short-chain type dehydrogenase/reductase
Neospora caninum NCLIV_042220   peroxisomal multifunctional enzyme type 2, putative
Neospora caninum NCLIV_030080   peroxisomal multifunctional enzyme, putative
Oryza sativa 4347752   Os09g0544900
Saccharomyces cerevisiae YKR009C   bifunctional hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase FOX2
Schmidtea mediterranea mk4.001730.03  
Schmidtea mediterranea mk4.007769.01   Peroxisomal multifunctional enzyme type 2
Toxoplasma gondii TGME49_234570   sterol carrier protein-2 HAD-2SCP-2
Toxoplasma gondii TGME49_229140   MaoC family domain-containing protein

Essentiality

Rv0148 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu149 this record Mycobacterium tuberculosis non-essential nmpdr
mtu3449 Mycobacterium tuberculosis non-essential nmpdr
mtu3599 Mycobacterium tuberculosis essential nmpdr
CELE_M03A8.1 Caenorhabditis elegans larval arrest wormbase
CELE_M03A8.1 Caenorhabditis elegans slow growth wormbase
CELE_E04F6.3 Caenorhabditis elegans larval arrest wormbase
TGME49_229140 Toxoplasma gondii Essentiality uncertain sidik
TGME49_234570 Toxoplasma gondii Essentiality uncertain sidik
TGME49_229140 Toxoplasma gondii Probably non-essential sidik
TGME49_234570 Toxoplasma gondii Probably non-essential sidik

Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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 log in using your TDR Targets username and password and send them to us using the corresponding form in this page (only visible to registered users) or contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.6

Curated from literature

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Homo sapiens hydroxysteroid (17-beta) dehydrogenase 4 Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Homo sapiens hydroxysteroid (17-beta) dehydrogenase 10 252 aa 28.1% 203 aa Compounds References

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.

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User comments

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Gene identifier Rv0148 (Mycobacterium tuberculosis), Probable short-chain type dehydrogenase/reductase
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