Detailed view for Rv0068

Basic information

TDR Targets ID: 7142
Mycobacterium tuberculosis, Probable oxidoreductase

Source Database / ID:  Tuberculist 

pI: 8.4732 | Length (AA): 303 | MW (Da): 32399 | Paralog Number: 2

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

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  

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
2 302 3rd5 (A) 2 289 53.00 0 1 1.5109 -0.29
10 63 3afm (B) 3 56 31.00 0 0.9 0.575718 -0.62
14 101 1w6u (A) 59 145 33.00 0.0018 1 0.792929 -0.94

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. 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_126621)

Species Accession Gene Product
Arabidopsis thaliana AT5G53100   Rossmann-fold NAD(P)-binding domain-containing protein
Arabidopsis thaliana AT4G11410   Rossmann-fold NAD(P)-binding domain-containing protein
Arabidopsis thaliana AT4G23420   NAD(P)-binding Rossmann-fold superfamily protein
Arabidopsis thaliana AT4G23430   short-chain dehydrogenase TIC 32
Arabidopsis thaliana AT1G64590   NAD(P)-binding Rossmann-fold superfamily protein
Arabidopsis thaliana AT2G37540   Rossmann-fold NAD(P)-binding domain-containing protein
Arabidopsis thaliana AT5G02540   NAD(P)-binding Rossmann-fold superfamily protein
Babesia bovis BBOV_III007020   conserved hypothetical protein
Brugia malayi Bm1_24195   oxidoreductase, short chain dehydrogenase/reductase family protein
Brugia malayi Bm1_51270   oxidoreductase, short chain dehydrogenase/reductase family protein
Candida albicans CaO19.7952   related to S. pombe short chain dehydrogenase
Candida albicans CaO19.320   related to S. pombe short chain dehydrogenase
Candida albicans CaO19.10860   potential short chain dehydrogenase similar to S. cerevisiae YOR246C
Candida albicans CaO19.4521   similar to S. cerevisiae YOR246C
Candida albicans CaO19.11996   similar to S. cerevisiae YOR246C
Candida albicans CaO19.3352   C terminal truncated version of allele CaP19.10860, similar to S. cerevisiae YOR246C
Caenorhabditis elegans CELE_C15H11.4   Protein DHS-22
Cryptosporidium hominis Chro.40258   ENSANGP00000010899
Cryptosporidium parvum cgd4_2270   oxidoreductase, short-chain dehydrogenase family, putative
Dictyostelium discoideum DDB_G0295833   short-chain dehydrogenase/reductase family protein
Dictyostelium discoideum DDB_G0293604   short-chain dehydrogenase/reductase family protein
Dictyostelium discoideum DDB_G0273855   short-chain dehydrogenase/reductase family protein
Dictyostelium discoideum DDB_G0288917   hypothetical protein
Dictyostelium discoideum DDB_G0284919   hypothetical protein
Drosophila melanogaster Dmel_CG2065   CG2065 gene product from transcript CG2065-RB
Drosophila melanogaster Dmel_CG30495   CG30495 gene product from transcript CG30495-RB
Drosophila melanogaster Dmel_CG2064   CG2064 gene product from transcript CG2064-RA
Drosophila melanogaster Dmel_CG2070   CG2070 gene product from transcript CG2070-RB
Drosophila melanogaster Dmel_CG30491   CG30491 gene product from transcript CG30491-RA
Drosophila melanogaster Dmel_CG3842   CG3842 gene product from transcript CG3842-RD
Echinococcus granulosus EgrG_000422100   retinol dehydrogenase 11
Echinococcus granulosus EgrG_000079200   retinol dehydrogenase 11
Entamoeba histolytica EHI_179310   short chain dehydrogenase family protein
Entamoeba histolytica EHI_158310   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_000422100   retinol dehydrogenase 11
Echinococcus multilocularis EmuJ_000079200   retinol dehydrogenase 11
Homo sapiens ENSG00000072042   retinol dehydrogenase 11 (all-trans/9-cis/11-cis)
Homo sapiens ENSG00000240857   retinol dehydrogenase 14 (all-trans/9-cis/11-cis)
Homo sapiens ENSG00000160439   retinol dehydrogenase 13 (all-trans/9-cis)
Homo sapiens ENSG00000139988   retinol dehydrogenase 12 (all-trans/9-cis/11-cis)
Leishmania braziliensis LbrM.10.0090   dehydrogenase-like protein
Leishmania braziliensis LbrM.34.2080   hypothetical protein, conserved
Leishmania donovani LdBPK_100070.1   dehydrogenase-like protein
Leishmania donovani LdBPK_352190.1   short chain dehydrogenase, putative
Leishmania infantum LinJ.10.0070   dehydrogenase-like protein
Leishmania infantum LinJ.35.2190   hypothetical protein, conserved
Leishmania major LmjF.10.0090   dehydrogenase-like protein
Leishmania major LmjF.35.2150   hypothetical protein, conserved
Leishmania mexicana LmxM.34.2150   hypothetical protein, conserved
Leishmania mexicana LmxM.10.0090   dehydrogenase-like protein
Loa Loa (eye worm) LOAG_10783   oxidoreductase
Loa Loa (eye worm) LOAG_06968   oxidoreductase
Mycobacterium leprae ML0315c   Probable oxidoreductase
Mus musculus ENSMUSG00000066441   retinol dehydrogenase 11
Mus musculus ENSMUSG00000020621   retinol dehydrogenase 14 (all-trans and 9-cis)
Mus musculus ENSMUSG00000008435   retinol dehydrogenase 13 (all-trans and 9-cis)
Mus musculus ENSMUSG00000021123   retinol dehydrogenase 12
Mycobacterium tuberculosis Rv0439c   Probable dehydrogenase/reductase
Mycobacterium tuberculosis Rv0068   Probable oxidoreductase
Mycobacterium tuberculosis Rv2263   Possible oxidoreductase
Mycobacterium ulcerans MUL_1391   short chain dehydrogenase
Mycobacterium ulcerans MUL_1288   short chain dehydrogenase
Mycobacterium ulcerans MUL_3862   short chain dehydrogenase
Neospora caninum NCLIV_026580   hypothetical protein
Oryza sativa 9269206   Os10g0547950
Oryza sativa 4349944   Os11g0181700
Oryza sativa 4347912   Os09g0570300
Oryza sativa 4349945   Os11g0181800
Oryza sativa 4349296   Os10g0548000
Oryza sativa 4324493   Os01g0151700
Onchocerca volvulus OVOC6946   Dehydrogenase\/reductase SDR family member 13 homolog
Onchocerca volvulus OVOC7285   Dehydrogenase\/reductase SDR family member 13 homolog
Plasmodium berghei PBANKA_1124900   oxidoreductase, putative
Plasmodium falciparum PF3D7_0626100   oxidoreductase, short-chain dehydrogenase family, putative
Plasmodium knowlesi PKNH_1123700   putative oxidoreductase, short-chain dehydrogenase family, putative
Saccharomyces cerevisiae YOR246C   Env9p
Schistosoma japonicum Sjp_0088470   WW domain-containing oxidoreductase, putative
Schistosoma japonicum Sjp_0132490   Retinol dehydrogenase 12, putative
Schistosoma japonicum Sjp_0115480   expressed protein
Schistosoma japonicum Sjp_0203960   ko:K00100 retinol dehydrogenase 14 (all-trans/9-cis/11-cis) [EC:1.1.1.-], putative
Schistosoma japonicum Sjp_0214400   IPR002347,Glucose/ribitol dehydrogenase,domain-containing
Schistosoma japonicum Sjp_0218500   ko:K00100 retinol dehydrogenase 11 [EC:1.1.1.-], putative
Schistosoma japonicum Sjp_0036830   Retinol dehydrogenase 11, putative
Schistosoma japonicum Sjp_0078270   IPR002347,Glucose/ribitol dehydrogenase,domain-containing
Schistosoma japonicum Sjp_0036820   Retinol dehydrogenase 12, putative
Schistosoma japonicum Sjp_0083640   ko:K00100 retinol dehydrogenase [EC:1.1.1.-], putative
Schistosoma mansoni Smp_139680   short chain dehydrogenase
Schistosoma mansoni Smp_032370   short chain dehydrogenase
Schistosoma mansoni Smp_139700   retinal dehydrogenase
Schistosoma mansoni Smp_101730   short chain dehydrogenase
Schistosoma mansoni Smp_081430   short chain dehydrogenase
Schistosoma mansoni Smp_179830   short chain dehydrogenase
Schistosoma mansoni Smp_120070   short chain dehydrogenase
Schistosoma mansoni Smp_139690   short chain dehydrogenase
Schistosoma mansoni Smp_076580   short chain dehydrogenase
Schmidtea mediterranea mk4.011384.00  
Schmidtea mediterranea mk4.007652.02  
Schmidtea mediterranea mk4.004574.00   Retinol dehydrogenase 13
Schmidtea mediterranea mk4.023979.00  
Schmidtea mediterranea mk4.006860.02  
Schmidtea mediterranea mk4.003801.04  
Schmidtea mediterranea mk4.010707.00   Retinol dehydrogenase 13
Trypanosoma brucei gambiense Tbg972.9.8780   short-chain dehydrogenase, putative
Trypanosoma brucei Tb927.9.14070   short-chain dehydrogenase, putative
Trypanosoma congolense TcIL3000_9_6000   short-chain dehydrogenase, putative
Trypanosoma cruzi TcCLB.510759.10   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510763.30   hypothetical protein, conserved
Toxoplasma gondii TGME49_260460   oxidoreductase, putative
Theileria parva TP04_0605   oxidoreductase, putative
Theileria parva TP04_0606   oxidoreductase, putative
Trichomonas vaginalis TVAG_281110   short-chain dehydrogenases/reductase, putative
Trichomonas vaginalis TVAG_281120   short-chain dehydrogenase, putative
Trichomonas vaginalis TVAG_262850   short-chain dehydrogenases/reductase, putative
Trichomonas vaginalis TVAG_281090   short-chain dehydrogenase, putative
Trichomonas vaginalis TVAG_262820   conserved hypothetical protein
Trichomonas vaginalis TVAG_262830   hydroxyacyl dehydrogenase, putative
Trichomonas vaginalis TVAG_262900   short-chain dehydrogenase, putative

Essentiality

Rv0068 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu68 this record Mycobacterium tuberculosis non-essential nmpdr
mtu442 Mycobacterium tuberculosis non-essential nmpdr
mtu2298 Mycobacterium tuberculosis non-essential nmpdr
Tb09.211.4600 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.4600 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.4600 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.211.4600 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1124900 Plasmodium berghei Slow plasmo
TGME49_260460 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.
  • 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.
  • 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
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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

Druggability index (range: 0 to 1): 0.3


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

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0035 1 0.5
0.0114 1 0.5
0.0408 0.5144 0.5
0.0171 0.4063 0.5
0.0005 0.5 0.5
0.0057 0.284 0.6413
0.0039 1 0.5
0.0073 0.3811 1
0.0106 1 0.5
0.0009 1 0.5
0.0026 0.5 0.5
0.0408 0.5144 0.5
0.0068 1 0.5
0.0073 0.3811 1
0.0171 0.4063 0.5
0.0106 0.2872 0.4772
0.007 0.2916 1
0.0073 0.3141 0.4101
0.0009 0.5 0.5
0.0089 0.5 0.5
0.0004 0.5 0.5
0.0009 0.5 0.5
0.0064 0.3508 0.5
0.0005 0.5 0.5
0.0073 0.2873 0.3563
0.0408 0.5144 0.5
0.0196 0.8679 0.5
0.0222 0.5 0.5
0.0009 0.5 0.5
0.0131 0.5 0.5
0.0085 1 0.5
0.0066 0.3586 0.5
0.007 0.2916 1
0.0119 0.2746 0
0.0013 0.5 0.5
0.0032 1 1
0.004 0.5 0.5
0.0076 1 0.5
0.0004 0.5 0.5
0.0089 0.5 0.5
0.0106 1 1
0.0088 1 0.5
0.0009 0.7374 0.5
0.0088 0.6544 0.5
0.0004 0.5 0.5
0.0068 0.2585 0.5
0.0021 0.5 0.5
0.0097 1 1
0.0196 0.8679 0.5
0.016 0.577 1
0.016 0.577 1
0.0068 1 0.5
0.0114 1 0.5
0.0123 0.5 0.5
0.0021 0.3321 0.5
0.0132 0.3658 0.376
0.0102 0.7451 0.5
0.0046 0.3082 0.5
0.0084 0.4283 1
0.0019 0.4322 0.5
0.007 1 0.5
0.0012 0.5 0.5
0.0165 1 0.5
0.0058 0.3931 1
0.0056 0.875 1
0.0082 1 0.5
0.0067 0.3468 0.5
0.0012 0.5 0.5
0.0162 1 0.5
0.0106 0.5 0.5
0.0108 0.5 0.5
0.0157 0.5 0.5
0.0009 0.5 0.5
0.0027 0.5 0.5
0.0016 0.5 0.5
0.0009 0.5 0.5
0.0009 0.5 0.5
0.007 1 0.5
0.0053 1 0.5
0.0053 1 1
0.0004 0.5 0.5
0.0218 0.5 0.5
0.0058 1 1
0.0045 1 0.5
0.008 0.5 0.5
0.0196 0.8679 0.5
0.0093 0.5 0.5
0.007 1 0.5
0.007 0.2916 1
0.0056 1 0.5
0.0009 0.5 0.5
0.0004 0.5 0.5
0.011 0.3568 0.3299
0.0113 1 1
0.0009 0.5 0.5
0.0013 1 0.5
0.0073 0.4546 1
0.0021 0.3321 0.5
0.0004 0.5 0.5
0.0071 0.3141 0
0.0118 1 0.5
0.0097 0.4304 0.5
0.0087 0.5 0.5
0.0004 0.5 0.5
0.0402 1 1
0.0027 0.5 0.5

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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Gene identifier Rv0068 (Mycobacterium tuberculosis), Probable oxidoreductase
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