Detailed view for Rv3086

Basic information

TDR Targets ID: 5641
Mycobacterium tuberculosis, Probable zinc-type alcohol dehydrogenase AdhD (aldehyde reductase)

Source Database / ID:  Tuberculist 

pI: 4.8282 | Length (AA): 368 | MW (Da): 38342 | 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

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

Gene Ontology

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

Structural information

Modbase 3D models:

There are 4 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
1 368 1vj0 (A) 4 365 27.00 0 1 1.2566 -0.14
1 367 1d1t (A) 7 373 32.00 0 1 1.44618 -0.54
4 366 5tnx (A) 11 371 34.00 0 1 1.43401 -0.55
5 367 1llu (A) 9 339 36.00 0 1 1.28201 0.07

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 20-40% 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_127257)

Species Accession Gene Product
Arabidopsis thaliana AT1G77120   alcohol dehydrogenase 1
Arabidopsis thaliana AT5G43940   alcohol dehydrogenase class-3
Arabidopsis thaliana AT5G63620   GroES-like zinc-binding alcohol dehydrogenase family protein
Brugia malayi Bm1_52445   Alcohol dehydrogenase class III
Candida albicans CaO19.7600   similar to C termini of C.maltosa FDH1 and S. cerevisiae SFA1 (YDL168W) glutathione-dependent formaldehyde dehydrogenase, long-c
Caenorhabditis elegans CELE_H24K24.3   Protein H24K24.3, isoform B
Caenorhabditis elegans CELE_Y50D4C.2   Protein Y50D4C.2
Dictyostelium discoideum DDB_G0281865   alcohol dehydrogenase, class 3
Drosophila melanogaster Dmel_CG6598   Formaldehyde dehydrogenase
Escherichia coli b0356   alcohol dehydrogenase class III/glutathione-dependent formaldehyde dehydrogenase
Homo sapiens ENSG00000187758   alcohol dehydrogenase 1A (class I), alpha polypeptide
Homo sapiens ENSG00000196616   alcohol dehydrogenase 1B (class I), beta polypeptide
Homo sapiens ENSG00000197894   alcohol dehydrogenase 5 (class III), chi polypeptide
Homo sapiens ENSG00000248144   alcohol dehydrogenase 1C (class I), gamma polypeptide
Loa Loa (eye worm) LOAG_03095   alcohol dehydrogenase class III
Mycobacterium leprae ML1784   Probable S-nitrosomycothiol reductase MscR
Mus musculus 100417514   alcohol dehydrogenase 6B (class V)
Mus musculus ENSMUSG00000053054   alcohol dehydrogenase 6A (class V)
Mus musculus ENSMUSG00000074207   alcohol dehydrogenase 1 (class I)
Mus musculus ENSMUSG00000028138   alcohol dehydrogenase 5 (class III), chi polypeptide
Mycobacterium tuberculosis Rv3086   Probable zinc-type alcohol dehydrogenase AdhD (aldehyde reductase)
Mycobacterium tuberculosis Rv0761c   Possible zinc-containing alcohol dehydrogenase NAD dependent AdhB
Mycobacterium tuberculosis Rv0162c   Probable zinc-type alcohol dehydrogenase (E subunit) AdhE1
Mycobacterium ulcerans MUL_4872   zinc-type alcohol dehydrogenase AdhD
Mycobacterium ulcerans MUL_1292   zinc-dependent alcohol dehydrogenase AdhE2
Mycobacterium ulcerans MUL_3861   zinc-containing alcohol dehydrogenase NAD dependent AdhB
Mycobacterium ulcerans MUL_0470   zinc-containing alcohol dehydrogenase NAD-dependent AdhB
Mycobacterium ulcerans MUL_4777   zinc-dependent alcohol dehydrogenase
Neospora caninum NCLIV_055560   alcohol dehydrogenase class III, putative
Oryza sativa 4344469   Os08g0109200
Oryza sativa 4350053   Os11g0210300
Oryza sativa 4331130   Os02g0815500
Oryza sativa 4350054   Os11g0210500
Onchocerca volvulus OVOC6614   Putative alcohol dehydrogenase
Saccharomyces cerevisiae YDL168W   bifunctional alcohol dehydrogenase/S-(hydroxymethyl)glutathione dehydrogenase
Schistosoma japonicum Sjp_0102900   Alcohol dehydrogenase class-3, putative
Schistosoma japonicum Sjp_0101110   Alcohol dehydrogenase class-3, putative
Schistosoma japonicum Sjp_0313140   ko:K00001 alcohol dehydrogenase [EC1.1.1.1], putative
Schistosoma mansoni Smp_044440   alcohol dehydrogenase
Schmidtea mediterranea mk4.001010.01   Putative alcohol dehydrogenase
Toxoplasma gondii TGME49_311780   Zn-containing alcohol dehydrogenase

Essentiality

Rv3086 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3139 this record Mycobacterium tuberculosis non-essential nmpdr
b0356 Escherichia coli non-essential goodall
TGME49_311780 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

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
Species Known druggable target Linked compounds Reference
Homo sapiens alcohol dehydrogenase 5 (class III), chi polypeptide Compounds References
Homo sapiens alcohol dehydrogenase 1B (class I), beta polypeptide Compounds References
Homo sapiens alcohol dehydrogenase 1C (class I), gamma polypeptide Compounds References
Equus caballus Alcohol dehydrogenase Compounds References
Homo sapiens alcohol dehydrogenase 1A (class I), alpha polypeptide Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Sorbitol dehydrogenase 357 aa 26.1% 352 aa Compounds References

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0088 0.5269 0.5269
0.0365 0.4615 0.8043
0.0841 0.9538 1
0.0943 1 1
0.023 0.2814 0.3172
0.0682 0.5861 0.939
0.0088 1 1
0.0265 1 1
0.0088 1 1
0.0088 1 1
0.0376 0.4347 0.5169
0.0088 1 1
0.0228 0.271 1
0.0072 0.4026 1
0.0078 0.3151 0.3088
0.1005 0.2836 1
0.0234 1 1
0.0088 1 1
0.1005 0.2836 1
0.1212 0.647 1
0.0462 1 1
0.1184 1 1
0.0917 1 1
0.0088 1 1
0.1388 0.5248 1
0.0088 1 1
0.1388 0.5248 1
0.0222 0.6062 1
0.1005 0.2836 1
0.1388 0.5248 1
0.0353 1 1
0.0462 1 1
0.0088 1 1
0.0462 1 1
0.0177 1 1
0.0088 1 1
0.1388 0.5248 1
0.0088 0.5216 1
0.1319 0.5007 1
0.0088 1 1
0.015 0.4669 0.5047
0.0088 1 1
0.1005 0.2836 1
0.0246 1 1
0.023 0.2814 0.3172
0.0088 1 1
0.1265 1 1
0.0147 0.4528 1
0.0157 1 1
0.1319 0.5007 1
0.1005 0.2836 1
0.1054 0.9092 1
0.0156 0.4777 1
0.0088 1 1
0.067 0.3779 0.4722
0.0365 0.46 0.8035
0.0088 1 1
0.0365 0.4222 0.5093
0.0177 1 1
0.0088 1 1
0.0536 1 1
0.0228 0.7436 1
0.0147 0.4528 1
0.0462 1 1
0.023 0.2814 0.3172
0.1005 0.2836 1
0.0085 0.4513 0.1174
0.0088 1 1
0.0088 1 1
0.0088 1 1
0.1388 0.5248 1
0.0217 1 1
0.0147 1 1
0.0088 1 1
0.0143 0.6967 1
0.023 0.2814 0.3172
0.0088 1 1
0.1212 0.647 1
0.0177 1 1
0.0088 1 1
0.0154 0.4414 1
0.0353 1 1
0.0156 0.4777 1
0.0088 1 1
0.0235 0.5394 1
0.0679 0.4112 0.4095
0.0088 1 1
0.0265 1 1
0.0088 1 1
0.0088 1 1
0.0734 0.9048 1
0.1061 1 1
0.023 0.2814 0.3172
0.0088 1 1
0.0228 0.3497 1
0.0734 0.9048 1
0.0164 0.7858 1
0.1005 0.2836 1
0.0228 0.2642 1
0.0088 1 1
0.0088 1 1

Assayability

Assay information

  • Assay for Hydroxysteroid Dehyrogenase (1.1.1.- ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

7 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 Rv3086 (Mycobacterium tuberculosis), Probable zinc-type alcohol dehydrogenase AdhD (aldehyde reductase)
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