Detailed view for Wbm0237

Basic information

TDR Targets ID: 233210
Wolbachia endosymbiont of Brugia malayi, nucleoside-diphosphate-sugar epimerase
Source Database / ID:  GenBank

pI: 10.2021 | Length (AA): 316 | MW (Da): 35547 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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

PF01370   NAD dependent epimerase/dehydratase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0050662   coenzyme binding  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0044237   cellular metabolic process  
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
1 316 1ek6 (A) 1 340 17.00 0 1 0.7 0.63
2 149 2z5l (A) 238 407 27.00 0.00000033 0.85 0.63 0.26
3 223 2a35 (A) 6 213 20.00 0 1 0.74 -0.33
4 313 2gas (A) 6 317 17.00 0.00000019 0.8 1.11 0.65

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_128491)

Species Accession Gene Product
Arabidopsis thaliana AT2G20360   NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 9
Brugia malayi Bm1_11415   NADH-ubiquinone oxidoreductase 39 kDa subunit, mitochondrial precursor
Candida albicans CaO19.1682   potential mitochondrial NADH-Ubiquinone Oxidoreductase Complex I subunit similar to N. crassa and mammalian 40kd subunits
Candida albicans CaO19.9251   potential mitochondrial NADH-Ubiquinone Oxidoreductase Complex I subunit similar to N. crassa and mammalian 40kd subunits
Caenorhabditis elegans CELE_Y53G8AL.2   Protein Y53G8AL.2
Dictyostelium discoideum DDB_G0272266   NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial
Drosophila melanogaster Dmel_CG6020   CG6020 gene product from transcript CG6020-RA
Echinococcus granulosus EgrG_000915700   NADH dehydrogenase ubiquinone 1 alpha
Echinococcus multilocularis EmuJ_000915700   NADH dehydrogenase (ubiquinone) 1 alpha
Homo sapiens 4704   NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9, 39kDa
Leishmania braziliensis LbrM.34.1930   hypothetical protein, conserved
Leishmania donovani LdBPK_352010.1   hypothetical protein, conserved
Leishmania infantum LinJ.35.2010   hypothetical protein, conserved
Leishmania major LmjF.35.2020   hypothetical protein, conserved
Leishmania mexicana LmxM.34.2020   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_08802   hypothetical protein
Loa Loa (eye worm) LOAG_10415   hypothetical protein
Mus musculus ENSMUSG00000000399   NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9
Oryza sativa 4331143   Os02g0816800
Onchocerca volvulus OVOC11747   NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial homolog
Schistosoma japonicum Sjp_0057210   NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial precursor, putative
Schistosoma japonicum Sjp_0304430   ko:K03953 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 9, putative
Schistosoma mansoni Smp_106080.2   NADH-ubiquinone oxidoreductase
Schistosoma mansoni Smp_106080.1   NADH-ubiquinone oxidoreductase
Schmidtea mediterranea mk4.021587.01   NADH dehydrogenase
Schmidtea mediterranea mk4.008682.00  
Schmidtea mediterranea mk4.001312.02   NADH dehydrogenase
Trypanosoma brucei gambiense Tbg972.9.9530   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.15380   nadh-ubiquinone oxidoreductase 39 kda subunit
Trypanosoma congolense TcIL3000_9_6470   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506241.160   hypothetical protein, conserved
Wolbachia endosymbiont of Brugia malayi Wbm0237   nucleoside-diphosphate-sugar epimerase

Essentiality

Wbm0237 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.244.2620 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.244.2620 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.244.2620 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.244.2620 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y53G8AL.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y53G8AL.2 Caenorhabditis elegans larval arrest wormbase
CELE_Y53G8AL.2 Caenorhabditis elegans slow growth wormbase
CELE_Y53G8AL.2 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
Species Known druggable target Linked compounds Reference
Homo sapiens NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9, 39kDa Compounds References
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

  • Assay for Cytochrome C Reductase (1.6.99.3 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

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 Wbm0237 (Wolbachia endosymbiont of Brugia malayi), nucleoside-diphosphate-sugar epimerase
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