Detailed view for Rv0873

Basic information

TDR Targets ID: 6022
Mycobacterium tuberculosis, Probable acyl-CoA dehydrogenase FadE10
Source Database / ID:  Tuberculist 

pI: 5.6532 | Length (AA): 650 | MW (Da): 70745 | Paralog Number: 0

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

PF00441   Acyl-CoA dehydrogenase, C-terminal domain
PF02770   Acyl-CoA dehydrogenase, middle domain
PF02771   Acyl-CoA dehydrogenase, N-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016627   oxidoreductase activity, acting on the CH-CH group of donors  
GO:0003995   acyl-CoA dehydrogenase activity  
GO:0050660   FAD binding  
GO:0016491   oxidoreductase activity  
GO:0009055   electron carrier activity  
GO:0008152   metabolic process  
GO:0055114   oxidation reduction  

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
25 619 3b96 (A) 29 614 30.00 0 1 1.21788 -0.26
50 436 4m9a (A) 2 377 38.00 0 1 1.06698 -0.62
55 438 4l1f (A) 7 379 32.00 0 1 1.01437 -0.64
57 438 1buc (A) 9 383 31.00 0 1 0.988292 -0.51

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

Orthologs

Ortholog group members (OG5_129728)

Species Accession Gene Product
Brugia malayi Bm1_24055   Acyl-CoA dehydrogenase, C-terminal domain containing protein
Caenorhabditis elegans CELE_E04F6.5   Protein ACDH-12, isoform B
Drosophila melanogaster Dmel_CG7461   CG7461 gene product from transcript CG7461-RC
Echinococcus granulosus EgrG_000315200   acyl coenzyme A dehydrogenase family
Echinococcus multilocularis EmuJ_000315200  
Homo sapiens ENSG00000177646   acyl-CoA dehydrogenase family, member 9
Homo sapiens ENSG00000072778   acyl-CoA dehydrogenase, very long chain
Loa Loa (eye worm) LOAG_00695   acyl-CoA dehydrogenase domain-containing protein
Mus musculus ENSMUSG00000018574   acyl-Coenzyme A dehydrogenase, very long chain
Mus musculus ENSMUSG00000027710   acyl-Coenzyme A dehydrogenase family, member 9
Mycobacterium tuberculosis Rv0873   Probable acyl-CoA dehydrogenase FadE10
Mycobacterium ulcerans MUL_0278   acyl-CoA dehydrogenase FadE10
Schistosoma japonicum Sjp_0065970   ko:K00257 acyl-Coenzyme A dehydrogenase family, member 9 [EC:1.3.99.-], putative
Schistosoma mansoni Smp_122930   acyl-CoA dehydrogenase
Schmidtea mediterranea mk4.031254.00   Very long-chain specific acyl-CoA dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.007519.01   Very long-chain specific acyl-CoA dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.020502.00  
Schmidtea mediterranea mk4.001232.01   Very long-chain specific acyl-CoA dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.000062.03  
Schmidtea mediterranea mk4.007519.02  

Essentiality

Rv0873 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu889 this record Mycobacterium tuberculosis non-essential nmpdr
CELE_E04F6.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_E04F6.5 Caenorhabditis elegans slow growth wormbase
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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
  • 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.

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.

User comments

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Gene identifier Rv0873 (Mycobacterium tuberculosis), Probable acyl-CoA dehydrogenase FadE10
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