Detailed view for LmjF.36.1140

Basic information

TDR Targets ID: 21645
Leishmania major, short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.2229 | Length (AA): 305 | MW (Da): 32973 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: N | 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

PF00725   3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
PF02737   3-hydroxyacyl-CoA dehydrogenase, NAD binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0070403   NAD binding  

GO:0050662   coenzyme binding  
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003857   3-hydroxyacyl-CoA dehydrogenase activity  
GO:0003824   catalytic activity  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  
GO:0006631   fatty acid metabolic process  

Structural information

Modbase 3D models:

There are 5 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
4 304 1wdk (A) 308 607 33.00 0 1 1.37 -1.03
7 297 1f0y (A) 12 302 54.00 0 1 1.63 -1.64
2 296 3rqs (B) 16 313 54.00 0.00000000012 1 1.56811 -0.75
5 296 4j0e (A) 3 296 46.00 0 1 1.57398 -0.88
204 292 3ctv (A) 20 103 38.00 0 1 0.792403 -0.98

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 80-100% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127943)

Species Accession Gene Product
Arabidopsis thaliana AT3G15290   3-hydroxyacyl-CoA dehydrogenase family protein
Brugia malayi Bm1_14640   Probable 3-hydroxyacyl-CoA dehydrogenase B0272.3, putative
Brugia malayi Bm1_21570   Probable 3-hydroxyacyl-CoA dehydrogenase B0272.3, putative
Caenorhabditis elegans CELE_B0272.3   Protein B0272.3
Caenorhabditis elegans CELE_F54C8.1   Protein F54C8.1
Dictyostelium discoideum DDB_G0280465   hypothetical protein
Escherichia coli b1395   3-hydroxyadipyl-CoA dehydrogenase, NAD+-dependent
Escherichia coli b3846   fused 3-hydroxybutyryl-CoA epimerase/delta(3)-cis-delta(2)-trans-enoyl-CoA isomerase/enoyl-CoA hydratase/3-hydroxyacyl-CoA dehyd
Echinococcus granulosus EgrG_000615700   hydroxyacyl coenzyme a dehydrogenase
Echinococcus multilocularis EmuJ_000615700   hydroxyacyl coenzyme a dehydrogenase
Homo sapiens ENSG00000138796   hydroxyacyl-CoA dehydrogenase
Leishmania braziliensis LbrM.35.1270   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Leishmania donovani LdBPK_361200.1   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Leishmania infantum LinJ.36.1200   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Leishmania major LmjF.36.1140   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Leishmania mexicana LmxM.36.1140   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Loa Loa (eye worm) LOAG_06485   hydroxyacyl-coenzyme A dehydrogenase
Mycobacterium leprae ML2461c   PROBABLE 3-HYDROXYBUTYRYL-CoA DEHYDROGENASE FADB2 (BETA-HYDROXYBUTYRYL-CoA DEHYDROGENASE) (BHBD)
Mus musculus ENSMUSG00000027984   hydroxyacyl-Coenzyme A dehydrogenase
Mycobacterium tuberculosis Rv0468   3-hydroxybutyryl-CoA dehydrogenase FadB2 (beta-hydroxybutyryl-CoA dehydrogenase) (BHBD)
Mycobacterium ulcerans MUL_4537   3-hydroxybutyryl-CoA dehydrogenase
Neospora caninum NCLIV_032080   3-hydroxybutyryl-coA dehydrogenase, putative
Oryza sativa 4325632   Os01g0796400
Schmidtea mediterranea mk4.047423.04  
Schmidtea mediterranea mk4.000049.04   Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.041484.01  
Trypanosoma cruzi TcCLB.509717.90   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Trypanosoma cruzi TcCLB.510105.240   short chain 3-hydroxyacyl-CoA dehydrogenase, putative
Toxoplasma gondii TGME49_232090   3-hydroxyacyl-CoA dehydrogenase, NAD binding domain-containing protein
Trichomonas vaginalis TVAG_333090   3-hydroxyacyl-CoA dehyrogenase, putative

Essentiality

LmjF.36.1140 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b1395 Escherichia coli non-essential goodall
b3846 Escherichia coli non-essential goodall
CELE_F54C8.1 Caenorhabditis elegans embryonic lethal wormbase
TGME49_232090 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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

Druggability index (range: 0 to 1): 0.2

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

  • Assay for β-Hydroxyacyl-COA Dehydrogenase (1.1.1.35 ) 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 LmjF.36.1140 (Leishmania major), short chain 3-hydroxyacyl-CoA dehydrogenase, putative
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