Detailed view for EHI_024420

Basic information

TDR Targets ID: 802814
Entamoeba histolytica, D-hydantoinase, putative
Source Database / ID:  AmoebaDB  

pI: 5.1207 | Length (AA): 460 | MW (Da): 50615 | 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

PF01979   Amidohydrolase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016810   hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds  
GO:0005737   cytoplasm  
GO:0016787   hydrolase activity  

Metabolic Pathways

Pyrimidine metabolism (KEGG)
Global map (KEGG)

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
1 452 1k1d (A) 1 457 42.00 0 1 1.56991 -1.05
2 460 3dc8 (A) 2 462 38.00 0 1 1.52513 -0.89
2 453 2ftw (A) 9 467 36.00 0 1 1.46151 -0.65
4 452 4lcq (A) 8 463 38.00 0 1 1.54479 -1.16
15 92 2ogj (A) 32 105 46.00 0.15 0.25 0.301265 2.06

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 Trophozoite, Rahman HM-1 IMSS Trophozoite. Hon CC
Show/Hide expression data references
  • Hon CC Transcriptomics of virulent and avirulent strains

Orthologs

Ortholog group members (OG5_127801)

Species Accession Gene Product
Arabidopsis thaliana AT5G12200   pyrimidine 2
Brugia malayi Bm1_08830   Amidohydrolase family protein
Caenorhabditis elegans CELE_R06C7.3   Protein DHP-1
Caenorhabditis elegans CELE_C47E12.8   Protein DHP-2
Dictyostelium discoideum DDB_G0269246   pyrimidine hydrase
Drosophila melanogaster Dmel_CG1411   Collapsin Response Mediator Protein
Escherichia coli b2873   D-stereospecific phenylhydantoinase
Echinococcus granulosus EgrG_000953400   dihydropyrimidinase
Echinococcus granulosus EgrG_001020900   dihydropyrimidinase protein 4
Entamoeba histolytica EHI_024420   D-hydantoinase, putative
Echinococcus multilocularis EmuJ_000953400   dihydropyrimidinase
Echinococcus multilocularis EmuJ_001020900   dihydropyrimidinase protein 4
Homo sapiens ENSG00000072832   collapsin response mediator protein 1
Homo sapiens ENSG00000113657   dihydropyrimidinase-like 3
Homo sapiens ENSG00000092964   dihydropyrimidinase-like 2
Homo sapiens ENSG00000147647   dihydropyrimidinase
Homo sapiens ENSG00000151640   dihydropyrimidinase-like 4
Loa Loa (eye worm) LOAG_13121   amidohydrolase
Loa Loa (eye worm) LOAG_13448   amidohydrolase
Mus musculus ENSMUSG00000022304   dihydropyrimidinase
Mus musculus ENSMUSG00000025478   dihydropyrimidinase-like 4
Mus musculus ENSMUSG00000029121   collapsin response mediator protein 1
Mus musculus ENSMUSG00000024501   dihydropyrimidinase-like 3
Mus musculus ENSMUSG00000022048   dihydropyrimidinase-like 2
Oryza sativa 4327558   Os01g0807900
Schistosoma japonicum Sjp_0056150   ko:K07528 dihydropyrimidinase-like 2, putative
Schistosoma mansoni Smp_085110.3   dihydropyrimidinase (M38 family)
Schistosoma mansoni Smp_085110.2   dihydropyrimidinase related protein-2 (M38 family)
Schistosoma mansoni Smp_085110.4   dihydropyrimidinase (M38 family)
Schmidtea mediterranea mk4.000141.02  
Schmidtea mediterranea mk4.001182.04   Collapsin response mediator protein
Schmidtea mediterranea mk4.006627.01   Dihydropyrimidinase-related protein 5
Trichomonas vaginalis TVAG_384390   aminohydrolase, putative

Essentiality

EHI_024420 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b2873 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.

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 EHI_024420 (Entamoeba histolytica), D-hydantoinase, putative
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