Detailed view for Smp_018680

Basic information

TDR Targets ID: 283571
Schistosoma mansoni, isocitrate dehydrogenase
Source Database / ID:  GeneDB

pI: 8.7535 | Length (AA): 373 | MW (Da): 41345 | Paralog Number: 1

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

PF00180   Isocitrate/isopropylmalate dehydrogenase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016616   oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor  
GO:0004449   isocitrate dehydrogenase (NAD+) activity  
GO:0005739   mitochondrion  
GO:0051287   NAD binding  
GO:0000287   magnesium ion binding  
GO:0055114   oxidation reduction  
GO:0006099   tricarboxylic acid cycle  

Structural information

Modbase 3D models:

There are 2 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
36 370 3blx (B) 18 354 34.00 0.000000002 1 1.31902 -0.27
39 372 5gri (B) 15 346 52.00 0 1 1.61174 -1.13

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_128267)

Species Accession Gene Product
Arabidopsis thaliana AT4G35650   Isocitrate dehydrogenase [NAD] regulatory subunit 3
Arabidopsis thaliana AT4G35260   Isocitrate dehydrogenase [NAD] regulatory subunit 1
Arabidopsis thaliana AT2G17130   Isocitrate dehydrogenase [NAD] regulatory subunit 2
Brugia malayi Bm1_14945   isocitrate dehydrogenase [NAD] subunit beta, mitochondrial
Brugia malayi Bm1_37675   Isocitrate dehydrogenase subunit gamma, mitochondrial precursor
Candida albicans CaO19.12289   Mitochondrial isocitrate dehydrogenase1
Candida albicans CaO19.4826   Mitochondrial isocitrate dehydrogenase1
Caenorhabditis elegans CELE_C30F12.7   Protein IDHG-2
Caenorhabditis elegans CELE_C37E2.1   Protein IDHB-1
Caenorhabditis elegans CELE_F35G12.2   Protein IDHG-1
Dictyostelium discoideum DDB_G0293872   isocitrate dehydrogenase (NAD+)
Drosophila melanogaster Dmel_CG6439   CG6439 gene product from transcript CG6439-RA
Drosophila melanogaster Dmel_CG5028   CG5028 gene product from transcript CG5028-RB
Echinococcus granulosus EgrG_000537000   isocitrate dehydrogenase NAD
Echinococcus multilocularis EmuJ_000537000   isocitrate dehydrogenase (NAD+)
Homo sapiens ENSG00000101365   isocitrate dehydrogenase 3 (NAD+) beta
Homo sapiens ENSG00000067829   isocitrate dehydrogenase 3 (NAD+) gamma
Loa Loa (eye worm) LOAG_02269   isocitrate dehydrogenase gamma subunit
Mus musculus ENSMUSG00000002010   isocitrate dehydrogenase 3 (NAD+), gamma
Mus musculus ENSMUSG00000027406   isocitrate dehydrogenase 3 (NAD+) beta
Oryza sativa 4336169   Os04g0479200
Oryza sativa 4329858   Os02g0595500
Saccharomyces cerevisiae YNL037C   isocitrate dehydrogenase (NAD(+)) IDH1
Schistosoma japonicum Sjp_0058850   ko:K00030 isocitrate dehydrogenase (NAD+) [EC1.1.1.41], putative
Schistosoma japonicum Sjp_0028730   ko:K00030 isocitrate dehydrogenase (NAD+) [EC1.1.1.41], putative
Schistosoma mansoni Smp_056200   Isocitrate dehydrogenase [NAD] subunit gamma mitochondrial
Schistosoma mansoni Smp_018680   isocitrate dehydrogenase
Schmidtea mediterranea mk4.000314.03   Isocitrate dehydrogenase
Schmidtea mediterranea mk4.001252.14   Probable isocitrate dehydrogenase

Essentiality

Smp_018680 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F35G12.2 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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 Smp_018680 (Schistosoma mansoni), isocitrate dehydrogenase
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