Detailed view for PF3D7_0820700

Basic information

TDR Targets ID: 978
Plasmodium falciparum, 2-oxoglutarate dehydrogenase E1 component
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.8177 | Length (AA): 1038 | MW (Da): 121150 | 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

PF00676   Dehydrogenase E1 component
PF02779   Transketolase, pyrimidine binding domain
PF16870   2-oxoglutarate dehydrogenase C-terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0016624   oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor  
GO:0006103   2-oxoglutarate metabolic process  
GO:0004591   oxoglutarate dehydrogenase (succinyl-transferring) activity  
GO:0005759   mitochondrial matrix  
GO:0030976   thiamin pyrophosphate binding  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  
GO:0006099   tricarboxylic acid cycle  
GO:0006096   glycolysis  

Structural information

Modbase 3D models:

There are 10 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
35 559 1v5e (A) 137 592 12.00 0 0.86 0.2 0.68
143 605 1qs0 (A) 3 406 14.00 0 1 0.37 0.21
200 611 1w85 (A) 6 366 17.00 0 1 0.41 -0.08
221 609 1umd (A) 7 365 16.00 0 1 0.48 -0.51
8 45 1bbo (A) 15 52 13.00 0.012 0.01 0.167809 -0.25
19 55 2eos (A) 8 41 6.00 0.34 0.01 -0.0611545 0.53
106 1022 2xt6 (A) 349 1227 38.00 0 1 1.24783 0.08
122 1024 2jgd (A) 87 933 42.00 0 1 1.29334 -0.21
125 1021 2xt6 (A) 368 1226 43.00 0 1 1.25526 -0.2
581 1024 2jgd (A) 523 933 34.00 0 1 0.759946 0.03

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 sporozoite, Oocyst, Sporozoite. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early schizont, late trophozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, gametocyte, early trophozoite, Ring. Otto TD PlasmoDB Zanghi G
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_126779)

Species Accession Gene Product
Arabidopsis thaliana AT5G65750   2-oxoglutarate dehydrogenase, E1 component
Arabidopsis thaliana AT3G55410   2-oxoglutarate dehydrogenase, E1 component
Babesia bovis BBOV_I002070   2-oxoglutarate dehydrogenase E1 component, putative
Brugia malayi Bm1_31540   2-oxoglutarate dehydrogenase E1 component, mitochondrial precursor
Candida albicans CaO19.6165   2-Oxoglutarate dehydrogenase complex E1 component
Caenorhabditis elegans CELE_T22B11.5   Protein OGDH-1
Caenorhabditis elegans CELE_ZK836.2   Protein ZK836.2, isoform B
Chlamydia trachomatis CT_054   oxoglutarate dehydrogenase
Dictyostelium discoideum DDB_G0280353   2-oxoglutarate dehydrogenase E1 component
Dictyostelium discoideum DDB_G0288127   2-oxoglutarate dehydrogenase, E1 subunit
Drosophila melanogaster Dmel_CG1544   CG1544 gene product from transcript CG1544-RA
Drosophila melanogaster Dmel_CG11661   Neural conserved at 73EF
Drosophila melanogaster Dmel_CG33791   CG33791 gene product from transcript CG33791-RB
Escherichia coli b0726   2-oxoglutarate decarboxylase, thiamine triphosphate-binding
Echinococcus granulosus EgrG_000429700   2 oxoglutarate dehydrogenase
Echinococcus multilocularis EmuJ_000429700   2 oxoglutarate dehydrogenase
Homo sapiens ENSG00000197444   oxoglutarate dehydrogenase-like
Homo sapiens ENSG00000181192   dehydrogenase E1 and transketolase domain containing 1
Homo sapiens ENSG00000105953   oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)
Leishmania braziliensis LbrM.35.3700   2-oxoglutarate dehydrogenase E1 component, putative
Leishmania braziliensis LbrM.27.0960   2-oxoglutarate dehydrogenase subunit, putative
Leishmania donovani LdBPK_270740.1   2-oxoglutarate dehydrogenase subunit, putative
Leishmania donovani LdBPK_363630.1   2-oxoglutarate dehydrogenase E1 component, putative
Leishmania infantum LinJ.27.0740   2-oxoglutarate dehydrogenase subunit, putative
Leishmania infantum LinJ.36.3630   2-oxoglutarate dehydrogenase E1 component, putative
Leishmania major LmjF.36.3470   2-oxoglutarate dehydrogenase E1 component, putative
Leishmania major LmjF.27.0880   2-oxoglutarate dehydrogenase subunit, putative
Leishmania mexicana LmxM.36.3470   2-oxoglutarate dehydrogenase E1 component, putative
Leishmania mexicana LmxM.27.0880   2-oxoglutarate dehydrogenase subunit, putative
Loa Loa (eye worm) LOAG_02520   2-oxoglutarate dehydrogenase E1 component
Mycobacterium leprae ML1095c   PROBABLE 2-OXOGLUTARATE DEHYDROGENASE SUCA (Alpha-ketoglutarate dehydrogenase)
Mus musculus ENSMUSG00000025815   dehydrogenase E1 and transketolase domain containing 1
Mus musculus ENSMUSG00000020456   oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)
Mus musculus ENSMUSG00000021913   oxoglutarate dehydrogenase-like
Mycobacterium tuberculosis Rv1248c   Multifunctional alpha-ketoglutarate metabolic enzyme
Mycobacterium ulcerans MUL_4500   alpha-ketoglutarate decarboxylase
Neospora caninum NCLIV_018800   hypothetical protein
Oryza sativa 4344403   Os07g0695800
Oryza sativa 4335673   Os04g0390000
Onchocerca volvulus OVOC11286  
Plasmodium berghei PBANKA_0710100   2-oxoglutarate dehydrogenase E1 component, putative
Plasmodium falciparum PF3D7_0820700   2-oxoglutarate dehydrogenase E1 component
Plasmodium knowlesi PKNH_1314700   2-oxoglutarate dehydrogenase E1 component, putative
Plasmodium vivax PVX_089325   2-oxoglutarate dehydrogenase E1 component, mitochondrial precursor, putative
Plasmodium yoelii PY02421   2-oxoglutarate dehydrogenase, E1 component
Saccharomyces cerevisiae YIL125W   alpha-ketoglutarate dehydrogenase KGD1
Schistosoma japonicum Sjp_0073030   ko:K00164 2-oxoglutarate dehydrogenase E1 component [EC1.2.4.2], putative
Schistosoma mansoni Smp_044970   2-oxoglutarate dehydrogenase
Schmidtea mediterranea mk4.000452.05   Probable 2-oxoglutarate dehydrogenase E1 component DHKTD1 homolog, mitochondrial
Schmidtea mediterranea mk4.001673.03   2-oxoglutarate dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.000452.06  
Schmidtea mediterranea mk4.001673.04   2-oxoglutarate dehydrogenase, mitochondrial
Trypanosoma brucei gambiense Tbg972.11.11200   2-oxoglutarate dehydrogenase E1 component, putative
Trypanosoma brucei gambiense Tbg972.11.1540   2-oxoglutarate dehydrogenase subunit, putative
Trypanosoma brucei Tb927.11.1450   2-oxoglutarate dehydrogenase E1 component, putative
Trypanosoma brucei Tb927.11.9980   2-oxoglutarate dehydrogenase E1 component, putative
Trypanosoma congolense TcIL3000.11.1340   2-oxoglutarate dehydrogenase subunit, putative
Trypanosoma cruzi TcCLB.506337.70   2-oxoglutarate dehydrogenase E1 component, putative
Trypanosoma cruzi TcCLB.510797.10   2-oxoglutarate dehydrogenase subunit, putative
Trypanosoma cruzi TcCLB.503793.10   2-oxoglutarate dehydrogenase subunit, putative
Trypanosoma cruzi TcCLB.510717.30   2-oxoglutarate dehydrogenase E1 component, putative
Toxoplasma gondii TGME49_244200   2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor, putative
Theileria parva TP03_0124   2-oxoglutarate dehydrogenase e1 component, putative
Wolbachia endosymbiont of Brugia malayi Wbm0395   2-oxoglutarate dehydrogenase E1

Essentiality

PF3D7_0820700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.1740 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.1740 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.1740 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.1740 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb11.47.0004 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.47.0004 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.47.0004 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.47.0004 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0726 Escherichia coli essential goodall
CELE_T22B11.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_T22B11.5 Caenorhabditis elegans larval arrest wormbase
CELE_T22B11.5 Caenorhabditis elegans larval lethal wormbase
CELE_T22B11.5 Caenorhabditis elegans slow growth wormbase
CELE_T22B11.5 Caenorhabditis elegans sterile wormbase
PBANKA_0710100 Plasmodium berghei Dispensable plasmo
TGME49_244200 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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

  • Assay for α-Ketoglutarate Dehydrogenase (1.2.4.2 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

  • Reagent:
  • Target Type Source Notes
    PF3D7_0820700 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Plasmodium falciparum ( 1 )

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier PF3D7_0820700 (Plasmodium falciparum), 2-oxoglutarate dehydrogenase E1 component
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