Detailed view for PF3D7_0514600

Basic information

TDR Targets ID: 4177
Plasmodium falciparum, ribose-5-phosphate isomerase, putative

Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.1886 | Length (AA): 236 | MW (Da): 26205 | Paralog Number: 0

Signal peptide: N | 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

PF06026   Ribose 5-phosphate isomerase A (phosphoriboisomerase A)

Gene Ontology

Mouse over links to read term descriptions.
GO:0009052   pentose-phosphate shunt, non-oxidative branch  
GO:0004751   ribose-5-phosphate isomerase activity  

Structural information

Modbase 3D models:

There are 3 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
1 233 2f8m (A) 1 233 99.99 0 1 2.32 -2.5
1 233 1lk5 (A) 3 229 37.00 0 1 1.5 -1.83
1 233 2f8m (A) 1 233 99.99 0 1 2.25019 -1.74

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:

  • 2F8M:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 24 hs, gametocyte, sporozoite, early ring, early trophozoite, late ring, late trophozoite, Oocyst, Ring, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 32 hs, merozoite, early schizont, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 16 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Sporozoite, Male Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs. Otto TD
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_127414)

Species Accession Gene Product
Arabidopsis thaliana AT2G01290   ribose 5-phosphate isomerase A
Arabidopsis thaliana AT3G04790   ribose 5-phosphate isomerase A
Arabidopsis thaliana AT1G71100   ribose 5-phosphate isomerase A
Babesia bovis BBOV_III002460   ribose 5-phosphate isomerase A family protein
Brugia malayi Bm1_57600   ribose 5-phosphate isomerase
Candida albicans CaO19.1701   similar to S. cerevisiae RKI1 (YOR095C) pentose phosphate shunt enzyme ribose-5-phosphate ketol-isomerase
Candida albicans CaO19.9268   similar to S. cerevisiae RKI1 (YOR095C) pentose phosphate shunt enzyme ribose-5-phosphate ketol-isomerase
Caenorhabditis elegans CELE_B0280.3   Protein RPIA-1
Chlamydia trachomatis CT_213   ribose-5-phosphate isomerase A
Dictyostelium discoideum DDB_G0276711   ribose-5-phosphate isomerase
Drosophila melanogaster Dmel_CG30410   Ribose-5-phosphate isomerase
Escherichia coli b2914   ribose 5-phosphate isomerase, constitutive
Echinococcus granulosus EgrG_001185200   integrator complex subunit 2
Echinococcus granulosus EgrG_001185300   ribose 5 phosphate isomerase
Echinococcus multilocularis EmuJ_001185300   ribose 5 phosphate isomerase
Echinococcus multilocularis EmuJ_001185200   integrator complex subunit 2
Homo sapiens ENSG00000153574   ribose 5-phosphate isomerase A
Loa Loa (eye worm) LOAG_04787   hypothetical protein
Loa Loa (eye worm) LOAG_03696   ribose 5-phosphate isomerase
Mus musculus ENSMUSG00000053604   ribose 5-phosphate isomerase A
Neospora caninum NCLIV_015970   Ribose 5-phosphate isomerase A (EC 5.3.1.6), related
Oryza sativa 4342543   Os07g0176900
Oryza sativa 4335430   Os04g0306400
Plasmodium berghei PBANKA_1114200   ribose-5-phosphate isomerase, putative
Plasmodium falciparum PF3D7_0514600   ribose-5-phosphate isomerase, putative
Plasmodium knowlesi PKNH_1018500   ribose-5-phosphate isomerase, putative
Plasmodium vivax PVX_080515   ribose 5-phosphate epimerase, putative
Plasmodium yoelii PY07185   ribose 5-phosphate isomerase
Saccharomyces cerevisiae YOR095C   ribose-5-phosphate isomerase RKI1
Schistosoma japonicum Sjp_0214860   ko:K01807 ribose 5-phosphate isomerase A [EC5.3.1.6A], putative
Schistosoma japonicum Sjp_0012910   Integrator complex subunit 2, putative
Schistosoma japonicum Sjp_0134990   Ribose-5-phosphate isomerase, putative
Schistosoma mansoni Smp_148770   ribose-5-phosphate isomerase
Schmidtea mediterranea mk4.029320.00  
Toxoplasma gondii TGME49_239310   ribulose 5-phosphate isomerase
Treponema pallidum TP0616   ribose-5-phosphate isomerase A
Theileria parva TP03_0628   ribose 5-phosphate epimerase, putative

Essentiality

PF3D7_0514600 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
YOR095C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1114200 Plasmodium berghei Essential plasmo
TGME49_239310 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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 Phosphoriboisomerase (5.3.1.6 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

  • Pfal008434AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pfal008434; Recombinant protein: full-length; Source: P falciparum; ribose 5-phosphate isomerase, putative ;

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier PF3D7_0514600 (Plasmodium falciparum), ribose-5-phosphate isomerase, putative
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