Detailed view for PF3D7_1028300

Basic information

TDR Targets ID: 1351
Plasmodium falciparum, rRNA-processing protein EBP2, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.8199 | Length (AA): 315 | MW (Da): 37727 | 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

PF05890   Eukaryotic rRNA processing protein EBP2

Gene Ontology

Mouse over links to read term descriptions.
GO:0008150   biological_process  
GO:0005575   cellular_component  
GO:0003674   molecular_function  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

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
1 229 4tql (A) 31 221 32.00 0.11 0.31 0.667484 0.86
8 277 4hte (A) 261 546 23.00 0.81 0.66 0.847643 1.21
98 279 4uos (A) 2 184 19.00 0.061 0.04 0.753178 -0.78

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, merozoite, Oocyst. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, sporozoite, early ring, early trophozoite, late ring, late trophozoite, Ring, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile early schizont. PlasmoDB
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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_128088)

Species Accession Gene Product
Arabidopsis thaliana AT3G22660   putative rRNA-processing protein EBP2-like protein
Babesia bovis BBOV_I002800   conserved hypothetical protein
Brugia malayi Bm1_43510   Probable rRNA processing protein EBP2 homolog
Candida albicans CaO19.11968   similar to S. cerevisiae EBP2 (YKL172W) nucleolar protein required for pre-rRNA processing
Candida albicans CaO19.4492   similar to S. cerevisiae EBP2 (YKL172W) nucleolar protein required for pre-rRNA processing
Caenorhabditis elegans CELE_C18A3.3   Protein C18A3.3
Cryptosporidium hominis Chro.60398   hypothetical protein
Cryptosporidium parvum cgd6_3450   EBNA1 binding protein 2; nucleolar protein p40
Dictyostelium discoideum DDB_G0284817   hypothetical protein
Drosophila melanogaster Dmel_CG1542   CG1542 gene product from transcript CG1542-RA
Echinococcus granulosus EgrG_000413400   rRNA processing protein EBP2
Entamoeba histolytica EHI_055830   rRNA processing protein, putative
Entamoeba histolytica EHI_179050   rRNA processing protein, putative
Echinococcus multilocularis EmuJ_000413400   rRNA processing protein EBP2
Giardia lamblia GL50803_10810   Hypothetical protein
Homo sapiens ENSG00000117395   EBNA1 binding protein 2
Leishmania braziliensis LbrM.34.1730   hypothetical protein, conserved
Leishmania donovani LdBPK_351810.1   Eukaryotic rRNA processing protein EBP2, putative
Leishmania infantum LinJ.35.1810   hypothetical protein, conserved
Leishmania major LmjF.35.1820   hypothetical protein, conserved
Leishmania mexicana LmxM.34.1820   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03513   hypothetical protein
Mus musculus ENSMUSG00000028729   EBNA1 binding protein 2
Neospora caninum NCLIV_063500   hypothetical protein, conserved
Oryza sativa 4343215   Os07g0475800
Plasmodium berghei PBANKA_0512400   rRNA-processing protein EBP2, putative
Plasmodium falciparum PF3D7_1028300   rRNA-processing protein EBP2, putative
Plasmodium knowlesi PKNH_0612700   rRNA-processing protein EBP2, putative
Plasmodium vivax PVX_111305   rRNA-processing protein EBP2, putative
Plasmodium yoelii PY05509   hypothetical protein
Saccharomyces cerevisiae YKL172W   Ebp2p
Schistosoma japonicum Sjp_0217910   Probable rRNA-processing protein EBP2, putative
Schistosoma japonicum Sjp_0101950   expressed protein
Schistosoma mansoni Smp_160420   rRNA processing protein ebna1-binding protein-related
Schmidtea mediterranea mk4.001683.03   Probable rRNA-processing protein EBP2 homolog
Trypanosoma brucei gambiense Tbg972.9.9320   rRNA processing protein, putative
Trypanosoma brucei Tb927.9.15060   rRNA processing protein, putative
Trypanosoma congolense TcIL3000_9_6280   rRNA processing protein, putative
Trypanosoma cruzi TcCLB.510763.109   rRNA processing protein, putative
Trypanosoma cruzi TcCLB.509671.120   rRNA processing protein, putative
Toxoplasma gondii TGME49_246730   hypothetical protein
Theileria parva TP01_0567   hypothetical protein
Trichomonas vaginalis TVAG_047230   conserved hypothetical protein
Trichomonas vaginalis TVAG_467310   conserved hypothetical protein

Essentiality

PF3D7_1028300 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.244.2790 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.244.2790 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.244.2790 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.244.2790 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C18A3.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_C18A3.3 Caenorhabditis elegans larval arrest wormbase
YKL172W Saccharomyces cerevisiae inviable yeastgenome
TGME49_246730 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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
Species Known druggable target Linked compounds Reference
Influenza A virus (strain A/Wilson-Smith/1933 H1N1) Nucleoprotein Compounds References
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

  • Pfal005664AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pfal005664; Recombinant protein: full-length; Source: P falciparum; hypothetical protein, conserved ;

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 PF3D7_1028300 (Plasmodium falciparum), rRNA-processing protein EBP2, putative
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