Detailed view for PF3D7_1243800

Basic information

TDR Targets ID: 5475
Plasmodium falciparum, WD repeat-containing protein 82, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.0287 | Length (AA): 370 | MW (Da): 42733 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0048188   COMPASS complex  
GO:0005847   mRNA cleavage and polyadenylation specificity factor complex  
GO:0005515   protein binding  

Metabolic Pathways

mRNA surveillance pathway (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
18 328 1got (B) 44 340 13.00 0 0.78 1.04 -0.69
18 366 2h14 (A) 34 330 20.00 0 1 1.03 -0.11
7 366 2ymu (A) 79 412 21.00 0.0000033 0.95 1.09627 0.74
34 367 4ery (A) 50 331 28.00 0.000026 1 0.960003 0.25
309 366 3fm0 (A) 70 130 33.00 0.88 0.68 0.544057 -0.37

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 - 24 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late trophozoite, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile gametocyte, Oocyst, Sporozoite, Female Gametocyte, Male Gametocyte. PlasmoDB Zanghi G Lasonder E
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_128201)

Species Accession Gene Product
Arabidopsis thaliana AT5G66240   transducin/WD40 domain-containing protein
Arabidopsis thaliana AT5G14530   transducin/WD40 domain-containing protein
Babesia bovis BBOV_IV008010   conserved hypothetical protein
Brugia malayi Bm1_48420   Hypothetical 37.1 kDa Trp-Asp repeats containing protein in RAM2-ATP7intergenic region
Candida albicans CaO19.10306   WD40 repeat protein similar to S. cerevisiae SWD2 (YKL018W) subunit of the COMPASS histone methyltransferase
Candida albicans CaO19.2790   WD40 repeat protein similar to S. cerevisiae SWD2 (YKL018W) subunit of the COMPASS histone methyltransferase
Caenorhabditis elegans CELE_C33H5.7   Protein SWD-2.2
Cryptosporidium hominis Chro.80455   RIKEN cDNA 9430077D24 gene
Cryptosporidium parvum cgd8_3960   RIKEN cDNA 9430077D24 gene, putative
Dictyostelium discoideum DDB_G0278945   hypothetical protein
Drosophila melanogaster Dmel_CG17293   CG17293 gene product from transcript CG17293-RA
Echinococcus granulosus EgrG_000067200   WD repeat containing protein 82
Entamoeba histolytica EHI_140490   WD domain containing protein
Echinococcus multilocularis EmuJ_000067200   WD repeat containing protein 82
Homo sapiens ENSG00000164091   WD repeat domain 82
Loa Loa (eye worm) LOAG_01806   hypothetical protein
Loa Loa (eye worm) LOAG_11002   hypothetical protein
Mus musculus ENSMUSG00000020257   WD repeat domain containing 82
Neospora caninum NCLIV_056640   WD-40 repeat-containing protein, putative
Oryza sativa 4339488   Os05g0543300
Oryza sativa 4343770   Os07g0589400
Onchocerca volvulus OVOC1043  
Plasmodium berghei PBANKA_1457100   WD repeat-containing protein 82, putative
Plasmodium falciparum PF3D7_1243800   WD repeat-containing protein 82, putative
Plasmodium knowlesi PKNH_1463100   WD repeat-containing protein 82, putative
Plasmodium vivax PVX_101090   hypothetical protein, conserved
Plasmodium yoelii PY01212   Drosophila melanogaster GH09638p
Saccharomyces cerevisiae YKL018W   Swd2p
Schistosoma japonicum Sjp_0075180   WD repeat-containing protein 82, putative
Schistosoma mansoni Smp_151180   hypothetical protein
Schmidtea mediterranea mk4.003216.03  
Schmidtea mediterranea mk4.002286.02   Wdr82-2
Schmidtea mediterranea mk4.002286.03  
Toxoplasma gondii TGME49_313350   hypothetical protein
Theileria parva TP01_0986   hypothetical protein, conserved
Trichomonas vaginalis TVAG_016940   COMPASS component SWD2, putative

Essentiality

PF3D7_1243800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C33H5.7 Caenorhabditis elegans adult lethal wormbase
CELE_C33H5.7 Caenorhabditis elegans embryonic lethal wormbase
CELE_C33H5.7 Caenorhabditis elegans larval arrest wormbase
CELE_C33H5.7 Caenorhabditis elegans sterile wormbase
YKL018W Saccharomyces cerevisiae inviable yeastgenome
TGME49_313350 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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
  • 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.

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User comments

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Gene identifier PF3D7_1243800 (Plasmodium falciparum), WD repeat-containing protein 82, putative
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