Detailed view for PF3D7_0515000

Basic information

TDR Targets ID: 4181
Plasmodium falciparum, pre-mRNA-splicing factor CWC2, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.4227 | Length (AA): 848 | MW (Da): 98383 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF16131   Torus domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0046872   metal ion binding  
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 11 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
658 753 1x5t (A) 2 96 24.00 0 0.99 0.25 -0.91
659 745 1nu4 (A) 7 92 22.00 0.000000000045 0.96 0.55 -2.32
671 782 2adb (A) 187 295 23.00 0.0000012 0.29 0.36 -0.51
14 172 4h5y (A) 176 333 26.00 0.2 0.03 0.4136 -0.91
18 173 4gf2 (A) 558 730 31.00 0.28 0.03 0.462062 -1.03
35 153 3k29 (A) 18 146 29.00 0.27 0.06 0.40843 -2.1
530 740 3tp2 (B) 9 226 35.00 0 1 0.439921 0.31
666 719 1cvj (B) 98 154 36.00 0.73 1 0.566779 -0.61
308 344 1nay (A) 107 133 63.00 0.5 0.06 0.465478 -1.64
533 743 3tp2 (B) 9 226 35.00 0 1 0.438944 0.31
669 722 1cvj (B) 98 154 36.00 0.71 1 0.566455 -0.61

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 - 8 hs, intra-erythrocytic - 16 hs, Oocyst, Ring, Male Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, sporozoite, early ring, early trophozoite, late ring, Sporozoite, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, merozoite, early schizont, late schizont, late trophozoite. Otto TD PlasmoDB
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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_130975)

Species Accession Gene Product
Babesia bovis BBOV_II001210   hypothetical protein
Candida albicans CaO19.674   similar to spliceosome complex component
Candida albicans CaO19.8291   similar to spliceosome complex component
Cryptosporidium hominis Chro.60549   cell cycle control cwc2-related protein
Cryptosporidium parvum cgd6_4770   conserved hypothetical protein
Dictyostelium discoideum DDB_G0284563   pre-mRNA-splicing factor cwc2
Entamoeba histolytica EHI_126150   pre-mRNA-splicing factor cwc2, putative
Giardia lamblia GL50803_27880   hypothetical protein
Neospora caninum NCLIV_039950   Pre-mRNA splicing factor CWC2, related
Plasmodium berghei PBANKA_1114600   pre-mRNA-splicing factor CWC2, putative
Plasmodium falciparum PF3D7_0515000   pre-mRNA-splicing factor CWC2, putative
Plasmodium knowlesi PKNH_1018100   pre-mRNA-splicing factor CWC2, putative
Plasmodium vivax PVX_080495   RNA-binding protein, putative
Plasmodium yoelii PY03224   cell cycle control protein cwf2
Saccharomyces cerevisiae YDL209C   Cwc2p
Toxoplasma gondii TGME49_265320   hypothetical protein
Theileria parva TP04_0465   hypothetical protein

Essentiality

PF3D7_0515000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
YDL209C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1114600 Plasmodium berghei Essential plasmo
TGME49_265320 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

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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Gene identifier PF3D7_0515000 (Plasmodium falciparum), pre-mRNA-splicing factor CWC2, putative
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