Detailed view for PF3D7_0615700

Basic information

TDR Targets ID: 4508
Plasmodium falciparum, RNA and export factor binding protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.9039 | Length (AA): 156 | MW (Da): 18853 | 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)

Gene Ontology

Mouse over links to read term descriptions.
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 7 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
12 145 1cvj (A) 43 179 18.00 0 1 1.07 0.25
65 141 1no8 (A) 106 182 34.00 0 1 1.04 -1.59
2 142 2f3j (A) 17 153 26.00 0.000000029 0.97 1.14285 0.52
41 152 1x4a (A) 2 107 21.00 0.0015 1 0.981949 -0.2
51 122 2dgx (A) 546 615 37.00 0.26 1 0.851038 -0.83
59 137 2ywk (A) 5 83 19.00 0.0011 1 0.94481 -1.61
65 134 4a8x (A) 162 233 34.00 0.00021 1 0.988218 -1.33

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 - 48 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 - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, Sporozoite, Female Gametocyte. Otto TD Zanghi G Lasonder E
Show/Hide expression data references
  • 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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_127829)

Species Accession Gene Product
Arabidopsis thaliana AT5G02530   RNA-binding (RRM/RBD/RNP motifs) family protein
Arabidopsis thaliana AT5G59950   RNA recognition motif-containing protein
Babesia bovis BBOV_III010790   conserved hypothetical protein
Brugia malayi Bm1_19325   RNA and export factor binding protein 2
Brugia malayi Bm1_29220   RNA binding protein
Caenorhabditis elegans CELE_F23B2.6   Protein ALY-2
Caenorhabditis elegans CELE_M18.7   Protein ALY-3, isoform A
Dictyostelium discoideum DDB_G0285361   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG1101   RNA and export factor binding protein 1
Drosophila melanogaster Dmel_CG17031   RNA and export factor binding protein 2
Echinococcus granulosus EgrG_000091500   RNA and export factor binding protein 2
Echinococcus multilocularis EmuJ_000091500   RNA and export factor binding protein 2
Homo sapiens ENSG00000183684   Aly/REF export factor
Loa Loa (eye worm) LOAG_03885   RNA and export factor binding protein 2
Loa Loa (eye worm) LOAG_06665   RNA binding protein
Mus musculus ENSMUSG00000091779   predicted gene, 21293
Mus musculus ENSMUSG00000095161   predicted gene 4305
Mus musculus ENSMUSG00000090854   predicted gene 4340
Mus musculus ENSMUSG00000094144   predicted gene, 21312
Mus musculus ENSMUSG00000095022   predicted gene, 20765
Mus musculus ENSMUSG00000096640   predicted gene 4312
Mus musculus ENSMUSG00000096744   predicted gene 4307
Mus musculus ENSMUSG00000094314   predicted gene 4301
Mus musculus ENSMUSG00000091101   predicted gene 4302
Mus musculus ENSMUSG00000094228   predicted gene 4303
Mus musculus ENSMUSG00000060244   Aly/REF export factor 2
Mus musculus ENSMUSG00000097427   predicted gene 6763
Mus musculus 100505265   predicted gene 28645
Mus musculus ENSMUSG00000097550   predicted gene, 21304
Mus musculus 21681   Aly/REF export factor
Mus musculus ENSMUSG00000097878   predicted gene 8764
Neospora caninum NCLIV_043070   hypothetical protein
Oryza sativa 4351236   Os12g0100100
Oryza sativa 4349526   Os11g0100200
Oryza sativa 4332426   Os03g0278300
Onchocerca volvulus OVOC5617  
Onchocerca volvulus OVOC10875  
Plasmodium berghei PBANKA_1230500   RNA and export factor binding protein, putative
Plasmodium falciparum PF3D7_0615700   RNA and export factor binding protein, putative
Plasmodium knowlesi PKNH_1134300   RNA and export factor binding protein, putative
Plasmodium vivax PVX_113920   RNA and export factor binding protein, putative
Plasmodium yoelii PY07541   hypothetical protein
Plasmodium yoelii PY05533   hypothetical protein
Saccharomyces cerevisiae YDR381W   Yra1p
Schistosoma japonicum Sjp_0037310   RNA and export factor-binding protein 2, putative
Schistosoma mansoni Smp_005260.2   RNA and export factor binding protein
Schistosoma mansoni Smp_108820   RNA and export factor binding protein
Schistosoma mansoni Smp_005260.1   RNA and export factor binding protein
Schmidtea mediterranea mk4.001128.13   RNA and export factor binding protein, putative
Schmidtea mediterranea mk4.013541.00   RNA and export factor binding protein, putative
Schmidtea mediterranea mk4.010596.00   RNA and export factor binding protein, putative
Schmidtea mediterranea mk4.029780.00   RNA and export factor binding protein, putative
Schmidtea mediterranea mk4.008618.00   RNA and export factor binding protein, putative
Schmidtea mediterranea mk4.025317.00   RNA and export factor binding protein, putative
Toxoplasma gondii TGME49_291330   RNA recognition motif-containing protein
Theileria parva TP02_0067   RNA and export factor binding protein, putative

Essentiality

PF3D7_0615700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
YDR381W Saccharomyces cerevisiae inviable yeastgenome
TGME49_291330 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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_0615700 (Plasmodium falciparum), RNA and export factor binding protein, putative
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