Detailed view for PF3D7_0518700

Basic information

TDR Targets ID: 4218
Plasmodium falciparum, mRNA-binding protein PUF1
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.0541 | Length (AA): 1894 | MW (Da): 224087 | 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

PF00806   Pumilio-family RNA binding repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005488   binding  
GO:0003723   RNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 13 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
810 1122 1ib2 (A) 837 1149 31.00 0 1 0.35 -1.64
3 266 4u0r (A) 175 499 22.00 0.09 0.31 0.337488 -0.66
459 545 3ult (A) 9 100 32.00 0.18 0.04 0.360935 -0.87
804 1139 1m8z (A) 831 1166 33.00 0 1 0.689402 -1.18
824 1133 3bwt (A) 564 880 41.00 0 1 0.706675 -1.09
1522 1650 3na7 (A) 33 172 25.00 0.15 0.03 0.46511 -2.4
1808 1893 2fxo (A) 847 932 9.00 0.92 0 0.216107 -1.17
6 294 4wat (A) 190 499 21.00 0.095 0.13 0.314209 -0.44
447 727 3r4s (A) 926 1237 28.00 0.29 0.09 0.0204204 0.89
488 574 3ult (A) 9 100 32.00 0.18 0.04 0.35985 -0.87
834 1169 1m8z (A) 831 1166 33.00 0 1 0.687216 -1.18
854 1163 3bwt (A) 564 880 41.00 0 1 0.704604 -1.09
1569 1676 2i1k (A) 316 443 20.00 0.85 0.07 0.487844 -2.81

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 Sporozoite, Male Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Oocyst, Female Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, gametocyte, late ring, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, sporozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Show/Hide expression data references
  • 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.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_129563)

Species Accession Gene Product
Arabidopsis thaliana AT1G22240   protein pumilio 8
Arabidopsis thaliana AT5G56510   pumilio 12
Arabidopsis thaliana AT1G78160   pumilio 7
Babesia bovis BBOV_II003300   pumilio-family RNA binding repeat containing protein
Candida albicans CaO19.5381   relocalize SIR3 and SIR4 from telomere to nucleolus
Candida albicans CaO19.12836   relocalize SIR3 and SIR4 from telomere to nucleolus
Dictyostelium discoideum DDB_G0289987   hypothetical protein
Entamoeba histolytica EHI_012320   pumilio domain-containing protein C6G9.14, putative
Giardia lamblia GL50803_17325   Pumilio-family RNA-binding protein, putative
Leishmania braziliensis LbrM.21.1990   pumillio protein 3, putative
Leishmania donovani LdBPK_212050.1   RNA-binding regulatory protein (pumilio family), putative
Leishmania infantum LinJ.21.2050   pumillio protein 3, putative
Leishmania major LmjF.21.1680   pumillio protein 3, putative
Leishmania mexicana LmxM.21.1680   RNA-binding regulatory protein (pumilio family), putative
Neospora caninum NCLIV_026460   hypothetical protein
Oryza sativa 4352241   Os12g0488900
Oryza sativa 4331909   Os03g0191700
Oryza sativa 4352254   Os12g0493900
Oryza sativa 4350783   Os11g0579900
Plasmodium berghei PBANKA_1233500   mRNA-binding protein PUF1
Plasmodium falciparum PF3D7_0518700   mRNA-binding protein PUF1
Plasmodium vivax PVX_080310   RNA-binding protein, putative
Plasmodium yoelii PY04072   00806 domains.-related
Saccharomyces cerevisiae YGL014W   Puf4p
Trypanosoma brucei gambiense Tbg972.10.220   pumillio RNA binding protein, putative
Trypanosoma brucei Tb927.10.310   pumillio/PUF RNA binding protein 3
Trypanosoma congolense TcIL3000_10_170   pumillio/PUF RNA binding protein 3
Trypanosoma cruzi TcCLB.468005.9   pumilio/PUF RNA binding protein 3, putative
Trypanosoma cruzi TcCLB.508787.30   pumilio/PUF RNA binding protein 3, putative
Toxoplasma gondii TGME49_260600   Pumilio-family RNA binding repeat-containing protein
Theileria parva TP04_0263   RNA-binding protein, putative

Essentiality

PF3D7_0518700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.310 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.310 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.310 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.310 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YGL014W Saccharomyces cerevisiae inviable yeastgenome
TGME49_260600 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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_0518700 (Plasmodium falciparum), mRNA-binding protein PUF1
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