Detailed view for PF3D7_1473100

Basic information

TDR Targets ID: 3029
Plasmodium falciparum, GTPase-activating protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.0143 | Length (AA): 592 | MW (Da): 71566 | 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

PF00566   Rab-GTPase-TBC domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0003674   molecular_function  
GO:0008150   biological_process  
GO:0005622   intracellular  
GO:0005097   Rab GTPase activator activity  
GO:0032313   regulation of Rab GTPase activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
37 432 1fkm (A) 249 630 21.00 0 1 0.84 -1.14
44 390 2qfz (A) 196 490 22.00 0.0071 1 0.613849 0.28
142 342 2qfz (A) 244 442 29.00 0.0000027 0.87 0.504627 -0.06
147 342 3dzx (A) 237 430 31.00 0.000013 0.92 0.491181 0.14
417 591 4uos (A) 3 177 12.00 0.44 0 0.384308 -0.43

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 - 32 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, sporozoite, early ring, early schizont, early trophozoite, late ring, late trophozoite, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, late schizont, Sporozoite, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Female Gametocyte. 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.
  • 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_128791)

Species Accession Gene Product
Babesia bovis BBOV_II003380   conserved hypothetical protein
Candida albicans CaO19.6624   possible GAP for Ypt6
Candida albicans CaO19.13945   possible GAP for Ypt6
Caenorhabditis elegans CELE_B0393.2   Protein RBG-3
Cryptosporidium hominis Chro.30340   hypothetical protein
Cryptosporidium parvum cgd3_3000   TBC domain containing protein
Dictyostelium discoideum DDB_G0281891   RabGAP/TBC domain-containing protein
Dictyostelium discoideum DDB_G0280253   RabGAP/TBC domain-containing protein
Drosophila melanogaster Dmel_CG8449   CG8449 gene product from transcript CG8449-RA
Entamoeba histolytica EHI_169850   Rab GTPase activating protein, putative
Entamoeba histolytica EHI_006780   Rab GTPase activating protein, putative
Homo sapiens ENSG00000131374   TBC1 domain family, member 5
Leishmania braziliensis LbrM.17.1600   hypothetical protein, conserved
Leishmania donovani LdBPK_171570.1   Rab-GTPase-TBC domain containing protein, putative
Leishmania infantum LinJ.17.1570   hypothetical protein, conserved
Leishmania major LmjF.17.1450   hypothetical protein, conserved
Leishmania mexicana LmxM.17.1450   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_10845   hypothetical protein
Mus musculus ENSMUSG00000023923   TBC1 domain family, member 5
Neospora caninum NCLIV_052790   hypothetical protein
Oryza sativa 4341748   Os06g0661700
Plasmodium berghei PBANKA_1336300   GTPase-activating protein, putative
Plasmodium falciparum PF3D7_1473100   GTPase-activating protein, putative
Plasmodium knowlesi PKNH_1207900   GTPase-activating protein, putative
Plasmodium vivax PVX_116825   hypothetical protein, conserved
Plasmodium yoelii PY04291   ABC transporter
Schistosoma japonicum Sjp_0072810   TBC1 domain family member 5, putative
Schistosoma mansoni Smp_025890   tbc1 domain family member
Schmidtea mediterranea mk4.000094.04   TBC1 domain family member 5
Trypanosoma brucei gambiense Tbg972.5.3840   hypothetical protein, conserved
Trypanosoma brucei Tb927.5.2740   Rab-GTPase-TBC domain containing protein, putative
Trypanosoma congolense TcIL3000_0_43230   Rab-GTPase-TBC domain containing protein, putative
Trypanosoma cruzi TcCLB.509179.210   Rab-GTPase-TBC domain containing protein, putative
Trypanosoma cruzi TcCLB.507047.60   Rab-GTPase-TBC domain containing protein, putative
Toxoplasma gondii TGME49_275350   TBC domain-containing protein
Theileria parva TP04_0250   hypothetical protein
Theileria parva TP04_0249   hypothetical protein

Essentiality

PF3D7_1473100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.2740 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.2740 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.2740 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.2740 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1336300 Plasmodium berghei Essential plasmo
TGME49_275350 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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_1473100 (Plasmodium falciparum), GTPase-activating protein, putative
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