Detailed view for PF3D7_1406700

Basic information

TDR Targets ID: 2397
Plasmodium falciparum, vacuolar protein sorting-associated protein 29
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.245 | Length (AA): 194 | MW (Da): 21774 | 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

PF12850   Calcineurin-like phosphoesterase superfamily domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0042147   retrograde transport, endosome to Golgi  
GO:0030904   retromer complex  
GO:0016787   hydrolase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
7 190 2a22 (A) 4 196 52.00 0 1 1.73 -2.04
7 190 2a22 (A) 4 196 52.00 0 1 1.69575 -1.74
7 190 2a22 (A) 4 196 51.00 0 1 1.69315 -1.81

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:

PDB tag
  • 2A22:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, early schizont, early trophozoite, late schizont, late trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 16 hs, gametocyte, Ring, Sporozoite, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 8 hs, Male Gametocyte. Otto TD Lasonder E
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • 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
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127553)

Species Accession Gene Product
Arabidopsis thaliana AT3G47810   vacuolar protein sorting-associated protein 29
Babesia bovis BBOV_III008970   vacuolar protein sorting 29, putative
Brugia malayi Bm1_29865   vacuolar protein sorting 29
Candida albicans CaO19.13497   Vacuolar protein sorting
Candida albicans CaO19.6076   Vacuolar protein sorting
Caenorhabditis elegans CELE_ZK1128.8   Protein VPS-29, isoform A
Cryptosporidium hominis Chro.70237   vacuolar protein sorting 29
Cryptosporidium parvum cgd7_2060   vacuolar protein sorting 29
Dictyostelium discoideum DDB_G0288787   metallophosphoesterase domain-containing protein
Drosophila melanogaster Dmel_CG4764   Vacuolar protein sorting 29
Echinococcus granulosus EgrG_000780400   Vacuolar protein sorting associated protein
Entamoeba histolytica EHI_025270   vacuolar sorting protein 29
Echinococcus multilocularis EmuJ_000780400   Vacuolar protein sorting associated protein
Giardia lamblia GL50803_103855   Vacuolar protein sorting 29
Homo sapiens ENSG00000111237   vacuolar protein sorting 29 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.32.1150   vacuolar sorting-like protein
Leishmania donovani LdBPK_321110.1   vacuolar sorting-like protein
Leishmania infantum LinJ.32.1110   vacuolar sorting-like protein
Leishmania major LmjF.32.1050   vacuolar sorting-like protein
Leishmania mexicana LmxM.31.1050   vacuolar sorting-like protein
Loa Loa (eye worm) LOAG_03430   hypothetical protein
Mycobacterium leprae ML2654   conserved hypothetical protein
Mus musculus ENSMUSG00000029462   vacuolar protein sorting 29 (S. pombe)
Mycobacterium ulcerans MUL_4792   phosphoesterase
Neospora caninum NCLIV_022280   vacuolar protein sorting 29, putative
Oryza sativa 4328954   Os02g0265400
Plasmodium berghei PBANKA_1035500   vacuolar protein sorting-associated protein 29, putative
Plasmodium falciparum PF3D7_1406700   vacuolar protein sorting-associated protein 29
Plasmodium knowlesi PKNH_1351400   vacuolar protein sorting-associated protein 29, putative
Plasmodium vivax PVX_086095   vacuolar protein sorting-associated protein 29, putative
Plasmodium yoelii PY06431   phosphoesterase, putative
Saccharomyces cerevisiae YHR012W   Vps29p
Schistosoma japonicum Sjp_0018680   ko:K07095 vacuolar protein sorting 29, putative
Schistosoma mansoni Smp_050350.2   hypothetical protein
Schistosoma mansoni Smp_050350.3   hypothetical protein
Schistosoma mansoni Smp_050350.1   hypothetical protein
Schistosoma mansoni Smp_050350.4   hypothetical protein
Trypanosoma brucei gambiense Tbg972.11.16000   vacuolar sorting protein, putative
Trypanosoma brucei Tb927.11.14290   vacuolar sorting protein, putative
Trypanosoma congolense TcIL3000.11.14600   vacuolar sorting protein, putative
Trypanosoma cruzi TcCLB.511725.190   vacuolar sorting protein, putative
Toxoplasma gondii TGME49_252490   vacuolar protein sorting 29, putative
Theileria parva TP04_0799   hypothetical protein, conserved
Trichomonas vaginalis TVAG_378930   vacuolar sorting protein vps29, putative
Trichomonas vaginalis TVAG_257380   vacuolar sorting protein vps29, putative
Trichomonas vaginalis TVAG_108510   vacuolar sorting protein vps29, putative

Essentiality

PF3D7_1406700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.5900 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5900 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5900 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.5900 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1035500 Plasmodium berghei Essential plasmo
TGME49_252490 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • 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.

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

  • Pyoe003589AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pyoe003589; Recombinant protein: full-length; Source: P yoelii; vacuolar protein sorting 29, putative homolog ; Identifier: PY06431

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_1406700 (Plasmodium falciparum), vacuolar protein sorting-associated protein 29
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