Detailed view for PF3D7_1439800

Basic information

TDR Targets ID: 2708
Plasmodium falciparum, vesicle-associated membrane protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.8987 | Length (AA): 241 | MW (Da): 27687 | 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

PF00635   MSP (Major sperm protein) domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006944   membrane fusion  
GO:0005575   cellular_component  
GO:0005789   endoplasmic reticulum membrane  
GO:0005198   structural molecule activity  
GO:0016192   vesicle-mediated transport  

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
2 114 1z9l (A) 6 119 35.00 0 1 1.01 -0.97
3 136 1wic (A) 18 151 25.00 0 1 0.87 -0.35
4 120 1grw (A) 9 126 20.00 0 0.92 0.77 -1.1
2 119 3ikk (A) 6 124 31.00 0 1 0.912527 -0.83
2 135 2cri (A) 13 147 33.00 0 1 0.961417 -0.27
4 120 1grw (A) 9 126 19.00 0.000000000039 0.68 0.790877 -0.57
87 223 4tql (A) 9 149 15.00 0.022 0.02 0.721865 -0.31

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 - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early schizont, Oocyst, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile sporozoite, early ring, early trophozoite, late ring, late schizont, late trophozoite, Female Gametocyte, Male Gametocyte. PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte. 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_127299)

Species Accession Gene Product
Arabidopsis thaliana AT5G47180   vesicle-associated protein 2-1
Arabidopsis thaliana AT2G45140   VAP-like protein 12
Arabidopsis thaliana AT4G00170   vesicle-associated protein 1-3
Arabidopsis thaliana AT3G60600   vesicle associated protein
Babesia bovis BBOV_II001250   vesicle-associated membrane protein, putative
Brugia malayi Bm1_22740   MSP domain protein VAP
Candida albicans CaO19.1212   MSP domain, common to vesicle-assoc. proteins
Candida albicans CaO19.8800   Type II integral ER membrane protein
Caenorhabditis elegans CELE_F33D11.11   Protein VPR-1
Cryptosporidium hominis Chro.60303   conserverd MSP-domain transmembrane protein
Cryptosporidium parvum cgd6_2620   vesicle-associated membrane protein,MSP (major sperm protein) domain, transmembrane domain or GPI at C
Dictyostelium discoideum DDB_G0278773   major sperm protein domain-containing protein
Drosophila melanogaster Dmel_CG5014   VAMP-associated protein of 33kDa ortholog A
Drosophila melanogaster Dmel_CG42658   CG42658 gene product from transcript CG42658-RA
Echinococcus granulosus EgrG_001122200   vesicle associated membrane protein vamp
Echinococcus multilocularis EmuJ_001122200   vesicle associated membrane protein (vamp)
Homo sapiens ENSG00000101558   VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa
Homo sapiens ENSG00000124164   VAMP (vesicle-associated membrane protein)-associated protein B and C
Loa Loa (eye worm) LOAG_03901   MSP domain-containing protein VAP
Mus musculus ENSMUSG00000054455   vesicle-associated membrane protein, associated protein B and C
Mus musculus ENSMUSG00000024091   vesicle-associated membrane protein, associated protein A
Neospora caninum NCLIV_011320   Vesicle-associated membrane protein-associated protein A, related
Oryza sativa 4344689   Os08g0155100
Oryza sativa 4344695   Os08g0156700
Oryza sativa 4336509   Os04g0534400
Oryza sativa 9270104   Os02g0652550
Oryza sativa 4349070   Os10g0507600
Oryza sativa 4349306   Os10g0549100
Plasmodium berghei PBANKA_1303700   vesicle-associated membrane protein, putative
Plasmodium falciparum PF3D7_1439800   vesicle-associated membrane protein, putative
Plasmodium knowlesi PKNH_1242500   vesicle-associated membrane protein, putative
Plasmodium vivax PVX_118500   vesicle-associated membrane protein, putative
Plasmodium yoelii PY06882   hypothetical protein
Saccharomyces cerevisiae YER120W   Scs2p
Saccharomyces cerevisiae YBL091C-A   Scs22p
Schistosoma japonicum Sjp_0215630   ko:K10707 vesicle-associated membrane protein-associated protein B, putative
Schistosoma mansoni Smp_136240.4   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.3   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.8   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.5   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.2   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.6   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.1   vesicle-associated membrane protein (vamp)
Schistosoma mansoni Smp_136240.10   vesicle-associated membrane protein (vamp)
Schmidtea mediterranea mk4.007048.02   VAMP-associated protein of 33kDa ortholog A
Schmidtea mediterranea mk4.004562.00   VAMP-associated protein of 33kDa ortholog A
Schmidtea mediterranea mk4.002408.00   VAMP-associated protein of 33kDa ortholog A
Schmidtea mediterranea mk4.002709.01   VAMP-associated protein of 33kDa ortholog A
Toxoplasma gondii TGME49_318160   MSP (Major sperm protein) domain-containing protein
Theileria parva TP04_0461   hypothetical protein

Essentiality

PF3D7_1439800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F33D11.11 Caenorhabditis elegans embryonic lethal wormbase
PBANKA_1303700 Plasmodium berghei Essential plasmo
TGME49_318160 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • 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.
  • 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

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

  • Pviv003778AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pviv003778; Recombinant protein: full-length; Source: P vivax; vesicle-associated membrane protein, putative homolog ; Identifier: PF14_0377

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_1439800 (Plasmodium falciparum), vesicle-associated membrane protein, putative
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