Detailed view for PF3D7_1319100

Basic information

TDR Targets ID: 2096
Plasmodium falciparum, conserved protein, unknown function
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.2209 | Length (AA): 803 | MW (Da): 94813 | 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

PF04424   MINDY deubiquitinase

Gene Ontology

Mouse over links to read term descriptions.
GO:1990380   GO:Lys48-specific deubiquitinase activity  

GO:0004843   ubiquitin-specific protease activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
431 510 3ult (A) 26 108 31.00 0.091 0.07 0.558526 -1.78
402 498 3ult (A) 13 108 30.00 0.16 0.16 0.46323 -0.81

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

Orthologs

Ortholog group members (OG5_128472)

Species Accession Gene Product
Arabidopsis thaliana AT4G11860   hypothetical protein
Arabidopsis thaliana AT4G22960   hypothetical protein
Babesia bovis BBOV_II005380   hypothetical protein
Brugia malayi Bm1_39690   hypothetical protein
Candida albicans CaO19.3615   similar to S. cerevisiae YPL191C
Candida albicans CaO19.11098   similar to S. cerevisiae YPL191C
Caenorhabditis elegans CELE_Y55F3AM.9   Protein Y55F3AM.9
Dictyostelium discoideum DDB_G0281445   DUF544 family protein
Dictyostelium discoideum DDB_G0269770   DUF544 family protein
Echinococcus granulosus EgrG_000900800   protein FAM63A
Echinococcus multilocularis EmuJ_000900800   protein FAM63A
Homo sapiens ENSG00000143409   family with sequence similarity 63, member A
Homo sapiens ENSG00000128923   family with sequence similarity 63, member B
Loa Loa (eye worm) LOAG_08127   hypothetical protein
Loa Loa (eye worm) LOAG_16234   hypothetical protein
Mus musculus ENSMUSG00000042444   family with sequence similarity 63, member B
Mus musculus ENSMUSG00000038712   family with sequence similarity 63, member A
Neospora caninum NCLIV_002350   hypothetical protein
Oryza sativa 4342044   Os06g0712400
Oryza sativa 4342094   Os06g0721600
Onchocerca volvulus OVOC5059  
Plasmodium berghei PBANKA_1417600   conserved protein, unknown function
Plasmodium falciparum PF3D7_1319100   conserved protein, unknown function
Plasmodium knowlesi PKNH_1419900   conserved protein, unknown function
Plasmodium vivax PVX_122770   conserved protein, unknown function
Plasmodium yoelii PY03275   hypothetical protein
Saccharomyces cerevisiae YGL082W   hypothetical protein
Saccharomyces cerevisiae YPL191C   hypothetical protein
Schistosoma japonicum Sjp_0091350   IPR007518,Protein of unknown function DUF544,domain-containing
Schistosoma japonicum Sjp_0034890   similar to Uncharacterized protein YPL191C, putative
Schistosoma mansoni Smp_042990.2   hypothetical protein
Schistosoma mansoni Smp_042990.1   hypothetical protein
Schmidtea mediterranea mk4.021421.00  
Schmidtea mediterranea mk4.022214.01  
Trypanosoma brucei gambiense Tbg972.6.4190   hypothetical protein, conserved
Trypanosoma brucei Tb927.6.4380   Protein of unknown function (DUF544), putative
Trypanosoma congolense TcIL3000_6_3800   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509167.200   Protein of unknown function (DUF544), putative
Trypanosoma cruzi TcCLB.509065.170   Protein of unknown function (DUF544), putative
Toxoplasma gondii TGME49_295400   hypothetical protein
Theileria parva TP02_0489   hypothetical protein, conserved

Essentiality

PF3D7_1319100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.4380 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.4380 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.4380 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.4380 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_295400 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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

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_1319100 (Plasmodium falciparum), conserved protein, unknown function
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