Detailed view for PF3D7_0934700

Basic information

TDR Targets ID: 5017
Plasmodium falciparum, UBX domain, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.9971 | Length (AA): 531 | MW (Da): 62570 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF00789   UBX domain
PF14555   UBA-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
438 526 1h8c (A) 1 82 20.00 0 0.59 0.24 -0.5
1 38 2l2d (A) 27 63 27.00 0.12 1 0.563163 -1.57
3 49 2dam (A) 20 66 23.00 0.023 1 0.523112 -1.2
360 431 4tql (A) 84 170 49.00 0.37 0.08 0.589793 -1.76
363 427 3zjc (A) 204 267 38.00 0.69 0.01 0.761611 -2.78
2 36 3e21 (A) 8 42 26.00 0.033 0.98 0.600666 -1.87
3 49 2dam (A) 20 66 23.00 0.0079 0.99 0.52718 -1.2
362 433 4tql (A) 84 170 49.00 0.36 0.03 0.552984 -1.43
365 429 3zjc (A) 204 267 38.00 0.66 0.01 0.747851 -2.63

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 - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, sporozoite, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, merozoite, early ring. Otto TD PlasmoDB
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_128250)

Species Accession Gene Product
Arabidopsis thaliana AT4G10790   UBX domain-containing protein
Brugia malayi Bm1_15570   UBX domain containing protein
Candida albicans CaO19.9163   similar to S. cerevisiae YDL091C
Candida albicans CaO19.1595   similar to S. cerevisiae YDL091C
Dictyostelium discoideum DDB_G0280423   UAS domain-containing protein
Drosophila melanogaster Dmel_CG10372   Fas-associated factor
Echinococcus granulosus EgrG_001033500   FAS associated factor 2
Entamoeba histolytica EHI_022870   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_001033500   FAS associated factor 2
Homo sapiens ENSG00000113194   Fas associated factor family member 2
Leishmania braziliensis LbrM.34.1880   hypothetical protein, conserved
Leishmania donovani LdBPK_351960.1   ubx domain containing protein, putative
Leishmania infantum LinJ.35.1960   hypothetical protein, conserved
Leishmania major LmjF.35.1970   hypothetical protein, conserved
Leishmania mexicana LmxM.34.1970   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_12054   UBX domain-containing protein
Mus musculus ENSMUSG00000025873   Fas associated factor family member 2
Neospora caninum NCLIV_040840   UBX domain-containing protein, putative
Oryza sativa 4349139   Os10g0520600
Oryza sativa 4347401   Os09g0482000
Onchocerca volvulus OVOC3595  
Plasmodium berghei PBANKA_0835500   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_0934700   UBX domain, putative
Plasmodium knowlesi PKNH_0733400   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_086980   hypothetical protein, conserved
Plasmodium yoelii PY05236   UBX domain, putative
Saccharomyces cerevisiae YDL091C   Ubx3p
Schistosoma japonicum Sjp_0085920   IPR000449,Ubiquitin-associated;IPR009060,UBA-like,domain-containing
Schistosoma mansoni Smp_084610   fas-associated factor-related
Schmidtea mediterranea mk4.002523.04  
Schmidtea mediterranea mk4.011953.00   FAS-associated factor 2
Schmidtea mediterranea mk4.019006.00   FAS-associated factor 2
Trypanosoma brucei gambiense Tbg972.9.9440   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.15260   ubx domain containing protein, putative
Trypanosoma congolense TcIL3000_9_6400   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510767.60   ubx domain containing protein, putative
Trypanosoma cruzi TcCLB.509671.30   ubx domain containing protein, putative
Toxoplasma gondii TGME49_288340   UBX domain-containing protein
Theileria parva TP01_0156   hypothetical protein
Trichomonas vaginalis TVAG_220330   conserved hypothetical protein
Trichomonas vaginalis TVAG_276830   conserved hypothetical protein

Essentiality

PF3D7_0934700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.244.2680 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.244.2680 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb09.244.2680 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.244.2680 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0835500 Plasmodium berghei Dispensable plasmo
TGME49_288340 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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_0934700 (Plasmodium falciparum), UBX domain, putative
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