Detailed view for PF3D7_1033900

Basic information

TDR Targets ID: 1404
Plasmodium falciparum, ubiquitin-conjugating enzyme E2, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 4.2896 | Length (AA): 191 | MW (Da): 21571 | 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

PF00179   Ubiquitin-conjugating enzyme

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0019787   small conjugating protein ligase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  
GO:0051246   regulation of protein metabolic process  
GO:0043687   post-translational protein modification  

Metabolic Pathways

Ubiquitin mediated proteolysis (KEGG)

Structural information

Modbase 3D models:

There are 4 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
2 191 1tte (A) 2 193 26.00 0 1 1.29 -0.07
3 155 1yh6 (A) 23 174 57.00 0 1 1.67 -2.1
3 191 4ddg (A) 2 1067 25.00 0.00000000032 1 1.34403 -0.69
6 155 2onu (A) 3 152 99.99 0 1 2.06844 -1.96

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
  • 2ONU:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, merozoite, sporozoite, early ring, early schizont, late ring, late schizont, late trophozoite, Oocyst, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, early trophozoite, Ring. Otto TD PlasmoDB Zanghi G
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_128230)

Species Accession Gene Product
Arabidopsis thaliana AT1G63800   ubiquitin-conjugating enzyme E2 5
Arabidopsis thaliana AT2G46030   ubiquitin-conjugating enzyme E2 6
Arabidopsis thaliana AT5G41340   ubiquitin-conjugating enzyme E2 4
Babesia bovis BBOV_IV009650   ubiquitin-conjugating enzyme subunit, putative
Brugia malayi Bm1_31760   Ubiquitin-conjugating enzyme E2 H
Candida albicans CaO19.12015   ubiquitin-conjugating enzyme
Candida albicans CaO19.4540   ubiquitin-conjugating enzyme
Caenorhabditis elegans CELE_Y94H6A.6   Protein UBC-8
Dictyostelium discoideum DDB_G0280091   hypothetical protein
Drosophila melanogaster Dmel_CG2257   CG2257 gene product from transcript CG2257-RA
Echinococcus granulosus EgrG_000860200   ubiquitin conjugating enzyme E2 H
Echinococcus multilocularis EmuJ_000860200   ubiquitin conjugating enzyme E2 H
Homo sapiens ENSG00000186591   ubiquitin-conjugating enzyme E2H
Leishmania braziliensis LbrM.32.0780   ubiquitin carrier protein 4, putative
Leishmania donovani LdBPK_320730.1   ubiquitin-conjugating enzyme E2, putative
Leishmania infantum LinJ.32.0730   ubiquitin carrier protein 4, putative
Leishmania major LmjF.32.0700   ubiquitin carrier protein 4, putative
Leishmania mexicana LmxM.31.0700   ubiquitin carrier protein 4, putative
Loa Loa (eye worm) LOAG_08716   ubiquitin-conjugating enzyme E2 H
Mus musculus ENSMUSG00000039159   ubiquitin-conjugating enzyme E2H
Neospora caninum NCLIV_064660   Ubiquitin carrier protein (EC 6.3.2.-), related
Oryza sativa 4348755   Os10g0447100
Plasmodium berghei PBANKA_0517700   ubiquitin-conjugating enzyme E2, putative
Plasmodium falciparum PF3D7_1033900   ubiquitin-conjugating enzyme E2, putative
Plasmodium knowlesi PKNH_0619100   ubiquitin-conjugating enzyme E2, putative
Plasmodium vivax PVX_111030   ubiquitin-conjugating enzyme, putative
Plasmodium yoelii PY00468   Ubiquitin-conjugating enzyme, putative
Saccharomyces cerevisiae YEL012W   E2 ubiquitin-conjugating protein UBC8
Schistosoma japonicum Sjp_0062520   ko:K10576 ubiquitin-conjugating enzyme E2 H, putative
Schistosoma mansoni Smp_145350   ubiquitin-conjugating enzyme h
Schmidtea mediterranea mk4.007024.00  
Schmidtea mediterranea mk4.004842.01  
Trypanosoma brucei gambiense Tbg972.11.15570   ubiquitin-conjugating enzyme e2, putative,ubiquitin carrier protein, putative,ubiquitin-protein ligase, putative
Trypanosoma brucei Tb927.11.13940   ubiquitin-conjugating enzyme E2, putative
Trypanosoma congolense TcIL3000.11.14310   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.509161.10   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.504643.30   ubiquitin-conjugating enzyme E2, putative
Toxoplasma gondii TGME49_300040   ubiquitin-conjugating enzyme subfamily protein
Theileria parva TP01_0804   ubiquitin-protein ligase, putative
Trichomonas vaginalis TVAG_257610   ubiquitin-conjugating enzyme E2 G, putative

Essentiality

PF3D7_1033900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.5510 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5510 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5510 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.5510 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0517700 Plasmodium berghei Dispensable plasmo
TGME49_300040 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

  • Pfal005717AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pfal005717; Recombinant protein: full-length; Source: P falciparum; ubiquitin-conjugating enzyme, putative ;

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_1033900 (Plasmodium falciparum), ubiquitin-conjugating enzyme E2, putative
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