Detailed view for PF3D7_0827800

Basic information

TDR Targets ID: 945
Plasmodium falciparum, SET domain protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.2871 | Length (AA): 2399 | MW (Da): 283548 | Paralog Number: 0

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

Druggability Group : DG3

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

PF00856   SET domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0018024   histone-lysine N-methyltransferase activity  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0016568   chromatin modification  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 17 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
2113 2383 1mvh (A) 193 456 23.00 0 1 0.18 0.31
2260 2384 1zkk (A) 224 342 26.00 0.000000025 0.98 0.26 -0.37
7 297 4hte (A) 262 579 16.00 0.2 0.07 0.196701 -0.46
221 465 1fyh (A) 5 310 27.00 0.38 0.27 0.255026 -0.38
922 1157 1r17 (A) 329 552 29.00 0.41 0.24 0.0442743 0.86
1260 1494 4tql (A) 10 238 15.00 0.63 0.01 0.281957 -1.2
2110 2395 3hna (A) 950 1233 26.00 0 1 0.257616 0.54
2141 2389 1ml9 (A) 26 308 23.00 0 0.91 0.243193 0.54
2256 2381 4ldg (A) 142 264 27.00 0.00013 0.72 0.215922 -0.09
2263 2378 4mi0 (A) 623 726 36.00 0.1 0.37 0.201253 0.12
226 470 1fyh (A) 5 310 27.00 0.39 0.27 0.255501 -0.38
909 1144 1r17 (A) 329 552 29.00 0.42 0.24 0.0447103 0.86
1648 1798 3q0b (X) 366 524 13.00 0.000095 0.21 0.109906 0.05
2085 2370 3hna (A) 950 1233 26.00 0 1 0.255372 0.54
2116 2364 1ml9 (A) 26 308 23.00 0 0.91 0.240786 0.54
2231 2356 4ldg (A) 142 264 27.00 0.00011 0.72 0.212975 -0.09
2238 2353 4mi0 (A) 623 726 36.00 0.11 0.37 0.201163 0.12

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 Female Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, Oocyst, Ring, Male Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, gametocyte. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early schizont, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Sporozoite. Zanghi G
Show/Hide expression data references
  • 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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_153109)

Species Accession Gene Product
Babesia bovis BBOV_IV002320   SET domain containing protein
Neospora caninum NCLIV_029100   SET domain containing protein, putative
Plasmodium berghei PBANKA_0702900   SET domain protein, putative
Plasmodium falciparum PF3D7_0827800   SET domain protein, putative
Plasmodium knowlesi PKNH_1321900   SET domain protein, putative
Plasmodium vivax PVX_088965   SET domain protein, putative
Plasmodium yoelii PY00637   ERYTHROCYTE MEMBRANE PROTEIN PFEMP3
Toxoplasma gondii TGME49_255970   histone lysine methyltransferase SET/SUV39

Essentiality

PF3D7_0827800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0702900 Plasmodium berghei Essential plasmo
TGME49_255970 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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

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_0827800 (Plasmodium falciparum), SET domain protein, putative
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