Detailed view for PF3D7_1221000

Basic information

TDR Targets ID: 5254
Plasmodium falciparum, histone-lysine N-methyltransferase, H3 lysine-4 specific
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.0007 | Length (AA): 2329 | MW (Da): 271070 | 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

PF00628   PHD-finger

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 14 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
11 194 4uos (A) 4 185 13.00 0.0067 0.08 0.240704 -0.98
110 361 4k1p (A) 93 356 12.00 0.88 0.01 0.180901 -0.26
780 1853 3s5m (A) 61 1193 16.00 0.00000022 0.73 0.441242 0.94
938 1635 3v0a (B) 333 1142 25.00 0.00015 0.97 0.214499 1.69
1194 1248 2ke1 (A) 294 342 43.00 0.28 0.9 0.368415 0.42
1597 1823 4tql (A) 10 235 18.00 0.076 0.2 0.167567 -0.09
9 193 4uos (A) 2 184 13.00 0.0059 0.05 0.276657 -1.03
32 206 2ap3 (A) 16 194 14.00 0.49 0.01 0.181286 -0.06
913 2027 1s0f (A) 47 1232 16.00 0.00000018 0.7 0.410925 1.34
1182 1253 2e6s (A) 5 74 24.00 0.092 0.99 0.222269 0.96
1201 1255 2ke1 (A) 294 342 43.00 0.29 0.9 0.368738 0.42
1203 1255 3zvz (B) 312 365 23.00 0.41 0.7 0.261964 0.19
1568 1790 4tql (A) 10 231 19.00 0.071 0.42 0.239065 -0.32
1573 1757 4uos (A) 1 183 14.00 0.78 0.3 0.302457 -1.44

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 late schizont, Sporozoite. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, sporozoite, early schizont, early trophozoite, late trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, late ring, Oocyst. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 24 hs, Ring, Female Gametocyte, Male Gametocyte. Otto TD Zanghi G Lasonder E
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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB

Orthologs

Ortholog group members (OG5_164638)

Species Accession Gene Product
Plasmodium berghei PBANKA_1436200   histone-lysine N-methyltransferase, H3 lysine-4 specific, putative
Plasmodium falciparum PF3D7_1221000   histone-lysine N-methyltransferase, H3 lysine-4 specific
Plasmodium knowlesi PKNH_1440100   histone-lysine N-methyltransferase, H3 lysine-4 specific, putative
Plasmodium vivax PVX_123685   histone-lysine N-methyltransferase, H3 lysine-4 specific, putative
Plasmodium yoelii PY03491   hypothetical protein

Essentiality

PF3D7_1221000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1436200 Plasmodium berghei Slow plasmo
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.

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

Druggability index (range: 0 to 1): 0.5

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier PF3D7_1221000 (Plasmodium falciparum), histone-lysine N-methyltransferase, H3 lysine-4 specific
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