Detailed view for PF3D7_0727300
Basic information
Plasmodium falciparum, DNA (cytosine-5)-methyltransferase
Source Database / ID: PlasmoDB | GeneDB | MPMP
pI: 8.5496 |
Length (AA): 706 |
MW (Da): 83784 |
Paralog Number:
0
Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0
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
Network
Pfam domains
Gene Ontology
GO:0020011 apicoplast
GO:0008168 methyltransferase activity
GO:0003677 DNA binding
GO:0006306 DNA methylation
Metabolic Pathways
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 |
|---|---|---|---|---|---|---|---|---|---|
| 215 | 699 | 1g55 (A) | 34 | 390 | 31.00 | 0.00000000093 | 1 | 0.132569 | 1.76 |
| 215 | 354 | 3qv2 (A) | 37 | 200 | 36.00 | 0.0000062 | 0.98 | 0.4199 | 0.25 |
| 513 | 620 | 4onq (A) | 362 | 471 | 12.00 | 0.28 | 0.03 | 0.325974 | -0.81 |
| 513 | 628 | 2c7p (A) | 210 | 322 | 13.00 | 0.035 | 0.01 | 0.303606 | -0.46 |
Help me make sense of these data.
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:
Expression
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Upper 60-80% percentile | intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, Ring. | Otto TD Zanghi G |
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Mid 40-60% percentile | intra-erythrocytic - 0 hs, intra-erythrocytic - 48 hs, Oocyst, Sporozoite, Female Gametocyte. | Otto TD Zanghi G Lasonder E |
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Lower 20-40% percentile | intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs. | Otto TD |
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Lower 0-20% percentile | Male Gametocyte. | Lasonder E |
-
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.
Orthologs
Ortholog group members (OG5_163933)
| Species | Accession | Gene Product |
|---|---|---|
| Plasmodium berghei | PBANKA_0211400 | DNA (cytosine-5)-methyltransferase, putative |
| Plasmodium falciparum | PF3D7_0727300 | DNA (cytosine-5)-methyltransferase |
| Plasmodium knowlesi | PKNH_0211900 | DNA (cytosine-5)-methyltransferase, putative |
| Plasmodium vivax | PVX_081670 | DNA (cytosine-5)-methyltransferase, putative |
| Plasmodium yoelii | PY02095 | hypothetical protein |
Essentiality
| Gene/Ortholog | Organism | Phenotype | Source Study |
|---|---|---|---|
| PBANKA_0211400 | Plasmodium berghei | Dispensable | plasmo |
-
wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170 -
shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan -
yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database -
blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930 -
nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource -
alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924 -
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 -
neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
Phenotypes and Validation (curated)
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
Associated compounds / Druggability
Druggability index (range: 0 to 1): 0.5
Known modulators for this target
Predicted associations
By orthology with druggable targets
By sequence similarity to non orthologous druggable targets
Obtained from network model
Ranking Plot
Putative Drugs List
Assayability
Assay information
Reagent availability
Bibliographic References