Detailed view for PF3D7_1020400

Basic information

TDR Targets ID: 1273
Plasmodium falciparum, rRNA (cytosine-C(5))-methyltransferase, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.4811 | Length (AA): 601 | MW (Da): 70770 | 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

PF01189   16S rRNA methyltransferase RsmB/F

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0008150   biological_process  
GO:0003674   molecular_function  
GO:0008168   methyltransferase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 10 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
2 118 1tzv (A) 6 141 15.00 0 0.78 0.24 -0.98
223 300 2b25 (A) 94 189 12.00 0.000065 0.41 0.25 -1.14
2 84 1eyv (A) 11 109 12.00 0.025 0.2 0.0624032 0
4 587 1sqg (A) 7 428 15.00 0 1 0.108714 1.79
387 587 3ajd (A) 64 273 20.00 0.0002 0.43 0.498543 -0.36
390 558 2fds (A) 9 206 32.00 0.55 0.07 0.203598 0.93
4 586 1sqg (A) 7 428 16.00 0 1 0.307167 1.64
4 61 3r2c (A) 7 72 19.00 0.49 0.17 0.0832667 0.68
6 212 2iw3 (A) 4 197 10.00 0 0.9 0.2545 -0.4
390 557 2fds (A) 9 206 32.00 0.24 0.04 0.1969 1.04

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 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, merozoite, sporozoite, early ring, early trophozoite, late ring, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 24 hs, gametocyte, late trophozoite, Female Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst, 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_159181)

Species Accession Gene Product
Plasmodium berghei PBANKA_0504600   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium falciparum PF3D7_1020400   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium knowlesi PKNH_0604600   rRNA (cytosine-C(5))-methyltransferase, putative
Plasmodium vivax PVX_001880   S-adenosyl-L-methionine-dependent methyltransferase, putative
Plasmodium yoelii PY00601   sun family protein-related

Essentiality

No essentiality data collected for this gene and/or its orthologs.

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.

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_1020400 (Plasmodium falciparum), rRNA (cytosine-C(5))-methyltransferase, putative
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