Detailed view for PF3D7_1346400

Basic information

TDR Targets ID: 147
Plasmodium falciparum, conserved Plasmodium protein, unknown function
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.8335 | Length (AA): 5988 | MW (Da): 697051 | 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

PF12624   N-terminal region of Chorein or VPS13

Gene Ontology

Mouse over links to read term descriptions.
GO:0003677   DNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 11 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
292 384 3ult (A) 12 106 25.00 0.0007 1 0.552931 -2.18
2046 3098 1epw (A) 236 1216 17.00 0 0.89 -0.138248 1.84
2889 3283 4wat (A) 150 508 28.00 0.1 0.32 0.00536526 0.92
5 969 2vz8 (B) 558 1524 10.00 0 0.76 -0.421413 2.06
292 383 3ult (A) 12 107 27.00 0.0028 1 0.556205 -2.22
1390 2140 3ffz (A) 428 1208 19.00 0.082 0.91 0.0179535 1.89
1508 1700 4uos (A) 6 183 17.00 0.12 0.27 0.169517 -0.94
1546 1733 4uos (A) 2 184 19.00 0.042 0.04 0.21468 -0.79
2876 3270 4wat (A) 150 508 28.00 0.099 0.32 0.004942 0.92
3202 3841 3wn4 (A) 67 769 15.00 0.93 0.76 0.000366778 1.39
4525 5920 2vz9 (A) 1 1388 9.00 0 0.86 -0.345242 1.82

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 Sporozoite. Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, sporozoite, early ring, late ring, late schizont, late trophozoite, Oocyst, Ring, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, merozoite, early schizont, early trophozoite, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 48 hs, gametocyte. Otto TD PlasmoDB
Show/Hide expression data references
  • 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
  • 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.

Orthologs

Ortholog group members (OG5_138079)

Species Accession Gene Product
Babesia bovis BBOV_III001700   conserved hypothetical protein
Cryptosporidium hominis Chro.00004   hypothetical protein
Cryptosporidium parvum cgd5_4480   large low complexity protein, possible apicomplexan-specific
Cryptosporidium parvum cgd5_4490   hypothetical protein
Neospora caninum NCLIV_043020   hypothetical protein
Plasmodium berghei PBANKA_1359300   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1346400   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_1254700   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_083220   hypothetical protein, conserved
Plasmodium yoelii PY01329   hypothetical protein
Toxoplasma gondii TGME49_291180   hypothetical protein
Theileria parva TP03_0669   hypothetical protein
Theileria parva TP03_0668   hypothetical protein
Theileria parva TP03_0670   hypothetical protein

Essentiality

PF3D7_1346400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_291180 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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): 0.3

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_1346400 (Plasmodium falciparum), conserved Plasmodium protein, unknown function
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