Detailed view for PF3D7_0303500

Basic information

TDR Targets ID: 3535
Plasmodium falciparum, spindle pole body protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.5095 | Length (AA): 2226 | MW (Da): 267976 | 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

PF04130   Spc97 / Spc98 family

Gene Ontology

Mouse over links to read term descriptions.
GO:0043015   gamma-tubulin binding  
GO:0007020   microtubule nucleation  
GO:0000922   spindle pole  
GO:0005815   microtubule organizing center  
GO:0005488   binding  
GO:0000226   microtubule cytoskeleton organization and biogenesis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 13 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
180 252 1yo8 (A) 810 884 33.00 0.28 0.14 0.150594 0.84
229 505 4u0r (A) 162 496 17.00 0.022 0.08 0.229738 -0.06
882 1065 2aqw (A) 28 208 31.00 0.085 0.23 0.144259 1.11
1198 2137 3vuo (A) 239 1183 23.00 0.0000023 0.71 0.252882 1.9
1198 2173 3v0a (B) 239 1192 24.00 0.000004 0.99 0.356055 1.71
1911 2171 3aj6 (A) 11 284 20.00 0.045 0.44 0.291551 -0.19
1967 2205 4o87 (A) 16 315 31.00 0.021 0.88 0.118967 0.76
180 255 1yo8 (A) 810 887 32.00 0.38 0.13 0.140242 0.98
229 505 4u0r (A) 162 496 17.00 0.039 0.11 0.228438 -0.03
881 1064 2aqw (A) 28 208 31.00 0.086 0.23 0.143859 1.11
1197 2173 3v0a (B) 239 1192 24.00 0.000012 1 0.352104 1.76
1937 2205 4o87 (A) 23 315 29.00 0.013 0.23 0.208045 0.55
2046 2206 4ar9 (A) 557 715 20.00 0.9 0.05 0.231327 -0.24

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 Male Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile early schizont, early trophozoite, late ring, late trophozoite. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, late schizont, Oocyst, Sporozoite, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, Ring. Otto TD Zanghi G
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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.
  • 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_155431)

Species Accession Gene Product
Plasmodium berghei PBANKA_0402100   spindle pole body protein, putative
Plasmodium falciparum PF3D7_0303500   spindle pole body protein, putative
Plasmodium knowlesi PKNH_0839600   spindle pole body protein, putative
Plasmodium vivax PVX_119300   hypothetical protein, conserved
Plasmodium yoelii PY00501   Plasmodium vivax PV1H14095_P-related
Theileria parva TP04_0458   hypothetical protein

Essentiality

PF3D7_0303500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0402100 Plasmodium berghei Essential plasmo
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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

  • Pkno007836AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pkno007836; Recombinant protein: full-length; Source: P knowlesi; hypothetical protein homolog ; Identifier: PKH_083670

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PF3D7_0303500 (Plasmodium falciparum), spindle pole body protein, putative
Title for this comment
Comment