Detailed view for PF3D7_1232100

Basic information

TDR Targets ID: 5361
Plasmodium falciparum, 60 kDa chaperonin
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 4.7118 | Length (AA): 718 | MW (Da): 81484 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: N | Predicted trans-membrane segments: 1

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

PF00118   TCP-1/cpn60 chaperonin family

Gene Ontology

Mouse over links to read term descriptions.
GO:0042026   protein refolding  
GO:0020011   apicoplast  
GO:0005737   cytoplasm  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0044267   cellular protein metabolic process  

Metabolic Pathways

RNA degradation (KEGG)

Structural information

Modbase 3D models:

There are 8 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
57 614 1q3q (A) 9 525 20.00 0 1 0.75 0.22
69 616 1kp8 (A) 3 526 35.00 0 1 1.05 -0.82
69 617 1we3 (A) 3 529 39.00 0 1 1.22 -0.59
68 631 1iok (A) 2 526 35.00 0 1 1.01732 0.4
68 631 4pj1 (A) 2 526 39.00 0 1 1.21532 -0.18
258 409 1srv (A) 192 333 42.00 0 1 0.788699 -1.34
68 631 1iok (A) 2 526 36.00 0 1 1.02062 0.47
70 629 4pj1 (A) 4 524 40.00 0 1 1.23794 -0.35

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, early schizont, late trophozoite, Oocyst, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, early trophozoite, late schizont, Sporozoite, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte, late ring, Ring. PlasmoDB Zanghi G
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_135175)

Species Accession Gene Product
Arabidopsis thaliana AT2G28000   chaperonin-60 alpha
Arabidopsis thaliana AT5G18820   protein CHAPERONIN-60ALPHA2
Babesia bovis BBOV_IV007010   chaperonin cpn60, putative
Neospora caninum NCLIV_016800   TCP-1/cpn60 chaperonin family protein, putative
Oryza sativa 9268167   Os09g0563300
Oryza sativa 4351976   Os12g0277500
Plasmodium berghei PBANKA_1446800   60 kDa chaperonin, putative
Plasmodium falciparum PF3D7_1232100   60 kDa chaperonin
Plasmodium knowlesi PKNH_1451600   60 kDa chaperonin, putative
Plasmodium vivax PVX_100550   chaperonin CPN60, mitochondrial precursor, putative
Plasmodium yoelii PY04792   chaperonin cpn60, mitochondrial precursor
Plasmodium yoelii PY04757   chaperonin cpn60, mitochondrial precursor
Toxoplasma gondii TGME49_240600   chaperonin cpn60, putative
Theileria parva TP03_0206   chaperonin 60 kDa, putative

Essentiality

PF3D7_1232100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1446800 Plasmodium berghei Essential plasmo
TGME49_240600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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

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

Enter your comment

User ()
Gene identifier PF3D7_1232100 (Plasmodium falciparum), 60 kDa chaperonin
Title for this comment
Comment