Detailed view for PBANKA_1441400

Basic information

TDR Targets ID: 825130
Plasmodium berghei, proliferating cell nuclear antigen 2, putative
Source Database / ID: 

pI: 4.7536 | Length (AA): 264 | MW (Da): 30318 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG

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

PF00705   Proliferating cell nuclear antigen, N-terminal domain
PF02747   Proliferating cell nuclear antigen, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0030337   DNA polymerase processivity factor activity  
GO:0003677   DNA binding  
GO:0006275   regulation of DNA replication  

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
1 261 5tup (A) 1 254 33.00 0 1 1.43054 -1.02
1 263 1plq (A) 1 256 31.00 0 1 1.37511 -0.59
1 261 4rjf (E) 1 255 37.00 0 1 1.44254 -0.84
1 260 3fds (D) 1 244 19.00 0 1 1.22305 -0.76

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 Erthyrocytic stages, Female gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Gametocyte, 16 hs Trophozoite, 22 hs Schizont, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Ookinete, 4 hs Ring. Otto TD
Show/Hide expression data references
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.

Orthologs

Ortholog group members (OG5_140126)

Species Accession Gene Product
Babesia bovis BBOV_II006360   Proliferating cell nuclear antigen
Cryptosporidium hominis Chro.30392   proliferating cell nuclear antigen
Cryptosporidium parvum cgd3_3470   proliferating cell nuclear antigen
Neospora caninum NCLIV_010140   proliferating cell nuclear antigen, putative
Plasmodium berghei PBANKA_1441400   proliferating cell nuclear antigen 2, putative
Plasmodium falciparum PF3D7_1226600   proliferating cell nuclear antigen 2
Plasmodium knowlesi PKNH_1446000   proliferating cell nuclear antigen 2, putative
Plasmodium vivax PVX_123960   proliferating cell nuclear antigen, putative
Plasmodium yoelii PY06718   proliferating cell nuclear antigen
Toxoplasma gondii TGME49_320110   proliferating cell nuclear antigen PCNA2
Theileria parva TP02_0600   proliferating cell nuclear antigen, putative

Essentiality

PBANKA_1441400 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1441400 this record Plasmodium berghei Dispensable plasmo
TGME49_320110 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.

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 PBANKA_1441400 (Plasmodium berghei), proliferating cell nuclear antigen 2, putative
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