Detailed view for PBANKA_1233200

Basic information

TDR Targets ID: 829520
Plasmodium berghei, cyclin
Source Database / ID: 

pI: 9.7634 | Length (AA): 218 | MW (Da): 25469 | 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

PF08613   Cyclin

Gene Ontology

Mouse over links to read term descriptions.
GO:0019901   protein kinase binding  
GO:0000079   regulation of cyclin-dependent protein kinase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
1 182 2pmi (B) 23 217 29.00 0 1 1.21946 -0.39
33 162 4krd (B) 293 430 22.00 0.0003 1 0.90573 -0.68

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 Gametocyte, Ookinete, 22 hs Schizont, Female gametocyte, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile 4 hs Ring, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile 16 hs Trophozoite. 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_128496)

Species Accession Gene Product
Arabidopsis thaliana AT2G44740   1
Arabidopsis thaliana AT3G05327   cyclin family protein
Arabidopsis thaliana AT3G21870   1
Babesia bovis BBOV_II002730   cyclin, N-terminal domain containing protein
Candida albicans CaO19.5755   similar to S. cerevisiae Pho80p cyclin: negative regulator of PHO81 and PHO5
Candida albicans CaO19.13178   similar to S. cerevisiae Pho80p cyclin: negative regulator of PHO81 and PHO5
Cryptosporidium hominis Chro.70422   cyclin
Cryptosporidium parvum cgd7_3780   cyclin
Dictyostelium discoideum DDB_G0295785   cyclin-related 2 family protein
Dictyostelium discoideum DDB_G0286485   hypothetical protein
Dictyostelium discoideum DDB_G0280425   hypothetical protein
Dictyostelium discoideum DDB_G0286347   hypothetical protein
Dictyostelium discoideum DDB_G0277481   hypothetical protein
Drosophila melanogaster Dmel_CG42507   CG42507 gene product from transcript CG42507-RB
Leishmania braziliensis LbrM.32.0910   CYC2-like cyclin, putative
Leishmania donovani LdBPK_320870.1   CYC2-like cyclin, putative
Leishmania infantum LinJ.32.0870   CYC2-like cyclin, putative
Leishmania major LmjF.32.0820   CYC2-like cyclin, putative
Leishmania mexicana LmxM.31.0820   CYC2-like cyclin, putative
Neospora caninum NCLIV_043920   hypothetical protein
Neospora caninum NCLIV_038600   hypothetical protein
Oryza sativa 4338711   Os05g0398000
Oryza sativa 4349405   Os10g0563900
Oryza sativa 4336556   Os04g0544200
Oryza sativa 4328150   Os02g0125400
Oryza sativa 4330172   Os02g0652000
Oryza sativa 9266882   Os02g0125450
Plasmodium berghei PBANKA_1233200   cyclin
Plasmodium falciparum PF3D7_0518400   cyclin, putative
Plasmodium knowlesi PKNH_1014800   cyclin, putative
Plasmodium vivax PVX_080325   cyclin, putative
Plasmodium yoelii PY02686   Cyclin, putative
Saccharomyces cerevisiae YOL001W   Pho80p
Saccharomyces cerevisiae YIL050W   Pcl7p
Trypanosoma brucei gambiense Tbg972.7.8450   CYC2-like cyclin, putative
Trypanosoma brucei gambiense Tbg972.11.15710   cyclin 2,G1 cyclin, putative
Trypanosoma brucei Tb927.11.14080   cyclin 2
Trypanosoma brucei Tb927.7.7170   CYC2-like cyclin, putative
Trypanosoma congolense TcIL3000_0_08150   CYC2-like cyclin, putative
Trypanosoma cruzi TcCLB.506791.10   CYC2-like cyclin 4, putative
Trypanosoma cruzi TcCLB.511727.199   CYC2-like cyclin 6, putative
Trypanosoma cruzi TcCLB.508385.30   CYC2-like cyclin, putative
Toxoplasma gondii TGME49_267580   cyclin2 related protein
Toxoplasma gondii TGME49_305330   cyclin, N-terminal domain-containing protein
Theileria parva TP04_0316   cyclin-related, putative
Trichomonas vaginalis TVAG_095210   conserved hypothetical protein

Essentiality

PBANKA_1233200 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.7170 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.7170 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.7170 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.7170 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb11.01.5660 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5660 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.5660 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.5660 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1233200 this record Plasmodium berghei Dispensable plasmo
TGME49_267580 Toxoplasma gondii Probably essential sidik
TGME49_305330 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
Species Known druggable target Linked compounds Reference
Saccharomyces cerevisiae Pho80p Compounds References
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.

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Gene identifier PBANKA_1233200 (Plasmodium berghei), cyclin
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