Detailed view for TcCLB.425969.9

Basic information

TDR Targets ID: 39244
Trypanosoma cruzi, cyclin-dependent kinases regulatory subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.8763 | Length (AA): 78 | MW (Da): 9690 | Paralog Number: 1

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

Druggability Group : DG4

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

PF01111   Cyclin-dependent kinase regulatory subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0016538   cyclin-dependent protein kinase regulator activity  
GO:0007049   cell cycle  

Metabolic Pathways

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

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
2 77 1qb3 (A) 21 105 54.00 0 1 1.41 0.37
6 78 1cks (A) 3 75 59.00 0 1 1.57 0.42
1 77 3qy2 (B) 20 105 52.00 0 1 1.55178 -0.89
6 75 5lqf (C) 3 72 61.00 0 1 1.70204 -1.19

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_127469)

Species Accession Gene Product
Arabidopsis thaliana AT2G27970   cyclin-dependent kinases regulatory subunit 2
Arabidopsis thaliana AT2G27960   cyclin-dependent kinases regulatory subunit 1
Babesia bovis BBOV_I002360   hypothetical protein
Brugia malayi Bm1_10915   Cyclin-dependent kinases regulatory subunit
Candida albicans CaO19.1282   subunit of Cdc28 protein kinase
Candida albicans CaO19.8869   subunit of Cdc28 protein kinase
Caenorhabditis elegans CELE_C09G4.3   Protein CKS-1
Caenorhabditis elegans CELE_Y71G12B.27   Protein Y71G12B.27
Cryptosporidium parvum cgd8_2510   Cyclin dependent kinase regulatory subunit, putative
Dictyostelium discoideum DDB_G0271642   cyclin-dependent kinases regulatory subunit
Drosophila melanogaster Dmel_CG3738   Cyclin-dependent kinase subunit 30A
Drosophila melanogaster Dmel_CG9790   Cyclin-dependent kinase subunit 85A
Echinococcus granulosus EgrG_000786500   cyclin dependent kinases regulatory subunit
Entamoeba histolytica EHI_009405   cyclin-dependent kinase regulatory subunit, putative
Echinococcus multilocularis EmuJ_000786500   cyclin dependent kinases regulatory subunit
Giardia lamblia GL50803_2661   Cyclin-dependent kinases regulatory subunit
Homo sapiens ENSG00000173207   CDC28 protein kinase regulatory subunit 1B
Homo sapiens ENSG00000123975   CDC28 protein kinase regulatory subunit 2
Leishmania braziliensis LbrM.32.4030   cyclin-dependent kinase regulatory subunit
Leishmania donovani LdBPK_323940.1   cyclin-dependent kinase regulatory subunit
Leishmania infantum LinJ.32.3940   cyclin-dependent kinase regulatory subunit
Leishmania major LmjF.32.3790   cyclin-dependent kinase regulatory subunit
Leishmania mexicana LmxM.31.3790   cyclin-dependent kinase regulatory subunit
Loa Loa (eye worm) LOAG_07171   cyclin-dependent kinase regulatory subunit
Mus musculus 102643116   cyclin-dependent kinases regulatory subunit 2-like
Mus musculus 102640775   cyclin-dependent kinases regulatory subunit 1-like
Mus musculus 102641603   cyclin-dependent kinases regulatory subunit 2-like
Mus musculus 102638700   cyclin-dependent kinases regulatory subunit 2-like
Mus musculus ENSMUSG00000062248   CDC28 protein kinase regulatory subunit 2
Mus musculus ENSMUSG00000028044   CDC28 protein kinase 1b
Mus musculus 624855   CDC28 protein kinase 1b, retrogene
Neospora caninum NCLIV_060780   hypothetical protein
Neospora caninum NCLIV_061380   hypothetical protein
Oryza sativa 4331610   Os03g0146300
Onchocerca volvulus OVOC13507  
Saccharomyces cerevisiae YBR135W   Cks1p
Schistosoma japonicum Sjp_0055240   ko:K02219 cyclin-dependent kinase regulatory subunit CKS1, putative
Schistosoma mansoni Smp_158910   hypothetical protein
Schmidtea mediterranea mk4.001305.00   Cyclin-dependent kinases regulatory subunit
Trypanosoma brucei gambiense Tbg972.11.18430   cyclin dependant kinases regulatory subunit, putative
Trypanosoma brucei Tb927.11.16390   cyclin dependent kinases regulatory subunit, putative
Trypanosoma cruzi TcCLB.425969.9   cyclin-dependent kinases regulatory subunit, putative
Trypanosoma cruzi TcCLB.511529.68   cyclin-dependent kinases regulatory subunit, putative
Toxoplasma gondii TGME49_219100   cyclin-dependent kinase regulatory subunit protein
Theileria parva TP01_1189   hypothetical protein
Trichomonas vaginalis TVAG_142260   cyclin-dependent kinases regulatory subunit, putative
Trichomonas vaginalis TVAG_164620   cyclin-dependent kinases regulatory subunit, putative

Essentiality

TcCLB.425969.9 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8085 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8085 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.8085 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.8085 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C09G4.3 Caenorhabditis elegans embryonic arrest wormbase
CELE_C09G4.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y71G12B.27 Caenorhabditis elegans embryonic lethal wormbase
YBR135W Saccharomyces cerevisiae inviable yeastgenome
TGME49_219100 Toxoplasma gondii Probably essential sidik
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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.

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
Homo sapiens CDC28 protein kinase regulatory subunit 1B 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.

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 TcCLB.425969.9 (Trypanosoma cruzi), cyclin-dependent kinases regulatory subunit, putative
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