Detailed view for Tb927.3.5030

Basic information

TDR Targets ID: 12976
Trypanosoma brucei, KU70 protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.5817 | Length (AA): 745 | MW (Da): 81050 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF02735   Ku70/Ku80 beta-barrel domain
PF03731   Ku70/Ku80 N-terminal alpha/beta domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0003691   double-stranded telomeric DNA binding  
GO:0000722   telomere maintenance via recombination  
GO:0043564   Ku70:Ku80 complex  
GO:0005958   DNA-dependent protein kinase complex  
GO:0005634   nucleus  
GO:0004003   ATP-dependent DNA helicase activity  
GO:0003684   damaged DNA binding  
GO:0003677   DNA binding  
GO:0042162   telomeric DNA binding  
GO:0005488   binding  
GO:0000723   telomere maintenance  
GO:0006303   double-strand break repair via nonhomologous end joining  

Metabolic Pathways

Non-homologous end-joining (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
47 743 1jeq (A) 35 609 24.00 0 1 0.86577 1.24
487 582 3clm (A) 212 319 29.00 0 0.68 0.281659 0.63

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 60-80% percentile Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_129086)

Species Accession Gene Product
Arabidopsis thaliana AT1G16970   ATP-dependent DNA helicase 2 subunit KU70
Brugia malayi Bm1_41430   ATP-dependent DNA helicase II, 70 kDa subunit
Candida albicans CaO19.3491   one of two closely related genes similar to S. cerevisiae YKU70 (YMR284W) Ku70-like DNA binding protein subunit involved in nonh
Candida albicans CaO19.1135   one of two closely related genes similar to S. cerevisiae YKU70 (YMR284W) Ku70-like DNA binding protein subunit involved in nonh
Candida albicans CaO19.8728   one of two closely related genes similar to S. cerevisiae YKU70 (YMR284W) Ku70-like DNA binding protein subunit involved in nonh
Caenorhabditis elegans CELE_Y47D3A.4   Protein CKU-70
Dictyostelium discoideum DDB_G0286069   ATP-dependent DNA helicase
Drosophila melanogaster Dmel_CG5247   Inverted repeat-binding protein
Echinococcus granulosus EgrG_000843250   x ray repair cross complementing protein 6
Echinococcus multilocularis EmuJ_000843250   x ray repair cross complementing protein 6
Homo sapiens ENSG00000196419   X-ray repair complementing defective repair in Chinese hamster cells 6
Leishmania braziliensis LbrM.29.1130   KU70 protein, putative
Leishmania donovani LdBPK_291140.1   KU70 protein, putative
Leishmania infantum LinJ.29.1140   KU70 protein, putative
Leishmania major LmjF.29.1050   KU70 protein, putative
Leishmania mexicana LmxM.08_29.1050   KU70 protein, putative
Loa Loa (eye worm) LOAG_01147   hypothetical protein
Mus musculus ENSMUSG00000022471   X-ray repair complementing defective repair in Chinese hamster cells 6
Neospora caninum NCLIV_064150   ATP-dependent DNA helicase II, 70 kDa subunit, putative
Oryza sativa 4342584   Os07g0184900
Saccharomyces cerevisiae YMR284W   Yku70p
Schistosoma japonicum Sjp_0065680   ko:K01303 acylaminoacyl-peptidase [EC3.4.19.1], putative
Schistosoma japonicum Sjp_0047080   hypothetical protein
Schistosoma japonicum Sjp_0065690   ATP-dependent DNA helicase 2 subunit 1, putative
Schistosoma mansoni Smp_146670   acylaminoacyl-peptidase (S09 family)
Schmidtea mediterranea mk4.001927.02   Acylaminoacyl-peptidase
Trypanosoma brucei gambiense Tbg972.3.5630   KU70 protein, putative
Trypanosoma brucei Tb927.3.5030   KU70 protein
Trypanosoma congolense TcIL3000_0_22830   KU70 protein
Trypanosoma cruzi TcCLB.503643.10   KU70 protein, putative
Trypanosoma cruzi TcCLB.504121.10   KU70 protein, putative
Toxoplasma gondii TGME49_248160   hypothetical protein

Essentiality

Tb927.3.5030 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.5030 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.5030 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.5030 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.5030 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_248160 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 3 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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Gene identifier Tb927.3.5030 (Trypanosoma brucei), KU70 protein
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