Detailed view for Tb927.11.2550

Basic information

TDR Targets ID: 18160
Trypanosoma brucei, recombinase rad51, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.8431 | Length (AA): 507 | MW (Da): 54542 | Paralog Number: 0

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

Druggability Group : DG2

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

PF08423   Rad51

Gene Ontology

Mouse over links to read term descriptions.
GO:0008094   DNA-dependent ATPase activity  
GO:0005524   ATP binding  
GO:0003684   damaged DNA binding  
GO:0003677   DNA binding  
GO:0000166   nucleotide binding  
GO:0017111   nucleoside-triphosphatase activity  
GO:0006310   DNA recombination  
GO:0006281   DNA repair  
GO:0006259   DNA metabolic process  

Metabolic Pathways

Homologous recombination (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
3 501 2i1q (A) 5 322 27.00 0 1 0.513721 1.29
103 167 5jrj (A) 44 103 48.00 0.0014 0.53 0.450205 0.9
103 179 1n0w (A) 99 175 47.00 0 0.98 0.719874 -0.11
458 502 2z43 (B) 255 322 27.00 0.0012 0.25 0.351257 0.2

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 Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Procyclic. 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_131246)

Species Accession Gene Product
Arabidopsis thaliana AT2G45280   DNA repair protein RAD51 homolog 3
Cryptosporidium parvum cgd4_2050   hypothetical protein
Dictyostelium discoideum DDB_G0284507   hypothetical protein
Drosophila melanogaster Dmel_CG31069   spindle D
Echinococcus granulosus EgrG_000833000   DNA repair protein RAD51 3
Entamoeba histolytica EHI_122860   DNA repair protein RAD51C, putative
Echinococcus multilocularis EmuJ_000833000   DNA repair protein RAD51 3
Homo sapiens ENSG00000108384   RAD51 paralog C
Leishmania braziliensis LbrM.33.2760   recombinase rad51, putative
Leishmania donovani LdBPK_332620.1   recombinase rad51, putative
Leishmania infantum LinJ.33.2620   recombinase rad51, putative
Leishmania major LmjF.33.2490   recombinase rad51, putative
Leishmania mexicana LmxM.32.2490   recombinase rad51, putative
Mus musculus 114714   RAD51 homolog C
Schistosoma japonicum Sjp_0042300   IPR013032,EGF-like region,domain-containing
Schistosoma japonicum Sjp_0042290   DNA repair protein RAD51 homolog 3, putative
Schistosoma mansoni Smp_160630   DNA repair protein rad51 homolog 3 r51h3
Schmidtea mediterranea mk4.016937.01   DNA repair protein RAD51 homolog 3
Trypanosoma brucei gambiense Tbg972.11.2790   recombinase rad51, putative
Trypanosoma brucei Tb927.11.2550   recombinase rad51, putative
Trypanosoma congolense TcIL3000_0_37530   recombinase rad51, putative
Trypanosoma congolense TcIL3000_0_12100   recombinase rad51, putative
Trypanosoma cruzi TcCLB.504153.220   DNA recombination and repair protein RAD51, putative

Essentiality

Tb927.11.2550 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.0150 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.0150 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.0150 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.0150 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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) increased (PATO:0000470) procyclic (PLO:0034) 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 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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User comments

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Gene identifier Tb927.11.2550 (Trypanosoma brucei), recombinase rad51, putative
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