Detailed view for Tb927.9.11500

Basic information

TDR Targets ID: 16870
Trypanosoma brucei, Cullin family, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7626 | Length (AA): 770 | MW (Da): 85913 | 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

PF00888   Cullin family

Gene Ontology

Mouse over links to read term descriptions.
GO:0031461   cullin-RING ubiquitin ligase complex  
GO:0031625   ubiquitin protein ligase binding  
GO:0006511   ubiquitin-dependent protein catabolic process  

Metabolic Pathways

Ubiquitin mediated proteolysis (KEGG)

Structural information

Modbase 3D models:

There are 3 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
7 763 1ldj (A) 17 768 13.00 0 1 0.949517 0.92
701 768 4yii (A) 747 818 24.00 0.012 1 0.468712 -1.32
704 767 1ldd (A) 777 845 16.00 0.22 0.71 0.328517 -0.96

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. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 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_129269)

Species Accession Gene Product
Arabidopsis thaliana AT2G04660   anaphase-promoting complex subunit 2
Brugia malayi Bm1_16960   Anaphase-promoting complex subunit 2-like
Candida albicans CaO19.14113   similar to S. cerevisiae APC2 (YLR127C) anaphase promoting complex subunit
Candida albicans CaO19.6821   similar to S. cerevisiae APC2 (YLR127C) anaphase promoting complex subunit
Caenorhabditis elegans CELE_K06H7.6   Protein APC-2
Dictyostelium discoideum DDB_G0276377   anaphase promoting complex subunit 2
Drosophila melanogaster Dmel_CG3060   morula
Echinococcus granulosus EgrG_000598000   Cullin y
Echinococcus multilocularis EmuJ_000598000   Cullin y
Homo sapiens ENSG00000176248   anaphase promoting complex subunit 2
Leishmania braziliensis LbrM.34.3730   hypothetical protein, conserved
Leishmania donovani LdBPK_353800.1   Cullin family, putative
Leishmania infantum LinJ.35.3800   hypothetical protein, conserved
Leishmania major LmjF.35.3750   hypothetical protein, conserved
Leishmania mexicana LmxM.34.3750   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03389   hypothetical protein
Mus musculus ENSMUSG00000026965   anaphase promoting complex subunit 2
Oryza sativa 4336204   Os04g0484800
Saccharomyces cerevisiae YLR127C   anaphase promoting complex subunit 2
Schistosoma japonicum Sjp_0077330   ko:K03349 anaphase-promoting complex component APC2, putative
Schistosoma mansoni Smp_152400   anaphase-promoting complex subunit
Schmidtea mediterranea mk4.013851.01  
Schmidtea mediterranea mk4.004654.00   Putative anaphase-promoting complex subunit
Schmidtea mediterranea mk4.003667.00   Putative anaphase-promoting complex subunit
Schmidtea mediterranea mk4.004654.01   Putative anaphase-promoting complex subunit
Schmidtea mediterranea mk4.027310.01  
Schmidtea mediterranea mk4.013851.05  
Trypanosoma brucei gambiense Tbg972.9.6840   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.11500   Cullin family, putative
Trypanosoma cruzi TcCLB.508461.520   Cullin family, putative
Trichomonas vaginalis TVAG_225020   anaphase-promoting complex subunit, putative

Essentiality

Tb927.9.11500 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.2660 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.2660 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.2660 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.2660 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_K06H7.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_K06H7.6 Caenorhabditis elegans sterile wormbase
YLR127C Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • 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.

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 Tb927.9.11500 (Trypanosoma brucei), Cullin family, putative
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