Detailed view for Tb927.4.1460

Basic information

TDR Targets ID: 20438
Trypanosoma brucei, Zn-finger in ubiquitin-hydrolases and other protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.0608 | Length (AA): 496 | MW (Da): 56761 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF02148   Zn-finger in ubiquitin-hydrolases and other protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  

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
196 275 5b8d (A) 1111 1192 27.00 0 0.86 0.48859 -0.16
216 292 5g0f (A) 999 1073 33.00 0.000016 0.88 0.556242 -0.09
216 275 2uzg (A) 61 125 37.00 0.00052 0.7 0.467968 0.07
440 495 5djn (A) 368 424 20.00 0.71 0.01 0.407503 -1.36

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 Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_128831)

Species Accession Gene Product
Arabidopsis thaliana AT2G42160   RING domain containing protein BRIZ1
Arabidopsis thaliana AT2G26000   RING domain containing protein BRIZ2
Brugia malayi Bm1_42890   BRCA1-associated protein 2 containing protein
Candida albicans CaO19.1576   Zn finger orf similar to protein that binds NLS motifs and may have a role as a cytoplasmic retention protein (BRAP2)
Candida albicans CaO19.9149   Zn finger orf similar to protein that binds NLS motifs and may have a role as a cytoplasmic retention protein (BRAP2)
Caenorhabditis elegans CELE_EEED8.16   Protein EEED8.16
Dictyostelium discoideum DDB_G0270200   hypothetical protein
Drosophila melanogaster Dmel_CG5555   CG5555 gene product from transcript CG5555-RB
Echinococcus granulosus EgrG_000393200   BRCA1 associated protein
Echinococcus multilocularis EmuJ_000393200   BRCA1 associated protein
Homo sapiens ENSG00000089234   BRCA1 associated protein
Leishmania braziliensis LbrM.20.2860   hypothetical protein, conserved
Leishmania donovani LdBPK_343060.1   Zn-finger in ubiquitin-hydrolases and other protein, putative
Leishmania infantum LinJ.34.3060   hypothetical protein, conserved
Leishmania major LmjF.34.3280   hypothetical protein, conserved
Leishmania mexicana LmxM.33.3280   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02369   BRCA1-associated protein 2 containing protein
Mus musculus ENSMUSG00000029458   BRCA1 associated protein
Oryza sativa 4328521   Os02g0182900
Oryza sativa 4337211   Os04g0648500
Onchocerca volvulus OVOC9983   Uncharacterized RING finger protein homolog
Saccharomyces cerevisiae YHL010C   Etp1p
Schistosoma japonicum Sjp_0020760   ko:K10632 BRCA1-associated protein, putative
Schistosoma mansoni Smp_086430.2   brca1-associated protein (brap2)
Schistosoma mansoni Smp_086430.1   brca1-associated protein (brap2)
Schmidtea mediterranea mk4.000071.15   Uncharacterized RING finger protein
Trypanosoma brucei gambiense Tbg972.4.1290   hypothetical protein, conserved
Trypanosoma brucei Tb927.4.1460   Zn-finger in ubiquitin-hydrolases and other protein, putative
Trypanosoma congolense TcIL3000_4_950   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.511003.80   Zn-finger in ubiquitin-hydrolases and other protein, putative
Trichomonas vaginalis TVAG_044340   brca1-associated protein, putative
Trichomonas vaginalis TVAG_173610   BRCA1-associated protein, putative

Essentiality

Tb927.4.1460 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1460 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.1460 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.1460 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.1460 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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 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 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Tb927.4.1460 (Trypanosoma brucei), Zn-finger in ubiquitin-hydrolases and other protein, putative
Title for this comment
Comment