Detailed view for Tb927.11.500

Basic information

TDR Targets ID: 17253
Trypanosoma brucei, RNA-binding protein, UBP1
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.6354 | Length (AA): 219 | MW (Da): 24295 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0006396   RNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

No model available for this protein in Modbase.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% 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_126974)

Species Accession Gene Product
Arabidopsis thaliana AT1G03457   RNA recognition motif-containing protein
Arabidopsis thaliana AT4G03110   RNA-binding protein-defense related 1
Babesia bovis BBOV_I003530   RNA recognition motif. (a.k.a. RRM, RBD, or RNP) domain containing protein
Brugia malayi Bm1_27610   RNA binding protein
Brugia malayi Bm1_47110   RNA recognition motif.
Caenorhabditis elegans CELE_C17D12.2   Protein UNC-75
Caenorhabditis elegans CELE_T01D1.2   Protein ETR-1, isoform C
Cryptosporidium hominis Chro.40387   RNA binding protein
Cryptosporidium parvum cgd4_3410   RNA binding protein, putative
Dictyostelium discoideum DDB_G0291486   RNA recognition motif-containing protein RRM
Dictyostelium discoideum DDB_G0270634   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG43744   bruno-3
Drosophila melanogaster Dmel_CG31762   arrest
Echinococcus granulosus EgrG_000940400   CUGBP Elav family
Echinococcus granulosus EgrG_000362600   bruno-like rna binding protein
Echinococcus granulosus EgrG_000942800   bruno-like rna binding protein
Echinococcus granulosus EgrG_000942900   bruno-like rna binding protein
Echinococcus granulosus EgrG_000362500   bruno-like rna binding protein
Echinococcus multilocularis EmuJ_000382900   alternative splicing factor ASF 1
Echinococcus multilocularis EmuJ_000940400   bruno-like rna binding protein
Echinococcus multilocularis EmuJ_000362500   CUGBP Elav family
Echinococcus multilocularis EmuJ_000942800   bruno-like rna binding protein
Echinococcus multilocularis EmuJ_000362600   bruno 4, RNA binding protein
Echinococcus multilocularis EmuJ_000943000   bruno-like rna binding protein
Homo sapiens ENSG00000140488   CUGBP, Elav-like family member 6
Homo sapiens ENSG00000101489   CUGBP, Elav-like family member 4
Homo sapiens ENSG00000149187   CUGBP, Elav-like family member 1
Homo sapiens ENSG00000161082   CUGBP, Elav-like family member 5
Homo sapiens ENSG00000048740   CUGBP, Elav-like family member 2
Homo sapiens 11189   CUGBP, Elav-like family member 3
Leishmania braziliensis LbrM.25.0450   RNA-binding protein, putative, UPB1
Leishmania braziliensis LbrM.25.0440   RNA-binding protein, putative, UPB2
Leishmania donovani LdBPK_250510.1   RNA-binding protein, putative, UPB2
Leishmania infantum LinJ.25.0510   RNA-binding protein, putative, UPB2
Leishmania infantum LinJ.25.0500   RNA-binding protein, putative, UPB1
Leishmania major LmjF.25.0500   RNA-binding protein, putative, UPB2
Leishmania major LmjF.25.0490   RNA-binding protein, putative, UPB1
Leishmania mexicana LmxM.25.0490   RNA-binding protein, putative, UPB1
Loa Loa (eye worm) LOAG_12531   hypothetical protein
Loa Loa (eye worm) LOAG_01549   hypothetical protein
Loa Loa (eye worm) LOAG_05508   LYST-interacting protein LIP9
Mus musculus ENSMUSG00000002107   CUGBP, Elav-like family member 2
Mus musculus ENSMUSG00000024268   CUGBP, Elav-like family member 4
Mus musculus ENSMUSG00000032297   CUGBP, Elav-like family member 6
Mus musculus ENSMUSG00000028137   CUGBP, Elav-like family member 3
Mus musculus ENSMUSG00000005506   CUGBP, Elav-like family member 1
Mus musculus ENSMUSG00000034818   CUGBP, Elav-like family member 5
Neospora caninum NCLIV_038000   CUG-BP- and ETR-3-like factor 3, related
Neospora caninum NCLIV_004400   hypothetical protein
Oryza sativa 4326538   Os01g0938200
Oryza sativa 4338600   Os05g0373400
Plasmodium berghei PBANKA_1135700   CUGBP Elav-like family member 1, putative
Plasmodium falciparum PF3D7_1359400   CUGBP Elav-like family member 1
Plasmodium knowlesi PKNH_1111900   CUGBP Elav-like family member 1, putative
Plasmodium vivax PVX_114940   CUGBP Elav-like family member 1, putative
Plasmodium yoelii PY04528   FCA gamma-related
Plasmodium yoelii PY02887   ribonucleoprotein homolog F21B7.26 - Arabidopsis thaliana, putative
Schistosoma japonicum Sjp_0024790   CUG-BP- and ETR-3-like factor 5, putative
Schistosoma japonicum Sjp_0134780   CUG-BP- and ETR-3-like factor 6, putative
Schistosoma mansoni Smp_041280   bruno-like rna binding protein
Schistosoma mansoni Smp_131780   bruno-like rna binding protein
Schmidtea mediterranea mk4.003256.01  
Schmidtea mediterranea mk4.022251.00  
Schmidtea mediterranea mk4.020210.00  
Schmidtea mediterranea mk4.002580.00   Bruno-like
Schmidtea mediterranea mk4.006823.00  
Schmidtea mediterranea mk4.009730.00  
Schmidtea mediterranea mk4.006823.01   ELAV-type RNA binding protein variant E
Schmidtea mediterranea mk4.022373.00   ELAV-type RNA binding protein variant E
Trypanosoma brucei gambiense Tbg972.11.450   RNA-binding protein, putative,UBP1B
Trypanosoma brucei Tb927.11.500   RNA-binding protein, UBP1
Trypanosoma congolense TcIL3000.11.470   UBP1B
Trypanosoma cruzi TcCLB.507093.220   RNA-binding protein, putative
Toxoplasma gondii TGME49_268200   RNA recognition motif-containing protein
Toxoplasma gondii TGME49_321500   RNA recognition motif-containing protein
Theileria parva TP01_0497   RNA-binding protein, putative

Essentiality

Tb927.11.500 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.03.0620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.03.0620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.03.0620 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.03.0620 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T01D1.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_T01D1.2 Caenorhabditis elegans larval lethal wormbase
CELE_T01D1.2 Caenorhabditis elegans sterile wormbase
TGME49_268200 Toxoplasma gondii Probably essential sidik
TGME49_321500 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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 6 days). 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 procyclic forms . 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.

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Gene identifier Tb927.11.500 (Trypanosoma brucei), RNA-binding protein, UBP1
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