Detailed view for Tb927.2.4090

Basic information

TDR Targets ID: 55142
Trypanosoma brucei, signal recognition particle receptor beta subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.7095 | Length (AA): 270 | MW (Da): 29381 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 2

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

PF09439   Signal recognition particle receptor beta subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0003674   molecular_function  
GO:0008150   biological_process  
GO:0005525   GTP binding  
GO:0006614   SRP-dependent cotranslational protein targeting to membrane  

Metabolic Pathways

Protein export (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
34 269 2fh5 (B) 63 266 27.00 0 1 0.974274 -0.19
36 123 4q66 (C) 20 94 45.00 0.94 0.63 0.444026 0.44
36 181 1ls1 (A) 101 267 28.00 0 1 0.703341 -0.65

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_128347)

Species Accession Gene Product
Arabidopsis thaliana AT2G18770   SR-beta domain-containing protein
Arabidopsis thaliana AT5G05670   signal recognition particle receptor subunit beta
Babesia bovis BBOV_I000590   conserved hypothetical protein
Brugia malayi Bm1_07790   hypothetical protein
Candida albicans CaO19.6284   signal recognition particle beta subunit
Candida albicans CaO19.13663   signal recognition particle beta subunit
Candida albicans CaO19.3484   signal recognition particle receptor beta subunit
Caenorhabditis elegans CELE_R186.3   Protein R186.3
Cryptosporidium parvum cgd6_1650   conserved hypothetical protein
Dictyostelium discoideum DDB_G0278543   signal recognition particle receptor beta subunit
Drosophila melanogaster Dmel_CG33162   Signal recognition particle receptor beta
Echinococcus granulosus EgrG_000910300   signal recognition particle receptor beta
Entamoeba histolytica EHI_092570   hypothetical protein
Entamoeba histolytica EHI_000670   hypothetical protein
Echinococcus multilocularis EmuJ_000910300   signal recognition particle receptor beta
Homo sapiens ENSG00000144867   signal recognition particle receptor, B subunit
Leishmania braziliensis LbrM.33.2900   hypothetical protein, conserved
Leishmania donovani LdBPK_332760.1   signal recognition particle receptor beta subunit, putative
Leishmania infantum LinJ.33.2760   hypothetical protein, conserved
Leishmania major LmjF.33.2620   hypothetical protein, conserved
Leishmania mexicana LmxM.32.2620   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_07098   hypothetical protein
Mus musculus ENSMUSG00000032553   signal recognition particle receptor, B subunit
Neospora caninum NCLIV_040600   hypothetical protein
Oryza sativa 4346082   Os08g0524000
Onchocerca volvulus OVOC6193   Signal recognition particle receptor subunit beta homolog
Plasmodium berghei PBANKA_1459900   signal recognition particle, beta subunit, putative
Plasmodium falciparum PF3D7_1246800   signal recognition particle receptor, beta subunit
Plasmodium knowlesi PKNH_1466500   signal recognition particle, beta subunit, putative
Plasmodium vivax PVX_101235   hypothetical protein, conserved
Plasmodium yoelii PY00404   hypothetical protein
Saccharomyces cerevisiae YKL154W   Signal recognition particle receptor subunit beta
Schistosoma japonicum Sjp_0209320   ko:K06945 Srprb; signal recognition particle receptor, B subunit, putative
Schistosoma mansoni Smp_017290.3   hypothetical protein
Schistosoma mansoni Smp_017290.4   hypothetical protein
Schmidtea mediterranea mk4.015790.00   Signal recognition particle receptor subunit beta
Trypanosoma brucei gambiense Tbg.972.2.2260   hypothetical protein, conserved
Trypanosoma brucei Tb927.2.4090   signal recognition particle receptor beta subunit, putative
Trypanosoma congolense TcIL3000_2_590   signal recognition particle receptor beta subunit, putative
Trypanosoma cruzi TcCLB.511109.20   signal recognition particle receptor beta subunit, putative
Trypanosoma cruzi TcCLB.504157.120   signal recognition particle receptor beta subunit, putative
Toxoplasma gondii TGME49_264440   signal recognition particle receptor beta subunit protein
Theileria parva TP02_0879   hypothetical protein
Trichomonas vaginalis TVAG_055280   Signal recognition particle receptor subunit beta, putative

Essentiality

Tb927.2.4090 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.4090 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.2.4090 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.4090 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.4090 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R186.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_R186.3 Caenorhabditis elegans sterile wormbase
YKL154W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1459900 Plasmodium berghei Essential plasmo
TGME49_264440 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • 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.
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss 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

Druggability index (range: 0 to 1): 0.1

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

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Gene identifier Tb927.2.4090 (Trypanosoma brucei), signal recognition particle receptor beta subunit, putative
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