Detailed view for Tb927.7.2510

Basic information

TDR Targets ID: 17815
Trypanosoma brucei, endoplasmatic reticulum retrieval protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.8768 | Length (AA): 182 | MW (Da): 21303 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 3

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

PF03248   Rer1 family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
38 75 4ogq (A) 87 129 42.00 0.97 0.15 0.265491 2.41

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 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_127650)

Species Accession Gene Product
Arabidopsis thaliana AT2G23310   protein RER1C1
Arabidopsis thaliana AT2G21600   protein RER1B
Arabidopsis thaliana AT4G39220   protein RER1A
Babesia bovis BBOV_III001740   Rer1 family protein
Brugia malayi Bm1_25765   Hypothetical 22.6 kDa protein F46C5.8 in chromosome II, putative
Candida albicans CaO19_7202   hypothetical protein
Candida albicans CaO19.7202   Golgi protein
Caenorhabditis elegans CELE_F46C5.8   Protein RER-1
Cryptosporidium parvum cgd2_2250   putative integral membrane protein
Dictyostelium discoideum DDB_G0292588   hypothetical protein
Drosophila melanogaster Dmel_CG11857   CG11857 gene product from transcript CG11857-RA
Echinococcus granulosus EgrG_000782800   protein rer1
Echinococcus granulosus EgrG_000100000   RER1 retention in endoplasmic reticulum 1
Entamoeba histolytica EHI_062460   RER1 protein, putative
Echinococcus multilocularis EmuJ_000782800   protein rer1
Echinococcus multilocularis EmuJ_000100000   RER1 retention in endoplasmic reticulum 1
Giardia lamblia GL50803_15413   RER1-like protein-retention of ER proteins
Homo sapiens ENSG00000157916   retention in endoplasmic reticulum sorting receptor 1
Leishmania braziliensis LbrM.22.0520   rer1 family-like protein
Leishmania donovani LdBPK_220450.1   rer1 family-like protein
Leishmania infantum LinJ.22.0450   rer1 family-like protein
Leishmania major LmjF.22.0580   rer1 family-like protein
Leishmania mexicana LmxM.22.0580   rer1 family-like protein
Loa Loa (eye worm) LOAG_00599   hypothetical protein
Mus musculus ENSMUSG00000029048   RER1 retention in endoplasmic reticulum 1 homolog (S. cerevisiae)
Neospora caninum NCLIV_043030   hypothetical protein
Oryza sativa 4342020   Os06g0708300
Oryza sativa 4345237   Os08g0309300
Oryza sativa 4326147   Os01g0106200
Plasmodium berghei PBANKA_0418300   protein RER1, putative
Plasmodium falciparum PF3D7_0903100   protein RER1, putative
Plasmodium knowlesi PKNH_0700800   protein RER1, putative
Plasmodium vivax PVX_098600   protein RER1, putative
Plasmodium yoelii PY01823   Drosophila melanogaster RE24638p
Saccharomyces cerevisiae YCL001W   Rer1p
Schistosoma japonicum Sjp_0305870   Protein RER1, putative
Schistosoma japonicum Sjp_0201640   Protein RER1, putative
Schistosoma mansoni Smp_019490.4   RER1 protein
Schistosoma mansoni Smp_099690   RER1 protein
Schistosoma mansoni Smp_019490.1   RER1 protein
Schmidtea mediterranea mk4.013666.00   Protein RER1 homolog
Schmidtea mediterranea mk4.002791.00   Protein RER1 homolog
Trypanosoma brucei gambiense Tbg972.7.2800   endoplasmatic reticulum retrieval protein, putative
Trypanosoma brucei Tb927.7.2510   endoplasmatic reticulum retrieval protein, putative
Trypanosoma cruzi TcCLB.506857.100   endoplasmatic reticulum retrieval protein, putative
Trypanosoma cruzi TcCLB.509209.10   endoplasmatic reticulum retrieval protein, putative
Toxoplasma gondii TGME49_291300   RER1 protein, putative
Theileria parva TP03_0665   hypothetical protein, conserved
Trichomonas vaginalis TVAG_437830   rer1 protein, putative

Essentiality

Tb927.7.2510 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.2510 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.2510 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.2510 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.7.2510 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0418300 Plasmodium berghei Slow plasmo
TGME49_291300 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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 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 Tb927.7.2510 (Trypanosoma brucei), endoplasmatic reticulum retrieval protein, putative
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