Detailed view for Tb927.8.1570

Basic information

TDR Targets ID: 10903
Trypanosoma brucei, Uncharacterised protein family (UPF0172), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.0011 | Length (AA): 272 | MW (Da): 28825 | 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

PF03665   Uncharacterised protein family (UPF0172)

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

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
45 102 2mqa (A) 40 97 21.00 0 0.08 0.494135 -0.89

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_129067)

Species Accession Gene Product
Arabidopsis thaliana AT5G51620   hypothetical protein
Arabidopsis thaliana AT5G55940   protein EMBRYO DEFECTIVE 2731
Brugia malayi Bm1_50115   Hypothetical UPF0172 protein CG3501
Caenorhabditis elegans CELE_F25H2.4   Protein F25H2.4
Cryptosporidium hominis Chro.70366   hypothetical protein
Cryptosporidium parvum cgd7_3280   JAB domain containing protein
Dictyostelium discoideum DDB_G0268048   UPF0172 protein
Drosophila melanogaster Dmel_CG3501   CG3501 gene product from transcript CG3501-RA
Echinococcus granulosus EgrG_000673100   Neighbor of COX4
Echinococcus multilocularis EmuJ_000673100   Neighbor of COX4
Homo sapiens ENSG00000100908   ER membrane protein complex subunit 9
Homo sapiens ENSG00000131148   ER membrane protein complex subunit 8
Leishmania braziliensis LbrM.07.0300   hypothetical protein, conserved
Leishmania donovani LdBPK_070450.1   Uncharacterised protein family (UPF0172), putative
Leishmania infantum LinJ.07.0450   hypothetical protein, conserved
Leishmania major LmjF.07.0290   hypothetical protein, conserved
Leishmania mexicana LmxM.07.0290   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02814   hypothetical protein
Mus musculus ENSMUSG00000031819   ER membrane protein complex subunit 8
Mus musculus ENSMUSG00000022217   ER membrane protein complex subunit 9
Neospora caninum NCLIV_065510   hypothetical protein, conserved
Oryza sativa 4335339   Os04g0270200
Onchocerca volvulus OVOC501  
Plasmodium berghei PBANKA_0909100   conserved protein, unknown function
Plasmodium falciparum PF3D7_1139900   conserved protein, unknown function
Plasmodium knowlesi PKNH_0937800   conserved protein, unknown function
Plasmodium vivax PVX_092595   conserved protein, unknown function
Schistosoma japonicum Sjp_0069190   Neighbor of COX4, putative
Schistosoma mansoni Smp_043880.2   hypothetical protein
Trypanosoma brucei gambiense Tbg972.8.1180   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.1570   Uncharacterised protein family (UPF0172), putative
Trypanosoma congolense TcIL3000_8_1400   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508547.180   Uncharacterised protein family (UPF0172), putative
Toxoplasma gondii TGME49_249310   hypothetical protein

Essentiality

Tb927.8.1570 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1570 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.1570 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1570 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.1570 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F25H2.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_F25H2.4 Caenorhabditis elegans larval arrest wormbase
CELE_F25H2.4 Caenorhabditis elegans slow growth wormbase
CELE_F25H2.4 Caenorhabditis elegans terminal arrest variable wormbase
TGME49_249310 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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) 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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User comments

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Gene identifier Tb927.8.1570 (Trypanosoma brucei), Uncharacterised protein family (UPF0172), putative
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