Detailed view for Tb927.7.6260

Basic information

TDR Targets ID: 11572
Trypanosoma brucei, TPR repeat, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9593 | Length (AA): 322 | MW (Da): 36454 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0005488   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
7 100 3cv0 (A) 492 598 12.00 0.28 0.53 0.356625 -0.31
73 253 1w3b (A) 116 281 27.00 0.03 0.99 0.774612 0.48
76 163 1efm (A) 102 190 32.00 0.4 0.07 0.428792 1.33
251 320 4y6w (A) 126 199 10.00 0.3 0.01 0.358091 -0.99

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_128353)

Species Accession Gene Product
Arabidopsis thaliana AT3G04830   prenylyltransferase-like protein
Arabidopsis thaliana AT5G28220   tetratricopeptide repeat-containing protein
Brugia malayi Bm1_04200   Protein KIAA0103 homolog
Candida albicans CaO19.11421   similar to S. cerevisiae YJR088C
Candida albicans CaO19.3939   similar to S. cerevisiae YJR088C
Caenorhabditis elegans CELE_Y57G7A.10   Protein EMC-2
Cryptosporidium hominis Chro.40479   hypothetical protein
Cryptosporidium parvum cgd4_4200   2xTPR domain containing protein
Dictyostelium discoideum DDB_G0277149   hypothetical protein
Drosophila melanogaster Dmel_CG17556   CG17556 gene product from transcript CG17556-RA
Drosophila melanogaster Dmel_CG3678   CG3678 gene product from transcript CG3678-RB
Echinococcus granulosus EgrG_000929900   tetratricopeptide repeat protein 35 B
Entamoeba histolytica EHI_153660   tetratricopeptide repeat domain containing protein
Echinococcus multilocularis EmuJ_000929900   tetratricopeptide repeat protein 35 B
Homo sapiens ENSG00000104412   ER membrane protein complex subunit 2
Leishmania braziliensis LbrM.17.0160   hypothetical protein, conserved
Leishmania donovani LdBPK_170230.1   hypothetical protein, conserved
Leishmania infantum LinJ.17.0230   hypothetical protein, conserved
Leishmania major LmjF.17.0120   hypothetical protein, conserved
Leishmania mexicana LmxM.17.0120   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_07105   hypothetical protein
Mus musculus ENSMUSG00000022337   ER membrane protein complex subunit 2
Neospora caninum NCLIV_038510   hypothetical protein
Oryza sativa 4328161   Os02g0127000
Plasmodium berghei PBANKA_1032500   ER membrane protein complex subunit 2, putative
Plasmodium falciparum PF3D7_1410000   ER membrane protein complex subunit 2, putative
Plasmodium knowlesi PKNH_1348300   ER membrane protein complex subunit 2, putative
Plasmodium vivax PVX_085950   ER membrane protein complex subunit 2, putative
Plasmodium yoelii PY01817   Homo sapiens KIAA0103 protein
Saccharomyces cerevisiae YJR088C   Emc2p
Schistosoma japonicum Sjp_0052340   ko:K04440 c-Jun N-terminal kinase, putative
Schistosoma japonicum Sjp_0306410   Tetratricopeptide repeat protein 35, putative
Schistosoma mansoni Smp_172220   hypothetical protein
Schmidtea mediterranea mk4.000579.05   ER membrane protein complex subunit 2
Trypanosoma brucei gambiense Tbg972.7.7230   hypothetical protein, conserved
Trypanosoma brucei Tb927.7.6260   TPR repeat, putative
Trypanosoma congolense TcIL3000_7_5120   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508919.20   TPR repeat, putative
Trypanosoma cruzi TcCLB.506513.100   TPR repeat, putative
Toxoplasma gondii TGME49_267840   tetratricopeptide repeat-containing protein
Trichomonas vaginalis TVAG_291670   conserved hypothetical protein

Essentiality

Tb927.7.6260 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.6260 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.6260 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.6260 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.6260 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y57G7A.10 Caenorhabditis elegans slow growth wormbase
TGME49_267840 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

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 3 days). References: 21363968
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 procyclic forms . 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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User comments

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Gene identifier Tb927.7.6260 (Trypanosoma brucei), TPR repeat, putative
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