Detailed view for Tb927.9.8610

Basic information

TDR Targets ID: 17645
Trypanosoma brucei, Transcriptional repressor TCF25, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4701 | Length (AA): 831 | MW (Da): 93062 | 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

PF04910   Transcriptional repressor TCF25

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 are 5 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
1 124 5hmo (A) 803 926 13.00 0.038 0 0.306518 -0.51
7 112 1w9r (A) 14 119 8.00 0.35 0 0.257857 -0.74
126 219 2i1j (A) 324 527 34.00 0.2 0.02 0.0925167 1.26
399 493 5fzs (A) 8 100 11.00 0.0039 0.09 0.27062 -0.81
406 464 2kc7 (A) 12 70 12.00 0.72 0.09 0.170299 0.06

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 60-80% 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_128541)

Species Accession Gene Product
Arabidopsis thaliana AT2G46900   hypothetical protein
Brugia malayi Bm1_47780   FKSG26 protein
Candida albicans CaO19.1864   similar to S. cerevisiae YDR333C
Candida albicans CaO19.9420   similar to S. cerevisiae YDR333C
Caenorhabditis elegans CELE_K07A12.1   Protein K07A12.1
Cryptosporidium hominis Chro.50242   hypothetical protein
Cryptosporidium parvum cgd5_1410   conserved protein
Dictyostelium discoideum DDB_G0274217   Nulp1-type basic helix-loop-helix domain-containing protein
Drosophila melanogaster Dmel_CG7927   CG7927 gene product from transcript CG7927-RC
Echinococcus granulosus EgrG_000499500   transcription factor 25
Echinococcus multilocularis EmuJ_000499500   transcription factor 25
Homo sapiens ENSG00000141002   transcription factor 25 (basic helix-loop-helix)
Leishmania braziliensis LbrM.04.1090   hypothetical protein, conserved
Leishmania donovani LdBPK_041080.1   Transcriptional repressor TCF25, putative
Leishmania infantum LinJ.04.1080   hypothetical protein, conserved
Leishmania major LmjF.04.1080   hypothetical protein, conserved
Leishmania mexicana LmxM.04.1080   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_08452   hypothetical protein
Mus musculus ENSMUSG00000001472   transcription factor 25 (basic helix-loop-helix)
Neospora caninum NCLIV_042470   GH16169, related
Oryza sativa 4347571   Os09g0514900
Onchocerca volvulus OVOC1023  
Plasmodium berghei PBANKA_1106400   transcription factor 25, putative
Plasmodium falciparum PF3D7_0506800   transcription factor 25, putative
Plasmodium knowlesi PKNH_1026800   transcription factor 25, putative
Plasmodium vivax PVX_097900   transcription factor 25, putative
Plasmodium yoelii PY04352   hypothetical protein
Saccharomyces cerevisiae YDR333C   Rqc1p
Schistosoma japonicum Sjp_0114140   Transcription factor 25, putative
Schistosoma japonicum Sjp_0210710   expressed protein
Schistosoma japonicum Sjp_0313200   expressed protein
Schistosoma mansoni Smp_170100   hypothetical protein
Schmidtea mediterranea mk4.001184.00  
Trypanosoma brucei gambiense Tbg972.9.4720   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.8610   Transcriptional repressor TCF25, putative
Trypanosoma congolense TcIL3000_9_3010   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506647.10   Transcriptional repressor TCF25, putative
Trypanosoma cruzi TcCLB.510575.40   Transcriptional repressor TCF25, putative
Toxoplasma gondii TGME49_290240   hypothetical protein

Essentiality

Tb927.9.8610 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.0470 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.0470 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.0470 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb09.211.0470 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1106400 Plasmodium berghei Dispensable plasmo
TGME49_290240 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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

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) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain 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.

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 Tb927.9.8610 (Trypanosoma brucei), Transcriptional repressor TCF25, putative
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