Detailed view for Tb927.10.6830

Basic information

TDR Targets ID: 15645
Trypanosoma brucei, bardet-biedl syndrome 4 protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.9238 | Length (AA): 466 | MW (Da): 51895 | 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

PF13432   Tetratricopeptide repeat

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
109 185 5ljm (A) 5 109 34.00 0.18 0.71 0.336736 0.31
125 442 4g1t (A) 44 410 15.00 0 1 0.700803 1.03
412 466 1kt0 (A) 325 376 10.00 0.46 0.01 0.197826 -0.48
415 454 4cgv (A) 212 251 10.00 0.59 0.02 0.300637 -1.32

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
NA% 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_130599)

Species Accession Gene Product
Brugia malayi Bm1_38320   TPR Domain containing protein
Caenorhabditis elegans CELE_F58A4.14   Protein BBS-4, isoform B
Drosophila melanogaster Dmel_CG13232   Bardet-Biedl syndrome 4 ortholog (H. sapiens)
Giardia lamblia GL50803_10529   Bardet-Biedl syndrome 4 protein-like protein
Homo sapiens ENSG00000140463   Bardet-Biedl syndrome 4
Leishmania braziliensis LbrM.35.2520   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania donovani LdBPK_362410.1   bardet-biedl syndrome 4 protein
Leishmania infantum LinJ.36.2410   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania major LmjF.36.2280   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania mexicana LmxM.36.2280   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_10276   TPR Domain containing protein
Mus musculus ENSMUSG00000025235   Bardet-Biedl syndrome 4 (human)
Schistosoma japonicum Sjp_0015840   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma japonicum Sjp_0015830   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma japonicum Sjp_0092050   IPR013026,Tetratricopeptide region,domain-containing
Schistosoma japonicum Sjp_0015860   Bardet-Biedl syndrome 4 protein, putative
Schistosoma japonicum Sjp_0015850   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma mansoni Smp_029480   bardet-biedl syndrome 4-like protein
Schmidtea mediterranea mk4.002776.02   Bardet-Biedl syndrome 4 protein homolog
Schmidtea mediterranea mk4.002776.00   Bardet-Biedl syndrome 4 protein homolog
Trypanosoma brucei gambiense Tbg972.10.8330   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Trypanosoma brucei Tb927.10.6830   bardet-biedl syndrome 4 protein
Trypanosoma cruzi TcCLB.510187.130   bardet-biedl syndrome 4 protein
Treponema pallidum TP0460   hypothetical protein
Trichomonas vaginalis TVAG_070580   tetratricopeptide repeat protein, tpr, putative

Essentiality

Tb927.10.6830 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6830 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6830 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6830 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.6830 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F58A4.14 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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) 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Tb927.10.6830 (Trypanosoma brucei), bardet-biedl syndrome 4 protein
Title for this comment
Comment