Detailed view for Tb927.11.10650

Basic information

TDR Targets ID: 17959
Trypanosoma brucei, Adaptor protein complex AP-3 subunit beta-3
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.0829 | Length (AA): 918 | MW (Da): 100360 | 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

PF01602   Adaptin N terminal region

Gene Ontology

Mouse over links to read term descriptions.
GO:0030123   AP-3 adaptor complex  
GO:0005905   coated pit  
GO:0003674   molecular_function  
GO:0030117   membrane coat  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0016192   vesicle-mediated transport  
GO:0006886   intracellular protein transport  

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
39 691 4uqi (B) 4 618 29.00 0 1 0.800855 0.66
120 220 4jw3 (C) 15 103 33.00 0 0.98 0.350502 -0.3
158 268 3woz (A) 650 765 14.00 0 0.87 0.326383 -0.81
740 918 3zgh (A) 205 371 10.00 0 0.01 0.158377 -0.04

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_128048)

Species Accession Gene Product
Arabidopsis thaliana AT3G55480   AP3-complex subunit beta-A
Brugia malayi Bm1_48425   Adaptin N terminal region family protein
Candida albicans CaO19.8903   similar to S. cerevisiae APL6 (YGR261C) beta-adaptin, large chain of the clathrin-associated protein AP-3 complex
Candida albicans CaO19.1323   similar to S. cerevisiae APL6 (YGR261C) beta-adaptin, large chain of the clathrin-associated protein AP-3 complex
Caenorhabditis elegans CELE_R11A5.1   Protein APB-3, isoform A
Dictyostelium discoideum DDB_G0274003   beta adaptin
Dictyostelium discoideum DDB_G0272578   beta adaptin
Drosophila melanogaster Dmel_CG11427   ruby
Echinococcus granulosus EgrG_000341200   AP 3 complex subunit beta 2
Entamoeba histolytica EHI_083430   Adapter-related protein complex 3 (AP-3) subunit, putative
Echinococcus multilocularis EmuJ_000341200   AP 3 complex subunit beta 2
Homo sapiens ENSG00000132842   adaptor-related protein complex 3, beta 1 subunit
Homo sapiens ENSG00000103723   adaptor-related protein complex 3, beta 2 subunit
Leishmania braziliensis LbrM.35.5510   adaptin, putative
Leishmania donovani LdBPK_365490.1   Adaptor protein complex AP-3 subunit beta-3
Leishmania infantum LinJ.36.5490   adaptin, putative
Leishmania major LmjF.36.5260   adaptin, putative
Leishmania mexicana LmxM.36.5260   adaptin, putative
Loa Loa (eye worm) LOAG_01807   hypothetical protein
Mus musculus ENSMUSG00000021686   adaptor-related protein complex 3, beta 1 subunit
Mus musculus ENSMUSG00000062444   adaptor-related protein complex 3, beta 2 subunit
Oryza sativa 4326400   Os01g0973300
Saccharomyces cerevisiae YGR261C   Apl6p
Schistosoma japonicum Sjp_0072590   IPR010733,Protein of unknown function DUF1308,domain-containing
Schistosoma japonicum Sjp_0082760   AP-3 complex subunit beta-2, putative
Schistosoma japonicum Sjp_0108240   AP-3 complex subunit beta-2, putative
Schistosoma japonicum Sjp_0038580   hypothetical protein
Schistosoma japonicum Sjp_0110830   expressed protein
Schistosoma mansoni Smp_140210   adapter-related protein complex 3 beta subunit
Schmidtea mediterranea mk4.019515.00  
Schmidtea mediterranea mk4.003511.03  
Schmidtea mediterranea mk4.019515.01  
Trypanosoma brucei gambiense Tbg972.11.11940   beta-adaptin 3, putative,adaptin AP-3 complex beta3 subunit, putative
Trypanosoma brucei Tb927.11.10650   Adaptor protein complex AP-3 subunit beta-3
Trypanosoma congolense TcIL3000_0_26160   Adaptor protein complex AP-3 subunit beta-3
Trypanosoma congolense TcIL3000.11.11300   Adaptor protein complex AP-3 subunit beta-3
Trypanosoma cruzi TcCLB.506673.60   Adaptor protein complex AP-3 subunit beta-3
Trypanosoma cruzi TcCLB.504827.40   Adaptor protein complex AP-3 subunit beta-3
Trichomonas vaginalis TVAG_343480   AP-3 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_492750   AP-3 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_083310   AP-3 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_437420   AP-3 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_038150   conserved hypothetical protein
Trichomonas vaginalis TVAG_050470   AP-3 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_390490   AP-1 complex subunit beta-1, putative

Essentiality

Tb927.11.10650 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.2420 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.2420 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.2420 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.2420 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R11A5.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_R11A5.1 Caenorhabditis elegans larval arrest wormbase
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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.

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 3 days). References: 21363968
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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Gene identifier Tb927.11.10650 (Trypanosoma brucei), Adaptor protein complex AP-3 subunit beta-3
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