Detailed view for TcCLB.507811.20

Basic information

TDR Targets ID: 54501
Trypanosoma cruzi, delta-adaptin, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.9544 | Length (AA): 1136 | MW (Da): 126980 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

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:0005794   Golgi apparatus  
GO:0030117   membrane coat  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0008565   protein transporter activity  
GO:0016192   vesicle-mediated transport  
GO:0015031   protein 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 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
11 707 1qgr (A) 70 874 9.00 0 1 0.48 -0.59
163 403 2db0 (A) 11 245 15.00 0 0.91 0.37 -1.48
36 636 4uqi (B) 12 627 15.00 0 1 0.609849 0.43
106 220 4k92 (A) 405 518 11.00 0 0.4 0.301032 -1.18
145 371 4hxt (A) 2 245 17.00 0 1 0.382624 -0.84

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 metacyclic. Smircich P
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile epimastigote. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_128382)

Species Accession Gene Product
Arabidopsis thaliana AT1G48760   AP-3 complex subunit delta
Brugia malayi Bm1_55840   Adaptin
Brugia malayi Bm1_57425   Adaptin
Candida albicans CaO19.248   similar to S. cerevisiae APL5 (YPL195W) delta-like, large subunit of the clathrin-associated protein AP-3 complex
Candida albicans CaO19.7879   similar to S. cerevisiae APL5 (YPL195W) delta-like, large subunit of the clathrin-associated protein AP-3 complex
Caenorhabditis elegans CELE_W09G10.4   Protein APD-3, isoform B
Dictyostelium discoideum DDB_G0279537   adaptor-related protein complex 3, delta 1 subunit
Drosophila melanogaster Dmel_CG10986   garnet
Echinococcus granulosus EgrG_000083800   Clathrin coatomer adaptor adaptin N terminal
Entamoeba histolytica EHI_164810   Adapter-related protein complex 3 (AP-3) subunit, putative
Echinococcus multilocularis EmuJ_000083800   Clathrin coatomer adaptor, adaptin, N terminal
Homo sapiens ENSG00000065000   adaptor-related protein complex 3, delta 1 subunit
Leishmania braziliensis LbrM.08.0090   adaptor complex protein (AP) 3 delta subunit 1, putative
Leishmania donovani LdBPK_080090.1   adaptor complex protein (AP) 3 delta subunit 1, putative
Leishmania infantum LinJ.08.0090   adaptor complex protein (AP) 3 delta subunit 1, putative
Leishmania major LmjF.08.0090   adaptor complex protein (AP) 3 delta subunit 1, putative
Leishmania mexicana LmxM.08.0090   adaptor complex protein (AP) 3 delta subunit 1, putative
Loa Loa (eye worm) LOAG_02545   hypothetical protein
Mus musculus ENSMUSG00000020198   adaptor-related protein complex 3, delta 1 subunit
Neospora caninum NCLIV_053720   adaptin, putative
Oryza sativa 4324036   Os01g0512200
Saccharomyces cerevisiae YPL195W   Apl5p
Schistosoma japonicum Sjp_0036880   AP-3 complex subunit delta-1, putative
Schistosoma mansoni Smp_138860   hypothetical protein
Schmidtea mediterranea mk4.000443.00  
Schmidtea mediterranea mk4.000875.02  
Schmidtea mediterranea mk4.000875.04   AP-3 complex subunit delta-1
Schmidtea mediterranea mk4.000875.03   AP-3 complex subunit delta-1
Trypanosoma brucei gambiense Tbg972.5.5040   delta-adaptin, putative,adaptor complex protein (AP) 3 delta subunit 1, putative
Trypanosoma brucei Tb927.5.3610   adaptor complex protein (AP) 3 delta subunit 1, putative
Trypanosoma congolense TcIL3000_5_4050   delta-adaptin, putative
Trypanosoma cruzi TcCLB.511653.10   delta-adaptin, putative
Trypanosoma cruzi TcCLB.507811.20   delta-adaptin, putative
Toxoplasma gondii TGME49_309370   adaptin n terminal region domain-containing protein
Trichomonas vaginalis TVAG_170460   AP-3 complex subunit delta, putative
Trichomonas vaginalis TVAG_123380   conserved hypothetical protein
Trichomonas vaginalis TVAG_159440   AP-3 complex subunit delta, putative
Trichomonas vaginalis TVAG_457300   AP-3 complex subunit delta-1, putative
Trichomonas vaginalis TVAG_375210   yks4 protein, putative
Trichomonas vaginalis TVAG_415510   AP-3 complex subunit delta-1, putative

Essentiality

TcCLB.507811.20 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.3610 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.3610 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.5.3610 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.3610 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_W09G10.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_W09G10.4 Caenorhabditis elegans larval arrest wormbase
TGME49_309370 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • 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.
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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

No literature references available for this target.

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User comments

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Gene identifier TcCLB.507811.20 (Trypanosoma cruzi), delta-adaptin, putative
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