Detailed view for TcCLB.503885.90

Basic information

TDR Targets ID: 38192
Trypanosoma cruzi, WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.2392 | Length (AA): 879 | MW (Da): 93488 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG4

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

PF00400   WD domain, G-beta repeat
PF08324   PUL domain
PF09070   PFU (PLAA family ubiquitin binding)

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Structural information

Modbase 3D models:

There are 8 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
19 309 1p22 (A) 267 538 26.00 0.00000046 1 0.6 -0.85
2 316 4wjs (A) 176 515 29.00 0 1 0.522862 -0.03
8 316 4d6v (A) 4 310 27.00 0.00000022 1 0.665036 -0.42
18 265 1p22 (A) 346 544 35.00 0 0.9 0.363639 0.1
31 316 1vyh (C) 122 407 28.00 0 1 0.55287 0.04
105 271 4ggc (A) 303 476 31.00 0.000000015 0.94 0.547489 -0.22
413 488 2k89 (A) 52 127 28.00 0.0000008 1 0.510162 -1.11
590 873 3ebb (A) 534 795 18.00 0 1 0.437794 -0.42

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 epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile metacyclic. 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_128172)

Species Accession Gene Product
Arabidopsis thaliana AT3G18860   transducin family protein / WD-40 repeat family protein
Babesia bovis BBOV_II004810   WD domain, G-beta repeat containing protein
Brugia malayi Bm1_21170   WD domain containing protein
Candida albicans CaO19.12292   ubiquitin proteolysis
Candida albicans CaO19.4829   ubiquitin proteolysis
Caenorhabditis elegans CELE_C05C10.6   Protein UFD-3, isoform B
Caenorhabditis elegans CELE_C05C10.6a   Protein UFD-3, isoform C
Cryptosporidium hominis Chro.40262   At3g18860/MCB22_3
Cryptosporidium parvum cgd4_2320   At3g18860/MCB22_3
Dictyostelium discoideum DDB_G0291003   hypothetical protein
Drosophila melanogaster Dmel_CG5105   Phospholipase A2 activator protein
Echinococcus granulosus EgrG_000477800   phospholipase A 2 activating protein
Echinococcus multilocularis EmuJ_000477800   phospholipase A 2 activating protein
Homo sapiens ENSG00000137055   phospholipase A2-activating protein
Leishmania braziliensis LbrM.24.1970   hypothetical protein, conserved
Leishmania donovani LdBPK_241970.1   WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
Leishmania infantum LinJ.24.1970   hypothetical protein, conserved
Leishmania major LmjF.24.1900   hypothetical protein, conserved
Leishmania mexicana LmxM.24.1900   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_13163   hypothetical protein
Loa Loa (eye worm) LOAG_05630   WD domain-containing protein
Mus musculus 18786   phospholipase A2, activating protein
Neospora caninum NCLIV_040730   hypothetical protein
Oryza sativa 4342300   Os07g0123700
Plasmodium berghei PBANKA_1139400   polyubiquitin binding protein, putative
Plasmodium falciparum PF3D7_1363400   polyubiquitin binding protein, putative
Plasmodium knowlesi PKNH_1107900   polyubiquitin binding protein, putative
Plasmodium yoelii PY05801   Arabidopsis thaliana At3g18860/MCB22_3
Saccharomyces cerevisiae YKL213C   Doa1p
Schistosoma japonicum Sjp_0129740   Phospholipase A-2-activating protein, putative
Schistosoma mansoni Smp_017750   phospholipase A-2-activating protein
Schmidtea mediterranea mk4.001405.12  
Schmidtea mediterranea mk4.002121.09  
Schmidtea mediterranea mk4.001405.13   Phospholipase A-2-activating protein
Schmidtea mediterranea mk4.002121.10   Phospholipase A-2-activating protein
Trypanosoma brucei gambiense Tbg972.8.6390   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.6330   WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
Trypanosoma congolense TcIL3000_0_44870   PFU (PLAA family ubiquitin binding), putative
Trypanosoma cruzi TcCLB.503885.90   WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
Trypanosoma cruzi TcCLB.511903.290   WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
Toxoplasma gondii TGME49_288210   PUL domain-containing protein
Theileria parva TP02_0270   hypothetical protein
Trichomonas vaginalis TVAG_358850   phospholipase A-2-activating protein, putative
Trichomonas vaginalis TVAG_287800   phospholipase A-2-activating protein, putative

Essentiality

TcCLB.503885.90 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.6330 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.6330 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.6330 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.8.6330 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C05C10.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_C05C10.6 Caenorhabditis elegans slow growth wormbase
TGME49_288210 Toxoplasma gondii Probably essential 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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
Species Known druggable target Linked compounds Reference
Homo sapiens phospholipase A2-activating protein Compounds References
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.503885.90 (Trypanosoma cruzi), WD domain, G-beta repeat/PFU (PLAA family ubiquitin binding), putative
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