Detailed view for TcCLB.511245.50

Basic information

TDR Targets ID: 47192
Trypanosoma cruzi, WD domain, G-beta repeat/Dip2/Utp12 Family, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6168 | Length (AA): 1075 | MW (Da): 117515 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | 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

PF00400   WD domain, G-beta repeat
PF04003   Dip2/Utp12 Family

Gene Ontology

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

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)

Structural information

Modbase 3D models:

There are 12 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
106 428 2h14 (A) 39 334 19.00 0 1 0.42 0.38
677 828 2h14 (A) 45 196 28.00 0.000000000059 0.61 0.58 -1.05
66 326 1p22 (A) 320 543 29.00 0.0000000016 1 0.384991 0.58
100 276 2ovr (B) 2409 2569 30.00 0.0000003 1 0.457851 0.07
121 274 1gxr (B) 541 685 31.00 0.021 1 0.361456 0.12
161 828 2ymu (A) 17 574 24.00 0 1 0.613595 0.88
167 232 3i2n (A) 75 145 38.00 0.11 0.21 0.0765954 1.36
175 238 5gva (A) 109 170 27.00 0.7 0.93 0.397735 -0.15
725 808 2hes (X) 113 202 31.00 0.0033 0.43 0.41134 -0.6
878 1036 5ic9 (A) 772 927 32.00 0.85 0.21 0.077107 0.92
878 1037 5ica (A) 772 928 22.00 0 1 0.246537 0.06
921 1075 4uos (A) 21 169 14.00 0.25 0.04 0.244886 -0.12

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_127984)

Species Accession Gene Product
Arabidopsis thaliana AT3G21540   transducin/WD40 domain-containing protein
Babesia bovis BBOV_III011180   WD domain, G-beta repeat containing protein
Brugia malayi Bm1_05345   WD-repeat protein 3
Candida albicans CaO19.5106   DOM34-interacting protein
Candida albicans CaO19.12572   DOM34-interacting protein
Caenorhabditis elegans CELE_F13H8.2   Protein F13H8.2
Cryptosporidium hominis Chro.80172   WD repeat-containing protein 3
Cryptosporidium parvum cgd8_1450   11x WD40 repeats containing protein of plant origin
Dictyostelium discoideum DDB_G0282623   U3 small nucleolar ribonucleoprotein
Drosophila melanogaster Dmel_CG8064   CG8064 gene product from transcript CG8064-RA
Echinococcus granulosus EgrG_000694000   WD repeat containing protein 3
Entamoeba histolytica EHI_067830   WD domain containing protein
Echinococcus multilocularis EmuJ_000694000   WD repeat containing protein 3
Giardia lamblia GL50803_16264   WD-40 repeat protein
Homo sapiens 10885   WD repeat domain 3
Leishmania braziliensis LbrM.14.0550   hypothetical protein, conserved
Leishmania donovani LdBPK_140580.1   WD domain, G-beta repeat, putative
Leishmania infantum LinJ.14.0580   hypothetical protein, conserved
Leishmania major LmjF.14.0570   hypothetical protein, conserved
Leishmania mexicana LmxM.14.0570   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_05321   hypothetical protein
Loa Loa (eye worm) LOAG_15938   hypothetical protein
Mus musculus ENSMUSG00000033285   WD repeat domain 3
Neospora caninum NCLIV_032360   WD-40 repeat protein, putative
Oryza sativa 4331644   Os03g0151700
Onchocerca volvulus OVOC11408  
Plasmodium berghei PBANKA_1311800   U3 small nucleolar RNA-associated protein 12, putative
Plasmodium falciparum PF3D7_1448000   U3 small nucleolar RNA-associated protein 12, putative
Plasmodium knowlesi PKNH_1234100   U3 small nucleolar RNA-associated protein 12, putative
Plasmodium vivax PVX_118095   WD domain, G-beta repeat domain containing protein
Plasmodium yoelii PY01106   hypothetical protein
Saccharomyces cerevisiae YLR129W   Dip2p
Schistosoma japonicum Sjp_0311180   WD repeat-containing protein 3 homolog, putative
Schistosoma japonicum Sjp_0012000   WD repeat-containing protein 3, putative
Schistosoma japonicum Sjp_0100790   WD repeat-containing protein 3, putative
Schistosoma japonicum Sjp_0011980   WD repeat-containing protein 3, putative
Schistosoma mansoni Smp_136010   hypothetical protein
Schmidtea mediterranea mk4.000597.05  
Schmidtea mediterranea mk4.000597.06  
Trypanosoma brucei gambiense Tbg972.7.4750   hypothetical protein, conserved
Trypanosoma brucei Tb927.7.4220   WD domain, G-beta repeat/Dip2/Utp12 Family, putative
Trypanosoma congolense TcIL3000_7_3400   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.511245.50   WD domain, G-beta repeat/Dip2/Utp12 Family, putative
Trypanosoma cruzi TcCLB.506661.110   WD domain, G-beta repeat/Dip2/Utp12 Family, putative
Toxoplasma gondii TGME49_232380   WD domain, G-beta repeat-containing protein
Theileria parva TP02_0738   hypothetical protein
Trichomonas vaginalis TVAG_342320   WD repeat containing protein, putative

Essentiality

TcCLB.511245.50 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.4220 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.4220 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.4220 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.4220 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F13H8.2 Caenorhabditis elegans slow growth wormbase
CELE_F13H8.2 Caenorhabditis elegans sterile wormbase
YLR129W Saccharomyces cerevisiae inviable yeastgenome
TGME49_232380 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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

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.511245.50 (Trypanosoma cruzi), WD domain, G-beta repeat/Dip2/Utp12 Family, putative
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