Detailed view for Tb927.11.10750

Basic information

TDR Targets ID: 20138
Trypanosoma brucei, pre-mRNA-splicing factor CWC22, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.1897 | Length (AA): 581 | MW (Da): 66830 | Paralog Number: 0

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

Druggability Group : DG3

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

PF02847   MA3 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0003723   RNA binding  
GO:0016070   RNA metabolic process  
GO:0006412   translation  

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
2 292 4c9b (B) 131 406 34.00 0 1 0.948061 -1.13
38 525 3fey (A) 29 508 13.00 0 1 0.877131 0.39
50 225 2i2o (A) 12 207 13.00 0.0066 0.64 0.400526 -1.18
470 555 1dp7 (P) 2 71 39.00 0.38 0.15 0.259321 0.66

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 80-100% 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_127721)

Species Accession Gene Product
Arabidopsis thaliana AT1G80930   MIF4G and MA3 domain-containing protein
Babesia bovis BBOV_IV006530   MIF4G/MA3 domains containing protein
Brugia malayi Bm1_44100   hypothetical protein
Candida albicans CaO19.1771   similar to S. pombe Cdf22 (SPBC13E7.01) and S. cerevisiae CWC22 (YGR278W) spliceosome associated protein, complexed with Myb-rel
Candida albicans CaO19.9340   similar to S. pombe Cdf22 (SPBC13E7.01) and S. cerevisiae CWC22 (YGR278W) spliceosome associated protein, complexed with Myb-rel
Caenorhabditis elegans CELE_F33A8.1   Protein LET-858
Cryptosporidium hominis Chro.80346   hypothetical protein
Cryptosporidium hominis Chro.80345   cell cycle control protein cwf22
Cryptosporidium parvum cgd8_2960   NIC+MI domains containing protein. nucampholin/yeast Cwc22p like protein involved in mRNA splicing
Dictyostelium discoideum DDB_G0267796   initiation factor eIF-4 gamma middle domain-containing protein
Drosophila melanogaster Dmel_CG12750   nucampholin
Echinococcus granulosus EgrG_000529100   pre mRNA splicing factor CWC22
Entamoeba histolytica EHI_093720   cell cycle control protein, putative
Echinococcus multilocularis EmuJ_000529100   pre mRNA splicing factor CWC22
Homo sapiens ENSG00000163510   CWC22 spliceosome-associated protein
Leishmania braziliensis LbrM.35.5410   hypothetical protein, conserved
Leishmania donovani LdBPK_365390.1   pre-mRNA-splicing factor CWC22, putative
Leishmania infantum LinJ.36.5390   hypothetical protein, conserved
Leishmania major LmjF.36.5160   hypothetical protein, conserved
Leishmania mexicana LmxM.36.5160   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_13454   pre-mRNA-splicing factor CWC22
Loa Loa (eye worm) LOAG_06258   TK/FER protein kinase
Mus musculus ENSMUSG00000027014   CWC22 spliceosome-associated protein homolog (S. cerevisiae)
Neospora caninum NCLIV_009840   cell cycle control protein, putative
Oryza sativa 4351904   Os12g0256300
Onchocerca volvulus OVOC7  
Plasmodium berghei PBANKA_1452800   pre-mRNA-splicing factor CWC22, putative
Plasmodium falciparum PF3D7_1238300   pre-mRNA-splicing factor CWC22, putative
Plasmodium knowlesi PKNH_1458100   pre-mRNA-splicing factor CWC22, putative
Plasmodium vivax PVX_100865   cell cycle control protein, putative
Plasmodium yoelii PY04825   Drosophila melanogaster GH13383p
Saccharomyces cerevisiae YGR278W   Cwc22p
Schistosoma japonicum Sjp_0115020   Nucampholin homolog, putative
Schistosoma mansoni Smp_171070   cell cycle control protein cwf22
Schmidtea mediterranea mk4.006963.02  
Schmidtea mediterranea mk4.007088.01   Pre-mRNA-splicing factor CWC22 homolog
Schmidtea mediterranea mk4.010305.00   Pre-mRNA-splicing factor CWC22 homolog
Schmidtea mediterranea mk4.002298.00   Pre-mRNA-splicing factor CWC22 homolog
Trypanosoma brucei gambiense Tbg972.11.12040   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.10750   pre-mRNA-splicing factor CWC22, putative
Trypanosoma congolense TcIL3000.11.11410   pre-mRNA-splicing factor CWC22, putative
Trypanosoma cruzi TcCLB.506155.40   pre-mRNA-splicing factor CWC22, putative
Toxoplasma gondii TGME49_320430   cell-cycle-control protein (translation regulation), putative
Theileria parva TP01_1202   cell cycle control protein, putative
Trichomonas vaginalis TVAG_493850   cell cycle control protein cwf22, putative

Essentiality

Tb927.11.10750 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.2520 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.2520 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.2520 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.2520 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F33A8.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F33A8.1 Caenorhabditis elegans larval arrest wormbase
CELE_F33A8.1 Caenorhabditis elegans slow growth wormbase
CELE_F33A8.1 Caenorhabditis elegans sterile wormbase
YGR278W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1452800 Plasmodium berghei Essential plasmo
TGME49_320430 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.
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 3 days). References: 21363968
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) 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 procyclic forms . 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.

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Gene identifier Tb927.11.10750 (Trypanosoma brucei), pre-mRNA-splicing factor CWC22, putative
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