Detailed view for Tb927.4.1340

Basic information

TDR Targets ID: 19435
Trypanosoma brucei, cleavage and polyadenylation specificity factor subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.3472 | Length (AA): 770 | MW (Da): 85314 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00753   Metallo-beta-lactamase superfamily
PF07521   Zn-dependent metallo-hydrolase RNA specificity domain
PF10996   Beta-Casp domain
PF11718   Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term

Gene Ontology

Mouse over links to read term descriptions.
GO:0016787   hydrolase activity  

Metabolic Pathways

mRNA surveillance pathway (KEGG)

Structural information

Modbase 3D models:

No model available for this protein in Modbase.

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_127285)

Species Accession Gene Product
Arabidopsis thaliana AT1G61010   cleavage and polyadenylation specificity factor subunit 73-I
Babesia bovis BBOV_IV001630   cleavage and polyadenylation specifity factor
Brugia malayi Bm1_34605   cpsf3-prov protein
Candida albicans CaO19.5486   subunit of polyadenylation factor I
Candida albicans CaO19.12941   subunit of polyadenylation factor I
Caenorhabditis elegans CELE_Y67H2A.1   Protein CPSF-3
Cryptosporidium hominis Chro.80059   cleavage and polyadenylation specifity factor protein
Cryptosporidium parvum cgd8_460   cleavage and polyadenylation specifity factor protein, CPSF metallobeta-lactamase
Dictyostelium discoideum DDB_G0274799   DNA repair metallo-beta-lactamase domain-containing protein
Drosophila melanogaster Dmel_CG7698   Cleavage and polyadenylation specificity factor 73
Echinococcus granulosus EgrG_001021200   Cleavage and polyadenylation specificity factor
Entamoeba histolytica EHI_136170   cleavage and polyadenylation specificity factor 73 kDa subunit, putative
Echinococcus multilocularis EmuJ_001021200   Cleavage and polyadenylation specificity factor
Giardia lamblia GL50803_4498   Cleavage and polyadenylation specificity factor, 73 kDa subunit
Homo sapiens ENSG00000119203   cleavage and polyadenylation specific factor 3, 73kDa
Leishmania braziliensis LbrM.20.3010   cleavage and polyadenylation specificity factor, putative
Leishmania donovani LdBPK_343210.1   cleavage and polyadenylation specificity factor, putative
Leishmania infantum LinJ.34.3210   cleavage and polyadenylation specificity factor, putative
Leishmania major LmjF.34.3430   cleavage and polyadenylation specificity factor, putative
Leishmania mexicana LmxM.33.3430   cleavage and polyadenylation specificity factor, putative
Loa Loa (eye worm) LOAG_06840   cpsf3-prov protein
Mus musculus ENSMUSG00000054309   cleavage and polyadenylation specificity factor 3
Neospora caninum NCLIV_014990   hypothetical protein
Oryza sativa 4334816   Os03g0852900
Plasmodium berghei PBANKA_1302400   cleavage and polyadenylation specificity factor subunit 3, putative
Plasmodium falciparum PF3D7_1438500   cleavage and polyadenylation specificity factor subunit 3, putative
Plasmodium knowlesi PKNH_1243900   cleavage and polyadenylation specificity factor subunit 3, putative
Plasmodium vivax PVX_221290   unspecified product
Plasmodium vivax PVX_118570   cleavage and polyadenylation specificity factor, putative
Plasmodium vivax PVX_209290   unspecified product
Plasmodium yoelii PY00665   cleavage and polyadenylation specificity factor, 73 kDa subunit
Saccharomyces cerevisiae YLR277C   Ysh1p
Schistosoma japonicum Sjp_0310280   Cleavage and polyadenylation specificity factor subunit 3, putative
Schistosoma japonicum Sjp_0011280   Cleavage and polyadenylation specificity factor subunit 3, putative
Schistosoma mansoni Smp_084380   cleavage and polyadenylation specificity factor-related
Schmidtea mediterranea mk4.015559.00  
Schmidtea mediterranea mk4.000158.08  
Schmidtea mediterranea mk4.030240.00  
Schmidtea mediterranea mk4.005289.01  
Schmidtea mediterranea mk4.000158.07   Cleavage and polyadenylation specificity factor subunit 3
Trypanosoma brucei gambiense Tbg972.4.1170   cleavage and polyadenylation specificity factor subunit, putative
Trypanosoma brucei Tb927.4.1340   cleavage and polyadenylation specificity factor subunit, putative
Trypanosoma congolense TcIL3000_4_840   cleavage and polyadenylation specificity factor subunit, putative
Trypanosoma cruzi TcCLB.508693.10   cleavage and polyadenylation specificity factor, putative
Toxoplasma gondii TGME49_285200   cleavage and polyadenylation specifity factor protein
Theileria parva TP03_0560   cleavage and polyadenylation specificity factor protein, putative
Theileria parva TP03_0561   hypothetical protein
Trichomonas vaginalis TVAG_437970   cleavage and polyadenylation specificity factor, putative

Essentiality

Tb927.4.1340 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1340 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.1340 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.1340 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.1340 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y67H2A.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y67H2A.1 Caenorhabditis elegans larval arrest wormbase
YLR277C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1302400 Plasmodium berghei Essential plasmo
TGME49_285200 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0263 0.5703 1
0.0033 0.5 0.5
0.0307 0.4131 1
0.0304 0.3722 1
0.0224 1 1
0.03 0.9089 1
0.0215 0.5175 0.5
0.0183 1 1
0.0304 0.3722 1
0.0079 0.301 0.5
0.0208 0.4509 1
0.0101 0.5 0.5
0.0153 1 0.5
0.0173 0.5058 1
0.0098 0.5 0.5
0.0019 0.5 0.5
0.0333 0.487 1
0.0161 1 1
0.0151 0.5 0.5
0.0051 0.5023 0.5
0.0284 0.6112 1
0.0141 0.5 0.5
0.0068 0.616 0.5
0.0139 0.3313 1
0.0259 0.336 1
0.0153 1 0.5
0.032 0.4025 1
0.0134 0.3422 1
0.0282 0.3876 1
0.0065 0.5 0.5
0.0088 0.4106 0.5
0.0085 0.271 1
0.0249 0.3365 1
0.0031 0.5 0.5
0.0101 0.5 0.5
0.0367 0.531 1
0.0115 1 0.5
0.03 0.9089 1
0.0286 1 0.5
0.024 0.347 1
0.035 0.2506 1
0.0138 0.8072 0.8072
0.0404 0.2792 1
0.0156 1 1

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 Tb927.4.1340 (Trypanosoma brucei), cleavage and polyadenylation specificity factor subunit, putative
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