Detailed view for PBANKA_1108300

Basic information

TDR Targets ID: 827914
Plasmodium berghei, pre-mRNA-processing ATP-dependent RNA helicase PRP5, putative
Source Database / ID: 

pI: 8.8092 | Length (AA): 1331 | MW (Da): 156055 | Paralog Number: 0

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

Druggability Group : DG

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

PF00270   DEAD/DEAH box helicase
PF00271   Helicase conserved C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0003676   nucleic acid binding  

Metabolic Pathways

Spliceosome (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
10 1212 5xh6 (A) 83 1289 11.00 0 1 0.660632 1.44
22 87 5wst (A) 866 931 23.00 0.93 0 0.463987 -2.31
527 781 4a4d (A) 53 303 43.00 0 1 0.609385 -1.18
786 939 2hjv (A) 211 363 38.00 0 1 0.542002 -1.67

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 16 hs Trophozoite, Female gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Ookinete, 4 hs Ring, Erthyrocytic stages, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Gametocyte, 22 hs Schizont. Otto TD
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_127962)

Species Accession Gene Product
Arabidopsis thaliana AT3G09620   DEAD-box ATP-dependent RNA helicase 45
Arabidopsis thaliana AT1G20920   DEAD Box RNA Helicase RCF1
Babesia bovis BBOV_I004920   DEAD/DEAH box helicase and helicase conserved C-terminal domain containing protein
Brugia malayi Bm1_39745   KIAA0801 protein
Candida albicans CaO19.14123   spliceosomal RNA helicase
Candida albicans CaO19.6831   spliceosomal RNA helicase
Caenorhabditis elegans CELE_F53H1.1   Protein F53H1.1
Cryptosporidium hominis Chro.80099   ATP-dependent RNA helicase
Cryptosporidium parvum cgd8_800   Prp5p C terminal KH. eIF4A-1-family RNA SFII helicase
Dictyostelium discoideum DDB_G0275443   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG6227   CG6227 gene product from transcript CG6227-RA
Echinococcus granulosus EgrG_001058000   ATP dependent RNA helicase DDX46
Entamoeba histolytica EHI_013960   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_001058000   ATP dependent RNA helicase DDX46
Homo sapiens ENSG00000145833   DEAD (Asp-Glu-Ala-Asp) box polypeptide 46
Leishmania braziliensis LbrM.08.0080   ATP-dependent DEAD/H RNA helicase, putative
Leishmania donovani LdBPK_080080.1   ATP-dependent DEAD/H RNA helicase, putative
Leishmania infantum LinJ.08.0080   ATP-dependent DEAD/H RNA helicase, putative
Leishmania major LmjF.08.0080   ATP-dependent DEAD/H RNA helicase, putative
Leishmania mexicana LmxM.08.0080   ATP-dependent DEAD/H RNA helicase, putative
Loa Loa (eye worm) LOAG_00736   RNA helicase
Mus musculus ENSMUSG00000021500   DEAD (Asp-Glu-Ala-Asp) box polypeptide 46
Neospora caninum NCLIV_005180   hypothetical protein
Oryza sativa 4344716   Os08g0159900
Onchocerca volvulus OVOC5073  
Plasmodium berghei PBANKA_1108300   pre-mRNA-processing ATP-dependent RNA helicase PRP5, putative
Plasmodium falciparum PF3D7_0508700   pre-mRNA-processing ATP-dependent RNA helicase PRP5, putative
Plasmodium knowlesi PKNH_1024900   pre-mRNA-processing ATP-dependent RNA helicase PRP5, putative
Plasmodium vivax PVX_097995   ATP-dependent RNA helicase, putative
Plasmodium yoelii PY05239   similar to RNA helicases, putative
Saccharomyces cerevisiae YBR237W   DEAD-box RNA helicase PRP5
Schistosoma japonicum Sjp_0313390   expressed protein
Schistosoma mansoni Smp_174210.1   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_174210.2   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_174210.3   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.004776.00   Probable ATP-dependent RNA helicase DDX46
Schmidtea mediterranea mk4.017211.00  
Schmidtea mediterranea mk4.000410.01  
Trypanosoma brucei gambiense Tbg972.5.5020   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.5.3600   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_0_04480   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_5_4040   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.507811.30   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.511649.169   ATP-dependent DEAD/H RNA helicase, putative
Toxoplasma gondii TGME49_221660   DEAD/DEAH box helicase domain-containing protein
Theileria parva TP03_0532   ATP-dependent RNA helicase, putative
Theileria parva TP03_0533   hypothetical protein
Trichomonas vaginalis TVAG_283670   DEAD box ATP-dependent RNA helicase, putative

Essentiality

PBANKA_1108300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.3600 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.3600 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.5.3600 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.3600 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F53H1.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53H1.1 Caenorhabditis elegans larval arrest wormbase
CELE_F53H1.1 Caenorhabditis elegans slow growth wormbase
CELE_F53H1.1 Caenorhabditis elegans sterile wormbase
YBR237W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1108300 this record Plasmodium berghei Essential plasmo
TGME49_221660 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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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Gene identifier PBANKA_1108300 (Plasmodium berghei), pre-mRNA-processing ATP-dependent RNA helicase PRP5, putative
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