Detailed view for PBANKA_1322700

Basic information

TDR Targets ID: 827584
Plasmodium berghei, ATP-dependent RNA helicase DBP5, putative
Source Database / ID: 

pI: 5.2814 | Length (AA): 678 | MW (Da): 77266 | 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

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 5 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
8 191 4uos (A) 1 183 16.00 0.24 0.19 0.627186 -2.13
243 666 3ews (B) 68 470 38.00 0 1 0.925069 -0.59
259 467 3fmo (B) 89 300 44.00 0 1 0.95046 -1.45
263 655 3pey (A) 93 456 44.00 0 1 1.13085 -1.14
551 642 2p6n (A) 465 538 46.00 0.000003 0.34 0.280893 0.46

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 4 hs Ring, 16 hs Trophozoite, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Ookinete, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Female gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_127716)

Species Accession Gene Product
Arabidopsis thaliana AT3G53110   DEAD-box ATP-dependent RNA helicase 38
Babesia bovis BBOV_IV000400   DEAD/DEAH box helicase
Brugia malayi Bm1_20060   DEAD/DEAH box helicase family protein
Candida albicans CaO19.1661   RNA helicase
Candida albicans CaO19.9230   RNA helicase
Caenorhabditis elegans CELE_T07D4.4   Protein DDX-19, isoform D
Cryptosporidium hominis Chro.80546   DEAD-box RNA helicase
Cryptosporidium parvum cgd8_4750   Dbp5p-like eIF4A-1-family RNA SFII helicase
Dictyostelium discoideum DDB_G0281553   DEAD-box RNA helicase
Drosophila melanogaster Dmel_CG17023   Dead box protein 80
Echinococcus granulosus EgrG_000793400   ATP dependent RNA helicase DDX25
Echinococcus multilocularis EmuJ_000793400   ATP dependent RNA helicase DDX25
Homo sapiens ENSG00000157349   DEAD (Asp-Glu-Ala-Asp) box polypeptide 19B
Homo sapiens ENSG00000168872   DEAD (Asp-Glu-Ala-Asp) box polypeptide 19A
Homo sapiens ENSG00000109832   DEAD (Asp-Glu-Ala-Asp) box helicase 25
Loa Loa (eye worm) LOAG_06510   hypothetical protein
Mus musculus ENSMUSG00000033658   DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b
Mus musculus ENSMUSG00000032101   DEAD (Asp-Glu-Ala-Asp) box polypeptide 25
Mus musculus ENSMUSG00000015023   DEAD (Asp-Glu-Ala-Asp) box polypeptide 19a
Neospora caninum NCLIV_004640   DEAD/DEAH box helicase, putative
Oryza sativa 4331680   Os03g0158200
Plasmodium berghei PBANKA_1322700   ATP-dependent RNA helicase DBP5, putative
Plasmodium falciparum PF3D7_1459000   ATP-dependent RNA helicase DBP5
Plasmodium knowlesi PKNH_1222800   ATP-dependent RNA helicase DBP5, putative
Plasmodium vivax PVX_117510   ATP-dependent RNA helicase DBP5, putative
Plasmodium yoelii PY06529   DEAD-box RNA helicase
Saccharomyces cerevisiae YOR046C   ATP-dependent RNA helicase DBP5
Schmidtea mediterranea mk4.010983.00  
Toxoplasma gondii TGME49_220860   DEAD/DEAH box helicase
Theileria parva TP01_0055   DEAD box RNA helicase, putative

Essentiality

PBANKA_1322700 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
YOR046C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1322700 this record Plasmodium berghei Essential plasmo
TGME49_220860 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier PBANKA_1322700 (Plasmodium berghei), ATP-dependent RNA helicase DBP5, putative
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