Detailed view for PF3D7_1324500

Basic information

TDR Targets ID: 43
Plasmodium falciparum, DEAD box helicase, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.6981 | Length (AA): 1099 | MW (Da): 130702 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 2

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

PF06733   DEAD_2
PF13307   Helicase C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016818   hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides  
GO:0006139   nucleobase, nucleoside, nucleotide and nucleic acid metabolic process  
GO:0016020   membrane  
GO:0005634   nucleus  
GO:0003676   nucleic acid binding  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004003   ATP-dependent DNA helicase activity  
GO:0003677   DNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
278 515 4dkj (A) 89 332 29.00 0.49 0.42 0.114161 2.26
668 1017 3crv (A) 237 541 26.00 0.00041 1 0.346071 1.04

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
Mid 40-60% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, late trophozoite, Oocyst, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, early schizont, early trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Ring. Zanghi G
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127999)

Species Accession Gene Product
Arabidopsis thaliana AT1G79890   RAD3-like DNA-binding helicase protein
Babesia bovis BBOV_I004620   DNA repair helicase (rad3) and DEAD_2 domain containing protein
Brugia malayi Bm1_22935   helicase
Candida albicans CaO19.2000   chromosome transmission
Candida albicans CaO19.9551   chromosome transmission
Caenorhabditis elegans CELE_M03C11.2   Protein CHL-1
Cryptosporidium hominis Chro.70391   helicase
Cryptosporidium parvum cgd7_3510   helicase, putative
Drosophila melanogaster Dmel_CG11403   CG11403 gene product from transcript CG11403-RA
Echinococcus granulosus EgrG_000856200   ATP dependent RNA helicase DDX11
Echinococcus multilocularis EmuJ_000856200   ATP dependent RNA helicase DDX11
Giardia lamblia GL50803_92673   CHL1-like protein
Homo sapiens ENSG00000013573   DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11
Homo sapiens 102725121   putative ATP-dependent RNA helicase DDX12-like
Leishmania braziliensis LbrM.03.0500   DNA repair helicase, putative
Leishmania braziliensis LbrM.15.1330   DNA repair helicase, putative
Leishmania donovani LdBPK_030570.1   DNA repair helicase, putative
Leishmania infantum LinJ.03.0570   DNA repair helicase, putative
Leishmania major LmjF.03.0590   DNA repair helicase, putative
Leishmania mexicana LmxM.03.0590   DNA repair helicase, putative
Loa Loa (eye worm) LOAG_14466   hypothetical protein
Loa Loa (eye worm) LOAG_10580   helicase
Mus musculus ENSMUSG00000035842   DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11
Oryza sativa 9272109   Os05g0219800
Plasmodium berghei PBANKA_1339700   DEAD box helicase, putative
Plasmodium falciparum PF3D7_1324500   DEAD box helicase, putative
Plasmodium knowlesi PKNH_1204300   DEAD box helicase, putative
Plasmodium vivax PVX_116650   DEAD box helicase, putative
Plasmodium yoelii PY00821   55525-51977
Saccharomyces cerevisiae YPL008W   Chl1p
Schistosoma japonicum Sjp_0093110   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma mansoni Smp_101300   chl1 helicase homolog
Schistosoma mansoni Smp_130210   chl1 helicase homolog
Schmidtea mediterranea mk4.008719.01   Probable ATP-dependent RNA helicase DDX11
Schmidtea mediterranea mk4.008719.00   Probable ATP-dependent RNA helicase DDX11
Schmidtea mediterranea mk4.023131.00   Probable ATP-dependent RNA helicase DDX11
Trypanosoma brucei gambiense Tbg972.10.4420   DNA repair helicase, putative
Trypanosoma brucei Tb927.10.3550   DNA repair helicase, putative
Trypanosoma congolense TcIL3000_10_2960   DNA repair helicase, putative
Trypanosoma cruzi TcCLB.510311.130   DNA repair helicase, putative
Trypanosoma cruzi TcCLB.508153.1120   DNA repair helicase, putative
Toxoplasma gondii TGME49_227630   hypothetical protein
Theileria parva TP03_0644   DNA helicase, putative
Trichomonas vaginalis TVAG_373000   regulator of telomere elongation helicase 1 rtel1, putative

Essentiality

PF3D7_1324500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.3550 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.3550 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.3550 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.3550 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_M03C11.2 Caenorhabditis elegans embryonic lethal wormbase
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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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

Druggability index (range: 0 to 1): 0.1

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.

User comments

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Gene identifier PF3D7_1324500 (Plasmodium falciparum), DEAD box helicase, putative
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