Detailed view for PF3D7_0721300

Basic information

TDR Targets ID: 433
Plasmodium falciparum, ATP-dependent RNA helicase DBP7, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.0929 | Length (AA): 899 | MW (Da): 105030 | Paralog Number: 0

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

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

PF00270   DEAD/DEAH box helicase
PF00271   Helicase conserved C-terminal domain
PF13959   Domain of unknown function (DUF4217)

Gene Ontology

Mouse over links to read term descriptions.
GO:0004004   ATP-dependent RNA helicase activity  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0016070   RNA metabolic process  

Metabolic Pathways

Purine metabolism (KEGG)

Structural information

Modbase 3D models:

There are 9 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
171 780 1s2m (A) 46 422 24.00 0 1 0.19 0.77
172 353 1fuu (B) 22 190 31.00 0.00000000023 1 0.72 -1.89
3 47 1llm (C) 111 155 11.00 0.00031 0 0.241556 -1.1
162 371 2pl3 (A) 57 262 36.00 0 1 0.720793 -1.06
164 356 3eiq (A) 26 203 38.00 0.0000000000055 1 0.626883 -0.61
179 764 3i5x (A) 112 497 31.00 0 1 0.381035 1.12
622 762 1hv8 (A) 216 356 25.00 0.027 0.73 0.507741 -0.5
669 762 1s2m (A) 308 401 27.00 0.93 0.98 0.427461 0.23
690 761 2jgn (A) 486 554 40.00 0.15 0.72 0.266289 1.37

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, merozoite, sporozoite, early ring, early trophozoite, late ring, late trophozoite, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile early schizont, Oocyst, Male Gametocyte. PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, gametocyte, late schizont, Female Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 48 hs. Otto TD
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_128340)

Species Accession Gene Product
Arabidopsis thaliana AT2G40700   DEAD-box ATP-dependent RNA helicase 17
Babesia bovis BBOV_IV009500   DEAD/DEAH box helicase protein family
Candida albicans CaO19_6902   hypothetical protein
Candida albicans CaO19.6902   ATP-dependent RNA helicase
Cryptosporidium hominis Chro.40207   CG8611-PB
Cryptosporidium parvum cgd4_1840   Dbp7p, eIF4A-a-family RNA SFII helicase (DEXDc+HELICc)
Dictyostelium discoideum DDB_G0271708   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG8611   CG8611 gene product from transcript CG8611-RB
Echinococcus granulosus EgrG_000110700   ATP dependent RNA helicase DDX31
Entamoeba histolytica EHI_165110   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000110700   ATP dependent RNA helicase DDX31
Giardia lamblia GL50803_16042   ATP-dependent RNA helicase
Homo sapiens ENSG00000125485   DEAD (Asp-Glu-Ala-Asp) box polypeptide 31
Leishmania braziliensis LbrM.27.0060   DEAD-box helicase-like protein
Leishmania donovani LdBPK_270050.1   DEAD-box helicase-like protein
Leishmania infantum LinJ.27.0050   DEAD-box helicase-like protein
Leishmania major LmjF.27.0050   DEAD-box helicase-like protein
Leishmania mexicana LmxM.27.0050   DEAD-box helicase-like protein
Mus musculus ensembl-mmu:ENSMUSG00000026806   DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31
Neospora caninum NCLIV_066580   ATP-dependent RNA helicase, putative
Oryza sativa 4337589   Os05g0110500
Plasmodium berghei PBANKA_0618800   ATP-dependent RNA helicase DBP7, putative
Plasmodium falciparum PF3D7_0721300   ATP-dependent RNA helicase DBP7, putative
Plasmodium knowlesi PKNH_0316700   ATP-dependent RNA helicase DBP7, putative
Plasmodium vivax PVX_096271   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_096273   DEAD/DEAH box ATP-dependent RNA helicase, putative
Plasmodium yoelii PY04724   Drosophila melanogaster BcDNA.GH02833
Saccharomyces cerevisiae YKR024C   Dbp7p
Schistosoma japonicum Sjp_0117640   expressed protein
Schistosoma japonicum Sjp_0082780   Probable ATP-dependent RNA helicase DDX31, putative
Schistosoma japonicum Sjp_0025770   Probable ATP-dependent RNA helicase DDX31, putative
Schistosoma mansoni Smp_057020   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.015775.00  
Schmidtea mediterranea mk4.019158.01   Probable ATP-dependent RNA helicase DDX31
Trypanosoma brucei gambiense Tbg972.3.230   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.3.620   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_0_07370   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.509719.20   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.506713.30   ATP-dependent DEAD/H RNA helicase, putative
Toxoplasma gondii TGME49_251480   DEAD/DEAH box helicase domain-containing protein
Theileria parva TP01_0822   DEAD box RNA helicase, putative
Trichomonas vaginalis TVAG_314580   DEAD box ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_314600   DEAD box ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_004080   DEAD box ATP-dependent RNA helicase, putative

Essentiality

PF3D7_0721300 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.620 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.620 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.620 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.620 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0618800 Plasmodium berghei Slow plasmo
TGME49_251480 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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
  • 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.

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

2 literature references were collected for this gene.

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

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Gene identifier PF3D7_0721300 (Plasmodium falciparum), ATP-dependent RNA helicase DBP7, putative
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