Detailed view for PF3D7_1302700

Basic information

TDR Targets ID: 48
Plasmodium falciparum, ATP-dependent RNA helicase DHR1, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.4321 | Length (AA): 1566 | MW (Da): 183685 | 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
PF04408   Helicase associated domain (HA2)

Gene Ontology

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

Metabolic Pathways

Purine metabolism (KEGG)

Structural information

Modbase 3D models:

There are 18 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
461 642 1q0u (A) 28 211 18.00 0.0000000045 0.28 0.26 -1.04
1 129 4uos (A) 5 134 15.00 0.0064 0.09 0.334775 -1.23
1 53 4jzl (A) 177 229 11.00 0.96 0 0.220244 -1.06
19 75 4w7z (A) 173 229 16.00 0.57 0 0.378798 -2.12
165 353 2ap3 (A) 29 195 31.00 0.36 0.2 0.21839 0.46
400 642 3llm (A) 330 563 30.00 0.00000017 1 0.511772 -0.75
401 1240 5aor (A) 327 972 22.00 0.000000000011 1 0.325798 1.71
459 1442 2xau (A) 94 748 29.00 0 1 0.303952 1.46
582 1558 3s5k (A) 140 1168 17.00 0.0016 0.72 0.542482 1.35
766 843 2j8k (A) 70 148 23.00 0.86 0.43 0.403508 -1.47
1 73 4tql (A) 86 158 12.00 0.12 0 0.250679 -1.08
3 56 2oto (A) 92 145 19.00 0.78 0 0.281608 -0.81
118 296 4uos (A) 1 177 18.00 0.036 0.07 0.351523 -1
188 333 4uos (A) 1 154 28.00 0.78 0.68 0.435857 -0.91
238 1181 5aor (A) 175 921 23.00 0 1 0.420546 1.7
407 639 3llm (A) 340 563 31.00 0.00000018 1 0.52683 -0.88
452 1450 2xau (A) 90 748 30.00 0 1 0.310489 1.45
756 851 2j8k (A) 48 148 22.00 0.9 0.45 0.319091 -0.89

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 60-80% 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, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile late trophozoite, Oocyst, Female Gametocyte. PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Male Gametocyte. Otto TD Lasonder E
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
  • 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.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_128042)

Species Accession Gene Product
Arabidopsis thaliana AT1G33390   protein FASCIATED STEM 4
Babesia bovis BBOV_IV010310   RNA helicase, putative
Brugia malayi Bm1_30095   DEAD/DEAH box helicase family protein
Candida albicans CaO19.9637   potential helicase similar to S. cerevisiae U3 snoRNP component ECM16 (YMR128W)
Candida albicans CaO19.2090   potential helicase similar to S. cerevisiae U3 snoRNP component ECM16 (YMR128W)
Caenorhabditis elegans CELE_C06E1.10   Protein RHA-2
Cryptosporidium hominis Chro.50438   ATP-dependent RNA helicase
Cryptosporidium parvum cgd5_4090   DHR1/Ecm16p/kurz. HrpA family SFII helicase
Dictyostelium discoideum DDB_G0287351   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG3228   kurz
Echinococcus granulosus EgrG_001028200   ATP dependent RNA helicase DHX37
Entamoeba histolytica EHI_077640   ATP-dependent helicase, putative
Echinococcus multilocularis EmuJ_001028200   ATP dependent RNA helicase DHX37
Giardia lamblia GL50803_17387   ATP-dependent RNA helicase DHR1, putative
Homo sapiens ENSG00000150990   DEAH (Asp-Glu-Ala-His) box polypeptide 37
Leishmania braziliensis LbrM.30.3290   ATP-dependent RNA helicase, putative
Leishmania donovani LdBPK_303300.1   ATP-dependent RNA helicase, putative
Leishmania infantum LinJ.30.3300   ATP-dependent RNA helicase, putative
Leishmania major LmjF.30.3250   ATP-dependent RNA helicase, putative
Leishmania mexicana LmxM.29.3250   ATP-dependent RNA helicase, putative
Loa Loa (eye worm) LOAG_02827   DEAD/DEAH box helicase
Mus musculus ENSMUSG00000029480   DEAH (Asp-Glu-Ala-His) box polypeptide 37
Neospora caninum NCLIV_001920   ATP-dependent helicase, putative
Oryza sativa 4330659   Os02g0736600
Plasmodium berghei PBANKA_1401200   ATP-dependent RNA helicase DHR1, putative
Plasmodium falciparum PF3D7_1302700   ATP-dependent RNA helicase DHR1, putative
Plasmodium knowlesi PKNH_1402900   ATP-dependent RNA helicase DHR1, putative
Plasmodium vivax PVX_121975   DEAD/DEAH box ATP-dependent RNA helicase, putative
Plasmodium yoelii PY00742   probable ATP-dependent RNA helicase dhr1
Saccharomyces cerevisiae YMR128W   Ecm16p
Schistosoma japonicum Sjp_0085170   Putative ATP-dependent RNA helicase PB1A10.06c, putative
Schistosoma japonicum Sjp_0039250   RNA-binding protein 8A, putative
Schistosoma japonicum Sjp_0110100   Probable ATP-dependent RNA helicase kurz, putative
Schistosoma mansoni Smp_123500   ATP-dependent RNA Helicase
Schmidtea mediterranea mk4.001328.01   Putative atp-dependent RNA helicase
Trypanosoma brucei gambiense Tbg972.6.4420   pre-mRNA splicing factor ATP-dependent RNA helicase, putative,ATP-dependent RNA helicase, putative
Trypanosoma brucei Tb927.6.4600   pre-mRNA splicing factor ATP-dependent RNA helicase, putative
Trypanosoma congolense TcIL3000_6_4050   pre-mRNA splicing factor ATP-dependent RNA helicase, putative
Trypanosoma cruzi TcCLB.506831.79   pre-mRNA splicing factor ATP-dependent RNA helicase, putative
Trypanosoma cruzi TcCLB.432067.10   ATP-dependent RNA helicase, putative
Trypanosoma cruzi TcCLB.511731.50   ATP-dependent RNA helicase, putative
Toxoplasma gondii TGME49_295070   helicase associated domain (ha2) protein
Theileria parva TP01_0698   hypothetical protein
Trichomonas vaginalis TVAG_214120   ATP-dependent RNA helicase, putative

Essentiality

PF3D7_1302700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.4600 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.4600 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.4600 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.4600 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C06E1.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_C06E1.10 Caenorhabditis elegans larval arrest wormbase
CELE_C06E1.10 Caenorhabditis elegans slow growth wormbase
CELE_C06E1.10 Caenorhabditis elegans sterile wormbase
YMR128W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1401200 Plasmodium berghei Essential plasmo
TGME49_295070 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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 PF3D7_1302700 (Plasmodium falciparum), ATP-dependent RNA helicase DHR1, putative
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