Detailed view for PVX_123240

Basic information

TDR Targets ID: 266488
Plasmodium vivax, DEAD/DEAH box helicase, putative
Source Database / ID:  PlasmoDB 

pI: 9.2685 | Length (AA): 923 | MW (Da): 103587 | Paralog Number: 0

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

Druggability Group : DG5

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:0004386   helicase activity  
GO:0003676   nucleic acid binding  
GO:0008026   ATP-dependent helicase activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
13 848 2eyq (A) 283 1056 11.00 0 1 0.52 0.74
382 919 2eyq (A) 626 1144 13.00 0 1 0.34 0.65
601 758 1fuk (A) 237 394 33.00 0.0000000000016 1 0.73 -1.79
4 109 3ult (A) 10 118 16.00 0.78 0.01 0.262243 -0.66
301 750 4d25 (A) 146 559 48.00 0 1 1.07944 -1.08
322 760 5e7j (A) 166 578 53.00 0 1 1.11352 -0.94
341 527 2oxc (A) 63 229 35.00 0.000000088 1 0.5215 -0.85
600 750 2p6n (A) 410 560 46.00 0 1 0.869497 -1.82
885 921 1tf3 (A) 25 63 14.00 0.14 0 0.127487 -0.57

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 intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_126849)

Species Accession Gene Product
Arabidopsis thaliana AT2G42520   DEAD-box ATP-dependent RNA helicase 37
Arabidopsis thaliana AT3G58510   DEAD-box ATP-dependent RNA helicase 11
Arabidopsis thaliana AT3G58570   DEAD-box ATP-dependent RNA helicase 52
Babesia bovis BBOV_IV001840   DEAD/DEAH box helicase
Brugia malayi Bm1_16185   ATP-dependent RNA helicase An3
Candida albicans CaO19.7392   ATP-dependent RNA helicase of DEAD box family
Caenorhabditis elegans CELE_Y54E10A.9   Protein VBH-1, isoform C
Caenorhabditis elegans CELE_Y71H2AM.19   Protein LAF-1, isoform A
Cryptosporidium hominis Chro.40341   DEAD box polypeptide, Y chromosome-related
Cryptosporidium parvum cgd4_3000   Dbp1p, eIF4a-1 family RNA SFII helicase (DEXDC+HELICc)
Dictyostelium discoideum DDB_G0283661   DEAD/DEAH box helicase
Dictyostelium discoideum DDB_G0293064   hypothetical protein
Drosophila melanogaster Dmel_CG9748   belle
Escherichia coli b0797   ATP-dependent RNA helicase
Echinococcus granulosus EgrG_002000100   DEAD box ATP dependent RNA helicase
Echinococcus granulosus EgrG_001183300   ATP dependent RNA helicase ded1
Echinococcus granulosus EgrG_000098400   atp dependent rna helicase ddxx
Entamoeba histolytica EHI_175030   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000098400   atp dependent rna helicase ddxx atp dependent rna helicase an
Echinococcus multilocularis EmuJ_000567900   ATP dependent RNA helicase DDX3X
Echinococcus multilocularis EmuJ_001183300   ATP dependent RNA helicase DDX3X
Giardia lamblia GL50803_15048   ATP-dependent RNA helicase-like protein
Giardia lamblia GL50803_34684   DEAD box RNA helicase Vasa
Homo sapiens ENSG00000152670   DEAD (Asp-Glu-Ala-Asp) box polypeptide 4
Homo sapiens ENSG00000215301   DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked
Homo sapiens ENSG00000067048   DEAD (Asp-Glu-Ala-Asp) box helicase 3, Y-linked
Leishmania braziliensis LbrM.32.0470   ATP-dependent RNA helicase, putative
Leishmania donovani LdBPK_320410.1   ATP-dependent RNA helicase HEL67
Leishmania infantum LinJ.32.0410   ATP-dependent RNA helicase, putative
Leishmania mexicana LmxM.31.0400   ATP-dependent RNA helicase, putative
Loa Loa (eye worm) LOAG_09017   hypothetical protein
Loa Loa (eye worm) LOAG_04577   ATP-dependent RNA helicase An3
Mus musculus ENSMUSG00000021758   DEAD (Asp-Glu-Ala-Asp) box polypeptide 4
Mus musculus ENSMUSG00000039224   DNA segment, Chr 1, Pasteur Institute 1
Mus musculus ENSMUSG00000000787   DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3, X-linked
Mus musculus ENSMUSG00000069045   DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, Y-linked
Mycobacterium ulcerans MUL_0393   ATP-dependent RNA helicase, RhlE1
Neospora caninum NCLIV_046690   VASA RNA helicase, related
Oryza sativa 4334493   Os03g0805200
Oryza sativa 4350856   Os11g0599500
Oryza sativa 4342669   Os07g0202100
Onchocerca volvulus OVOC3136  
Plasmodium berghei PBANKA_1426900   ATP-dependent RNA helicase DBP1, putative
Plasmodium falciparum PF3D7_0810600   ATP-dependent RNA helicase DBP1, putative
Plasmodium knowlesi PKNH_1430100   ATP-dependent RNA helicase DBP1, putative
Plasmodium vivax PVX_123240   DEAD/DEAH box helicase, putative
Plasmodium yoelii PY02224   DEAD box polypeptide, Y chromosome-related
Saccharomyces cerevisiae YPL119C   putative DEAD-box ATP-dependent RNA helicase DBP1
Saccharomyces cerevisiae YOR204W   DEAD-box ATP-dependent RNA helicase DED1
Schistosoma japonicum Sjp_0300150   Putative ATP-dependent RNA helicase Pl10, putative
Schistosoma japonicum Sjp_0218520   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma japonicum Sjp_0102930   Putative ATP-dependent RNA helicase Pl10, putative
Schistosoma mansoni Smp_068440   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_033710   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.014847.00  
Schmidtea mediterranea mk4.061079.00  
Schmidtea mediterranea mk4.001067.00   ATP-dependent RNA helicase bel
Schmidtea mediterranea mk4.009251.00   VASA-2
Schmidtea mediterranea mk4.008832.00  
Schmidtea mediterranea mk4.000124.18   VASA-1
Schmidtea mediterranea mk4.016873.00  
Schmidtea mediterranea mk4.033831.00  
Schmidtea mediterranea mk4.016873.01   ATP-dependent RNA helicase bel
Schmidtea mediterranea mk4.030806.00  
Schmidtea mediterranea mk4.022185.00  
Schmidtea mediterranea mk4.052451.00  
Schmidtea mediterranea mk4.000039.11  
Schmidtea mediterranea mk4.012107.00  
Schmidtea mediterranea mk4.019455.00  
Trypanosoma brucei gambiense Tbg972.10.17700   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.10.14550   ATP-dependent RNA helicase HEL67
Trypanosoma congolense TcIL3000_10_12440   ATP-dependent RNA helicase HEL67
Trypanosoma cruzi TcCLB.511285.120   ATP-dependent RNA helicase HEL67
Trypanosoma cruzi TcCLB.506213.120   ATP-dependent RNA helicase HEL67
Toxoplasma gondii TGME49_226250   DEAD (Asp-Glu-Ala-Asp) box polypeptide DDX3X
Theileria parva TP03_0478   RNA helicase, putative
Trichomonas vaginalis TVAG_055330   DEAD box ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_193230   DEAD box ATP-dependent RNA helicase, putative

Essentiality

PVX_123240 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.14550 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.14550 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.14550 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.14550 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0797 Escherichia coli non-essential goodall
CELE_Y71H2AM.19 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y71H2AM.19 Caenorhabditis elegans larval arrest wormbase
CELE_Y54E10A.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y54E10A.9 Caenorhabditis elegans slow growth wormbase
YOR204W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1426900 Plasmodium berghei Slow plasmo
TGME49_226250 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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
Species Known druggable target Linked compounds Reference
Homo sapiens DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked Compounds References
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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PVX_123240 (Plasmodium vivax), DEAD/DEAH box helicase, putative
Title for this comment
Comment