Detailed view for LmjF.34.2050

Basic information

TDR Targets ID: 27211
Leishmania major, ATP-dependent RNA helicase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.2254 | Length (AA): 803 | MW (Da): 89691 | 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
PF08147   DBP10CT (NUC160) domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0004004   ATP-dependent RNA helicase activity  
GO:0005634   nucleus  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003723   RNA 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
2 566 2eyq (A) 564 1144 15.00 0 1 0.76 0.21
20 225 1vec (A) 83 287 35.00 0 1 0.94 -2.53
24 229 3ber (A) 26 230 39.00 0 1 0.848238 -1.33
24 227 2oxc (A) 64 266 36.00 0 1 0.823747 -1.41
24 621 2zj2 (A) 3 636 15.00 0 1 0.788407 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 60-80% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_128298)

Species Accession Gene Product
Arabidopsis thaliana AT1G77030   putative DEAD-box ATP-dependent RNA helicase 29
Babesia bovis BBOV_I003430   DEAD/DEAH box helicase and helicase conserved C-terminal domain containing protein
Brugia malayi Bm1_41715   DEAD/DEAH box helicase family protein
Candida albicans CaO19.5991   likely DEAD box ATP-dependent RNA helicase similar to S. cerevisiae DBP10 (YDL031W) nucleolar protein involved in rRNA processin
Candida albicans CaO19.13412   likely DEAD box ATP-dependent RNA helicase similar to S. cerevisiae DBP10 (YDL031W) nucleolar protein involved in rRNA processin
Caenorhabditis elegans CELE_Y94H6A.5   Protein Y94H6A.5, isoform B
Cryptosporidium hominis Chro.30274   hypothetical protein
Cryptosporidium parvum cgd3_2330   hypothetical protein
Dictyostelium discoideum DDB_G0292992   hypothetical protein
Drosophila melanogaster Dmel_CG32344   CG32344 gene product from transcript CG32344-RA
Echinococcus granulosus EgrG_000122300   ATP dependent RNA helicase DDX54
Entamoeba histolytica EHI_069410   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000122300   ATP dependent RNA helicase DDX54
Giardia lamblia GL50803_90950   ATP-dependent RNA helicase
Homo sapiens ENSG00000123064   DEAD (Asp-Glu-Ala-Asp) box polypeptide 54
Leishmania braziliensis LbrM.20.1540   ATP-dependent RNA helicase, putative
Leishmania donovani LdBPK_341800.1   ATP-dependent RNA helicase, putative
Leishmania infantum LinJ.34.1800   ATP-dependent RNA helicase, putative
Leishmania major LmjF.34.2050   ATP-dependent RNA helicase, putative
Leishmania mexicana LmxM.33.2050   ATP-dependent RNA helicase, putative
Loa Loa (eye worm) LOAG_08896   DEAD/DEAH box helicase
Mus musculus ENSMUSG00000029599   DEAD (Asp-Glu-Ala-Asp) box polypeptide 54
Neospora caninum NCLIV_003170   ATP-dependent RNA helicase, putative
Oryza sativa 4345577   Os08g0416100
Onchocerca volvulus OVOC1554  
Plasmodium berghei PBANKA_0703700   ATP-dependent RNA helicase DBP10, putative
Plasmodium falciparum PF3D7_0827000   ATP-dependent RNA helicase DBP10, putative
Plasmodium knowlesi PKNH_1321100   ATP-dependent RNA helicase DBP10, putative
Plasmodium vivax PVX_089015   ATP-dependent RNA helicase DBP10, putative
Plasmodium yoelii PY03587   similar ATP-dependent RNA Helicase
Saccharomyces cerevisiae YDL031W   Dbp10p
Schistosoma japonicum Sjp_0043800   ko:K01529 DEAD (Asp-Glu-Ala-Asp) box polypeptide 54 [EC:3.6.1.-], putative
Schistosoma japonicum Sjp_0122990   ko:K01529 ATP-dependent RNA-helicase [EC:3.6.1.-], putative
Schistosoma mansoni Smp_020200   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.003274.01   ATP-dependent RNA helicase DDX54
Trypanosoma brucei gambiense Tbg972.4.2580   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.4.2630   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_4_2520   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_0_44840   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.506635.20   ATP-dependent RNA helicase, putative
Trypanosoma cruzi TcCLB.508027.70   ATP-dependent RNA helicase, putative
Toxoplasma gondii TGME49_208540   DEAD/DEAH box helicase domain-containing protein
Theileria parva TP03_0195   ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_109450   DEAD box ATP-dependent RNA helicase, putative

Essentiality

LmjF.34.2050 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2630 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.2630 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.2630 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2630 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y94H6A.5 Caenorhabditis elegans slow growth wormbase
YDL031W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0703700 Plasmodium berghei Slow plasmo
TGME49_208540 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 LmjF.34.2050 (Leishmania major), ATP-dependent RNA helicase, putative
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