Detailed view for LmjF.36.1850

Basic information

TDR Targets ID: 22092
Leishmania major, DEAD box RNA helicase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.4881 | Length (AA): 527 | MW (Da): 59150 | 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

Gene Ontology

Mouse over links to read term descriptions.
GO:0003676   nucleic acid binding  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 7 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
3 527 2eyq (A) 527 1056 15.00 0 1 0.93 0.41
51 258 1vec (A) 83 288 33.00 0 1 1.02 -2.14
54 422 1s2m (A) 47 411 36.00 0 1 1.33 -1.88
43 519 3jv2 (A) 34 663 16.00 0 1 0.709023 0.37
48 259 3ber (A) 19 228 50.00 0 1 1.16268 -1.89
53 256 3ly5 (A) 172 384 37.00 0 1 0.995997 -1.78
55 414 4kbf (A) 3 358 39.00 0 1 1.26841 -1.13

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_127784)

Species Accession Gene Product
Arabidopsis thaliana AT5G60990   DEAD-box ATP-dependent RNA helicase 10
Babesia bovis BBOV_I004200   DEAD/DEAH box helicase and helicase conserved C-terminal domain containing protein
Babesia bovis BBOV_I004220   DEAD/DEAH box helicase and helicase conserved C-terminal domain containing protein
Brugia malayi Bm1_25080   ATP-dependent RNA helicase T26G10.1 in chromosome III, putative
Candida albicans CaO19.7546   ATP-dependent RNA helicase
Caenorhabditis elegans CELE_T26G10.1   Protein T26G10.1
Cryptosporidium hominis Chro.40362   DEAD box protein
Cryptosporidium parvum cgd4_3180   Rrp3p, eIF4A-1-family RNA SFII helicase (DEXDc+HELICc)
Dictyostelium discoideum DDB_G0280147   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG9253   CG9253 gene product from transcript CG9253-RA
Echinococcus granulosus EgrG_001197500   ATP dependent RNA helicase DDX47
Echinococcus granulosus EgrG_000505900   ATP dependent RNA helicase DDX47
Entamoeba histolytica EHI_111040   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000505900   ATP dependent RNA helicase DDX47
Echinococcus multilocularis EmuJ_001197500   ATP dependent RNA helicase DDX47
Giardia lamblia GL50803_9119   ATP-dependent RNA helicase
Homo sapiens ENSG00000213782   DEAD (Asp-Glu-Ala-Asp) box polypeptide 47
Leishmania braziliensis LbrM.35.2040   DEAD box RNA helicase, putative
Leishmania donovani LdBPK_361930.1   DEAD box RNA helicase, putative
Leishmania infantum LinJ.36.1930   DEAD box RNA helicase, putative
Leishmania major LmjF.36.1850   DEAD box RNA helicase, putative
Leishmania mexicana LmxM.36.1850   DEAD box RNA helicase, putative
Loa Loa (eye worm) LOAG_08140   ATP-dependent RNA helicase in chromosome III
Mus musculus ENSMUSG00000030204   DEAD (Asp-Glu-Ala-Asp) box polypeptide 47
Neospora caninum NCLIV_038460   DEAD box polypeptide 27, related
Oryza sativa 4333678   Os03g0669000
Plasmodium berghei PBANKA_0315100   ATP-dependent RNA helicase DDX47, putative
Plasmodium falciparum PF3D7_0218400   ATP-dependent RNA helicase DDX47, putative
Plasmodium knowlesi PKNH_0402500   ATP-dependent RNA helicase DDX47, putative
Plasmodium vivax PVX_002620   DEAD/DEAH box helicase, putative
Plasmodium yoelii PY01247   DEAD/DEAH box helicase, putative
Saccharomyces cerevisiae YHR065C   RNA-dependent ATPase RRP3
Schistosoma japonicum Sjp_0218700   ko:K01529 DEAD (Asp-Glu-Ala-Asp) box polypeptide 47 [EC:3.6.1.-], putative
Schistosoma japonicum Sjp_0118910   ATP-dependent rRNA helicase RRP3, putative
Schistosoma japonicum Sjp_0050650   Probable ATP-dependent RNA helicase DDX47, putative
Schistosoma japonicum Sjp_0108200   expressed protein
Schistosoma mansoni Smp_090440   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_157660   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.065800.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.021640.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.005657.01   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.000536.05   Putative ATP-dependent RNA helicase
Trypanosoma brucei gambiense Tbg972.10.7670   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.10.6290   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_10_5360   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.507641.140   ATP-dependent DEAD/H RNA helicase, putative
Toxoplasma gondii TGME49_279330   DEAD/DEAH box helicase family protein
Theileria parva TP02_0728   ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_473950   DEAD box ATP-dependent RNA helicase, putative

Essentiality

LmjF.36.1850 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6290 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6290 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6290 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6290 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T26G10.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_T26G10.1 Caenorhabditis elegans larval arrest wormbase
CELE_T26G10.1 Caenorhabditis elegans slow growth wormbase
CELE_T26G10.1 Caenorhabditis elegans sterile wormbase
YHR065C Saccharomyces cerevisiae inviable yeastgenome
TGME49_279330 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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.

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

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Gene identifier LmjF.36.1850 (Leishmania major), DEAD box RNA helicase, putative
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