Detailed view for TcCLB.484299.4

Basic information

TDR Targets ID: 54889
Trypanosoma cruzi, ATP-dependent DEAD/H RNA helicase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.2178 | Length (AA): 172 | MW (Da): 18850 | Paralog Number: 1

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

Gene Ontology

Mouse over links to read term descriptions.
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP 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 6 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
2 172 1vec (A) 85 253 32.00 0 1 1.5 -1.49
3 171 1fuu (B) 22 186 28.00 0 1 1.53 -2.02
3 172 1hv8 (A) 7 172 33.00 0 1 1.57 -1.91
1 172 4d25 (A) 179 356 32.00 0 1 1.4009 -0.64
2 172 3ber (A) 24 192 45.00 0.0026 1 1.63629 -1.24
3 171 2gxq (A) 2 168 38.00 0 1 1.47336 -0.81

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 epimastigote, metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_128272)

Species Accession Gene Product
Arabidopsis thaliana AT1G16280   DEAD-box ATP-dependent RNA helicase 36
Babesia bovis BBOV_III005880   DEAD/DEAH box helicase family protein
Brugia malayi Bm1_16875   Helicase conserved C-terminal domain containing protein
Candida albicans CaO19.13973   similar to S. cerevisiae DBP8 (YHR169W) ATP-dependent RNA helicase involved in rRNA processing
Candida albicans CaO19.6652   similar to S. cerevisiae DBP8 (YHR169W) ATP-dependent RNA helicase involved in rRNA processing
Caenorhabditis elegans CELE_H20J04.4   Protein H20J04.4, isoform A
Cryptosporidium hominis Chro.10035   ATP-dependent RNA helicase
Cryptosporidium parvum cgd1_250   ATP-dependent RNA helicase, putative
Dictyostelium discoideum DDB_G0270396   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG12759   DEAD box protein 45A
Echinococcus granulosus EgrG_000805100   ATP dependent RNA helicase DDX49
Entamoeba histolytica EHI_027760   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000035000   ATP dependent RNA helicase DDX49
Echinococcus multilocularis EmuJ_000805100   ATP dependent RNA helicase DDX49
Giardia lamblia GL50803_95898   ATP-dependent RNA helicase
Homo sapiens ENSG00000105671   DEAD (Asp-Glu-Ala-Asp) box polypeptide 49
Leishmania braziliensis LbrM.05.0360   ATP-dependent RNA helicase, putative
Leishmania donovani LdBPK_050360.1   ATP-dependent RNA helicase, putative
Leishmania infantum LinJ.05.0360   ATP-dependent RNA helicase, putative
Leishmania major LmjF.05.0360   ATP-dependent RNA helicase, putative
Leishmania mexicana LmxM.05.0360   ATP-dependent RNA helicase, putative
Loa Loa (eye worm) LOAG_01335   Ddx49-A-prov protein
Mus musculus ENSMUSG00000057788   DEAD (Asp-Glu-Ala-Asp) box polypeptide 49
Neospora caninum NCLIV_001850   ATP-dependent RNA helicase, putative
Oryza sativa 4344011   Os07g0633500
Plasmodium berghei PBANKA_1347500   ATP-dependent RNA helicase DBP8, putative
Plasmodium falciparum PF3D7_1332700   ATP-dependent RNA helicase DBP8, putative
Plasmodium knowlesi PKNH_1267900   ATP-dependent RNA helicase DBP8, putative
Plasmodium vivax PVX_082565   DEAD/DEAH box helicase domain containing protein
Plasmodium yoelii PY05724   putative ATP-dependent RNA helicase
Saccharomyces cerevisiae YHR169W   ATP-dependent RNA helicase DBP8
Schistosoma japonicum Sjp_0024960   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma mansoni Smp_123410.1   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_123410.2   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.011023.00   Probable ATP-dependent RNA helicase DDX49
Schmidtea mediterranea mk4.000139.10   Kinesin heavy chain
Schmidtea mediterranea mk4.021997.01   Probable ATP-dependent RNA helicase DDX49
Trypanosoma brucei gambiense Tbg972.10.12660   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.10.10380   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma congolense TcIL3000_10_8860   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma cruzi TcCLB.503555.40   ATP-dependent RNA helicase, putative
Trypanosoma cruzi TcCLB.484299.4   ATP-dependent DEAD/H RNA helicase, putative
Toxoplasma gondii TGME49_295010   DEAD/DEAH box helicase domain-containing protein
Theileria parva TP02_0332   ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_437230   DEAD box ATP-dependent RNA helicase, putative

Essentiality

TcCLB.484299.4 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.10380 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.10380 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.10380 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.10380 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_H20J04.4 Caenorhabditis elegans slow growth wormbase
YHR169W Saccharomyces cerevisiae inviable yeastgenome
TGME49_295010 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.

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 TcCLB.484299.4 (Trypanosoma cruzi), ATP-dependent DEAD/H RNA helicase, putative
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