Detailed view for TGME49_208842

Basic information

TDR Targets ID: 258406
Toxoplasma gondii, DEAD/DEAH box helicase domain-containing protein
Source Database / ID:  ToxoDB 

pI: 8.2594 | Length (AA): 1844 | MW (Da): 202906 | Paralog Number: 0

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

Druggability Group : DG4

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:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
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 10 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
25 1066 2eyq (A) 338 1146 22.00 0 1 0.43 1.68
228 428 1vec (A) 83 288 16.00 0 0.98 0.39 -0.68
305 512 5cwp (A) 2 226 24.00 0.7 0.67 0.401998 -1.11
397 485 1ddb (A) 33 126 31.00 0.067 0.05 0.254365 -0.19
635 1053 1gm5 (A) 40 447 23.00 0 0.7 0.176423 1.72
719 1614 2eyq (A) 45 984 18.00 0 1 0.4249 1.55
851 1592 1gm5 (A) 244 739 42.00 0 1 0.156486 1.58
1418 1551 2d7d (A) 426 561 30.00 0.00007 0.9 0.496768 -0.82
1468 1531 1s2m (A) 314 376 38.00 0.0045 0.87 0.468807 0.15
1697 1830 5cwq (A) 4 142 19.00 0.088 0.09 0.356868 -1.44

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 VEG Tachyzoite, ME49 Tachyzoite. Gregory
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile ME49 Bradyzoite. Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile ME49 merozoite. Hehl AB
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile ME49 Oocyst. Fritz HM
Show/Hide expression data references
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Gregory ToxoDB

Orthologs

Ortholog group members (OG5_131505)

Species Accession Gene Product
Arabidopsis thaliana AT2G01440   DEAD/DEAH box RNA helicase family protein
Escherichia coli b3652   ATP-dependent DNA helicase
Mycobacterium leprae ML1671c   PROBABLE ATP-DEPENDENT DNA HELICASE RECG
Mycobacterium tuberculosis Rv2973c   Probable ATP-dependent DNA helicase RecG
Mycobacterium ulcerans MUL_1985   ATP-dependent DNA helicase RecG
Neospora caninum NCLIV_003350   ATP-dependent DNA helicase, putative
Oryza sativa 4330491   Os02g0710800
Schmidtea mediterranea mk4.035922.02  
Toxoplasma gondii TGME49_208842   DEAD/DEAH box helicase domain-containing protein
Treponema pallidum TP0687   ATP-dependent DNA helicase RecG
Wolbachia endosymbiont of Brugia malayi Wbm0635   RecG-like helicase

Essentiality

TGME49_208842 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b3652 Escherichia coli non-essential goodall
TGME49_208842 this record Toxoplasma gondii Essentiality uncertain 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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

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.

User comments

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Gene identifier TGME49_208842 (Toxoplasma gondii), DEAD/DEAH box helicase domain-containing protein
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