Detailed view for TGME49_226550

Basic information

TDR Targets ID: 259918
Toxoplasma gondii, TBC domain containing protein
Source Database / ID:  ToxoDB 

pI: 4.3113 | Length (AA): 315 | MW (Da): 35991 | 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

PF00566   Rab-GTPase-TBC domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0005097   Rab GTPase activator activity  
GO:0032313   regulation of Rab GTPase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
11 290 4nc6 (A) 546 829 18.00 0.0000005 1 1.11839 -0.64
62 240 2qq8 (A) 445 634 23.00 0.27 1 0.903254 -1.02
77 289 3qye (A) 865 1066 17.00 0 1 0.92329 -1.03
166 307 3u2r (A) 11 136 35.00 0.055 0.74 0.481794 0.86

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 ME49 merozoite. Hehl AB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 Oocyst, ME49 Bradyzoite. Gregory Fritz HM Sibley/Greg
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.
  • Gregory ToxoDB
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.

Orthologs

Ortholog group members (OG5_134579)

Species Accession Gene Product
Babesia bovis BBOV_III002840   conserved hypothetical protein
Cryptosporidium hominis Chro.40241   hypothetical protein
Cryptosporidium parvum cgd4_2130   TBC domain containing protein
Dictyostelium discoideum DDB_G0290597   B-box zinc finger-containing protein
Entamoeba histolytica EHI_009510   TBC domain containing protein
Leishmania braziliensis LbrM.35.6700   hypothetical protein, conserved
Leishmania donovani LdBPK_366650.1   GTPase activating protein, putative
Leishmania infantum LinJ.36.6650   hypothetical protein, conserved
Leishmania major LmjF.36.6370   hypothetical protein, conserved
Leishmania mexicana LmxM.36.6370   hypothetical protein, conserved
Plasmodium berghei PBANKA_0417400   GTPase-activating protein, putative
Plasmodium falciparum PF3D7_0904000   GTPase-activating protein, putative
Plasmodium knowlesi PKNH_0701700   GTPase-activating protein, putative
Plasmodium vivax PVX_098645   GTPase-activating protein, putative
Plasmodium yoelii PY01151   TBC domain, putative
Trypanosoma brucei gambiense Tbg972.10.9410   GTPase activating protein, putative
Trypanosoma brucei Tb927.10.7680   GTPase activating protein, putative
Trypanosoma congolense TcIL3000_10_6570   GTPase activating protein, putative
Trypanosoma cruzi TcCLB.508231.170   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506251.30   hypothetical protein, conserved
Toxoplasma gondii TGME49_226550   TBC domain containing protein
Theileria parva TP04_0105   hypothetical protein, conserved

Essentiality

TGME49_226550 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.7680 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.7680 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.7680 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.7680 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0417400 Plasmodium berghei Slow plasmo
TGME49_226550 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
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_226550 (Toxoplasma gondii), TBC domain containing protein
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