Detailed view for TGME49_274130

Basic information

TDR Targets ID: 258103
Toxoplasma gondii, TBC domain-containing protein
Source Database / ID:  ToxoDB 

pI: 5.5003 | Length (AA): 2116 | MW (Da): 226434 | 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 9 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
76 326 1fkm (A) 249 507 14.00 0 0.9 0.09 0.2
442 688 2qfz (A) 213 453 16.00 0.0000076 0.52 0.20033 -0.05
548 642 2kr0 (A) 186 285 33.00 0.93 0.09 0.125796 1.91
1510 1724 3dzx (A) 228 493 24.00 0 1 0.311007 -0.2
1535 1724 2qfz (A) 300 505 28.00 0 1 0.422192 -0.83
1535 1724 3dzx (A) 289 493 30.00 0.00000000016 1 0.365692 -0.53
1891 2115 5j1g (A) 1004 1231 18.00 0.11 0.15 0.364933 -1.27
1943 2038 5hmo (A) 801 900 28.00 0.034 0.07 0.506269 -2.31
1957 2038 4ihj (E) 58 141 16.00 0 0.04 0.434152 -2.86

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
Lower 20-40% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Oocyst, ME49 Bradyzoite. Gregory Hehl AB Fritz HM Sibley/Greg
Show/Hide expression data references
  • Gregory ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • 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

Orthologs

Ortholog group members (OG5_128205)

Species Accession Gene Product
Arabidopsis thaliana AT1G04830   RabGAP/TBC domain-containing protein
Arabidopsis thaliana AT4G13730   Ypt/Rab-GAP domain of gyp1p superfamily protein
Brugia malayi Bm1_36675   TBC domain containing protein
Caenorhabditis elegans CELE_F45E6.3   Protein TBC-13
Dictyostelium discoideum DDB_G0269052   hypothetical protein
Drosophila melanogaster Dmel_CG5978   GTPase activating protein, SECIS-dependent read-through
Entamoeba histolytica EHI_200780   TBC domain containing protein
Entamoeba histolytica EHI_187060   Rab GTPase activating protein, putative
Entamoeba histolytica EHI_091080   TBC domain containing protein
Echinococcus multilocularis EmuJ_000244100   Transcription factor, FAR1
Echinococcus multilocularis EmuJ_000250200   TBC1 domain family 3
Homo sapiens ENSG00000107021   TBC1 domain family, member 13
Leishmania braziliensis LbrM.30.2810   GTPase activator-like protein
Leishmania donovani LdBPK_302850.1   GTPase activator-like protein
Leishmania infantum LinJ.30.2850   GTPase activator-like protein
Leishmania major LmjF.30.2840   GTPase activator-like protein
Leishmania mexicana LmxM.29.2840   GTPase activator-like protein
Loa Loa (eye worm) LOAG_09724   TBC domain-containing protein
Loa Loa (eye worm) LOAG_12974   hypothetical protein
Mus musculus ENSMUSG00000039678   TBC1 domain family, member 13
Neospora caninum NCLIV_033610   hypothetical protein
Oryza sativa 4335615   Os04g0377600
Oryza sativa 4324984   Os01g0908100
Oryza sativa 4350509   Os11g0479300
Plasmodium berghei PBANKA_1418500   TBC domain protein, putative
Plasmodium falciparum PF3D7_1320200   TBC domain protein, putative
Plasmodium knowlesi PKNH_1420800   TBC domain protein, putative
Plasmodium vivax PVX_122820   TBC domain protein, putative
Plasmodium yoelii PY03871   TBC domain, putative
Schmidtea mediterranea mk4.000956.03   Putative tbc1 domain family member
Trypanosoma brucei gambiense Tbg972.6.3910   GTPase activating protein, putative
Trypanosoma brucei Tb927.6.4120   GTPase activating protein, putative
Trypanosoma congolense TcIL3000_6_3520   GTPase activating protein, putative
Trypanosoma cruzi TcCLB.511733.110   GTPase activating protein of Rab-like GTPase, putative
Trypanosoma cruzi TcCLB.511523.10   GTPase activating protein of Rab-like GTPase, putative
Toxoplasma gondii TGME49_274130   TBC domain-containing protein
Trichomonas vaginalis TVAG_230220   conserved hypothetical protein
Trichomonas vaginalis TVAG_140600   conserved hypothetical protein
Trichomonas vaginalis TVAG_303740   conserved hypothetical protein
Trichomonas vaginalis TVAG_393230   conserved hypothetical protein
Trichomonas vaginalis TVAG_342890   conserved hypothetical protein
Trichomonas vaginalis TVAG_050260   conserved hypothetical protein
Trichomonas vaginalis TVAG_252410   conserved hypothetical protein
Trichomonas vaginalis TVAG_268090   conserved hypothetical protein
Trichomonas vaginalis TVAG_495840   conserved hypothetical protein
Trichomonas vaginalis TVAG_432820   conserved hypothetical protein
Trichomonas vaginalis TVAG_046740   conserved hypothetical protein
Trichomonas vaginalis TVAG_108960   conserved hypothetical protein
Trichomonas vaginalis TVAG_365730   conserved hypothetical protein
Trichomonas vaginalis TVAG_396980   conserved hypothetical protein

Essentiality

TGME49_274130 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.4120 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.4120 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.4120 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.4120 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1418500 Plasmodium berghei Dispensable plasmo
TGME49_274130 this record Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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
  • 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
  • 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 TGME49_274130 (Toxoplasma gondii), TBC domain-containing protein
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