Detailed view for TcCLB.510911.30

Basic information

TDR Targets ID: 30283
Trypanosoma cruzi, Ras-related protein Rab4, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.2482 | Length (AA): 201 | MW (Da): 22102 | 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

PF00071   Ras family

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0003924   GTPase activity  
GO:0005525   GTP binding  
GO:0005515   protein binding  
GO:0015031   protein transport  
GO:0007264   small GTPase mediated signal transduction  
GO:0007165   signal transduction  
GO:0006913   nucleocytoplasmic transport  
GO:0006886   intracellular protein transport  

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
3 194 2bcg (Y) 3 188 42.00 0 1 1.56 -1.29
3 175 2bme (B) 5 177 54.00 0 1 1.67 -1.8
2 172 2bme (A) 4 174 54.00 0.0000094 1 1.64735 -1.73
3 196 2bcg (Y) 3 190 42.00 0.0000023 1 1.55477 -1.16

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 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_128183)

Species Accession Gene Product
Cryptosporidium parvum cgd8_1040   hypothetical protein
Dictyostelium discoideum DDB_G0292406   Rab GTPase
Drosophila melanogaster Dmel_CG4921   CG4921 gene product from transcript CG4921-RA
Echinococcus granulosus EgrG_001006600   ras protein Rab 4A
Echinococcus granulosus EgrG_001004250   ras protein RABF2b
Echinococcus granulosus EgrG_000995400   ras GTP binding protein 4b
Entamoeba histolytica EHI_005010   Rab family GTPase
Echinococcus multilocularis EmuJ_000995400   ras GTP binding protein 4b
Echinococcus multilocularis EmuJ_001004250   ras protein RABF2b
Echinococcus multilocularis EmuJ_001006600   ras protein Rab 4A
Homo sapiens ENSG00000168118   RAB4A, member RAS oncogene family
Homo sapiens ENSG00000167578   RAB4B, member RAS oncogene family
Leishmania braziliensis LbrM.32.0600   ras-related rab-4, putative
Leishmania donovani LdBPK_320520.1   Ras-related protein Rab4, putative
Leishmania infantum LinJ.32.0520   ras-related rab-4, putative
Leishmania major LmjF.32.0490   ras-related rab-4, putative
Leishmania mexicana LmxM.31.0490   ras-related rab-4, putative
Mus musculus ENSMUSG00000053291   RAB4B, member RAS oncogene family
Mus musculus ENSMUSG00000019478   RAB4A, member RAS oncogene family
Neospora caninum NCLIV_029730   Ras family domain-containing protein, putative
Schistosoma japonicum Sjp_0064730   ko:K07879 Ras-related protein Rab-4A, putative
Schistosoma japonicum Sjp_0037130   Ras-related protein Rab-4A, putative
Schistosoma mansoni Smp_055670   rab-2414
Schmidtea mediterranea mk4.000832.01   Putative rab-2,4,14
Schmidtea mediterranea mk4.001989.00   Putative rab-2,4,14
Schmidtea mediterranea mk4.000674.05   Putative rab-2,4,14
Trypanosoma brucei gambiense Tbg972.11.15370   ras-related rab-4, putative
Trypanosoma brucei Tb927.11.13750   Ras-related protein Rab4
Trypanosoma congolense TcIL3000.11.14140   Ras-related protein Rab4, putative
Trypanosoma cruzi TcCLB.510911.30   Ras-related protein Rab4, putative
Toxoplasma gondii TGME49_257340   Ras family protein
Trichomonas vaginalis TVAG_474310   rabb and C, putative
Trichomonas vaginalis TVAG_124590   Rab6, putative
Trichomonas vaginalis TVAG_301200   Rabx31 protein, putative
Trichomonas vaginalis TVAG_286490   RAB, putative
Trichomonas vaginalis TVAG_051830   RAC, putative
Trichomonas vaginalis TVAG_242000   RAB, putative
Trichomonas vaginalis TVAG_073770   Rabx6d protein, putative
Trichomonas vaginalis TVAG_132660   Rab9, putative
Trichomonas vaginalis TVAG_350580   Rab21, putative
Trichomonas vaginalis TVAG_446610   small GTPase rabd, putative
Trichomonas vaginalis TVAG_038950   Rabx3 protein, putative
Trichomonas vaginalis TVAG_207300   Rab12, putative
Trichomonas vaginalis TVAG_006280   RAB, putative
Trichomonas vaginalis TVAG_376820   Rabx24 protein, putative
Trichomonas vaginalis TVAG_379730   RAB, putative
Trichomonas vaginalis TVAG_331490   Rabx18 protein, putative
Trichomonas vaginalis TVAG_122270   RAB, putative
Trichomonas vaginalis TVAG_218200   small GTPase rabh, putative
Trichomonas vaginalis TVAG_212320   GTP-binding protein ypt11, putative
Trichomonas vaginalis TVAG_459760   Rabx22 protein, putative
Trichomonas vaginalis TVAG_159810   small GTPase RAB, putative
Trichomonas vaginalis TVAG_320200   Rab5b, putative
Trichomonas vaginalis TVAG_337700   Rab21, putative
Trichomonas vaginalis TVAG_205650   Rab17, putative
Trichomonas vaginalis TVAG_570520   Rab22, putative
Trichomonas vaginalis TVAG_031090   RAB, putative
Trichomonas vaginalis TVAG_216900   ras, putative
Trichomonas vaginalis TVAG_528800   RAB-2,4
Trichomonas vaginalis TVAG_180430   RAB-36 and, putative

Essentiality

TcCLB.510911.30 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_257340 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • 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.
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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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User comments

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Gene identifier TcCLB.510911.30 (Trypanosoma cruzi), Ras-related protein Rab4, putative
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