Detailed view for TcCLB.503689.10

Basic information

TDR Targets ID: 44466
Trypanosoma cruzi, small GTP-binding protein Rab7, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.2375 | Length (AA): 221 | MW (Da): 24857 | 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

PF00071   Ras family

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0005525   GTP binding  
GO:0005515   protein binding  
GO:0003924   GTPase activity  
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 7 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
2 205 2bcg (Y) 4 190 36.00 0 1 1.36 -0.83
6 184 1huq (A) 21 182 36.00 0 1 1.29 -1.34
2 192 1x3s (A) 4 175 40.00 0 1 1.34935 -1.18
4 181 2ew1 (A) 6 166 43.00 0 1 1.34383 -1.16
4 188 5szj (A) 7 174 42.00 0 1 1.3905 -1.41
6 179 2c2h (A) 3 171 35.00 0 0.86 1.08873 -0.53
7 186 2e9s (A) 14 176 34.00 0 1 1.29658 -1.55

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 metacyclic. Smircich P
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile epimastigote. 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_151474)

Species Accession Gene Product
Leishmania braziliensis LbrM.10.1280   small GTP-binding protein Rab7, putative
Leishmania donovani LdBPK_101260.1   small GTP-binding protein Rab7, putative
Leishmania infantum LinJ.10.1260   small GTP-binding protein Rab7, putative
Leishmania major LmjF.10.1170   small GTP-binding protein Rab7, putative
Leishmania mexicana LmxM.10.1170   small GTP-binding protein Rab7, putative
Trypanosoma brucei gambiense Tbg972.8.4430   small GTP-binding protein Rab7, putative
Trypanosoma brucei Tb927.8.4620   small GTP-binding protein Rab7, putative
Trypanosoma congolense TcIL3000_8_4450   small GTP-binding protein Rab7, putative
Trypanosoma cruzi TcCLB.509573.10   small GTP-binding protein Rab7, putative
Trypanosoma cruzi TcCLB.503689.10   small GTP-binding protein Rab7, putative

Essentiality

TcCLB.503689.10 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.4620 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.4620 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.4620 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.4620 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

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 TcCLB.503689.10 (Trypanosoma cruzi), small GTP-binding protein Rab7, putative
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