Detailed view for TcCLB.503715.30

Basic information

TDR Targets ID: 31355
Trypanosoma cruzi, ras-related protein RAB1A, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.6627 | Length (AA): 210 | MW (Da): 22833 | 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: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 8 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
3 202 2bcg (Y) 3 196 64.00 0 1 1.74 -1.56
3 176 2bcg (Y) 3 176 71.00 0 1 1.84 -2.11
8 173 1g16 (A) 20 184 54.00 0 1 1.58 -2.12
1 173 3sfv (A) 4 176 81.00 0 1 1.84421 -1.18
3 188 2bcg (Y) 3 188 67.00 0.000000042 1 1.76431 -1.23
4 173 3l0i (B) 7 176 72.00 0 1 1.53042 0.07
4 173 2rhd (A) 5 174 75.00 0 1 1.73692 -1.35
11 112 4fmc (F) 14 115 91.00 0 1 0.888114 1.5

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_127310)

Species Accession Gene Product
Arabidopsis thaliana AT3G11730   Ras-related protein RABD1
Arabidopsis thaliana AT4G17530   RAB GTPase homolog 1C
Arabidopsis thaliana AT5G47200   ras-related protein RABD2b
Arabidopsis thaliana AT1G02130   Ras-related protein RABD2A
Babesia bovis BBOV_III000780   Rab1b
Brugia malayi Bm1_52380   Ras-related protein Rab-1A
Candida albicans CaO19.3052   likely ras family GTPase involved in docking of ER vesicles to Golgi
Candida albicans CaO19.10570   likely ras family GTPase involved in docking of ER vesicles to Golgi
Caenorhabditis elegans CELE_C39F7.4   Protein RAB-1
Cryptosporidium hominis Chro.60374   small GTP binding protein rab1a
Cryptosporidium parvum cgd6_3220   RAS small GTpases RIC1/ypt1
Dictyostelium discoideum DDB_G0283757   Rab GTPase
Dictyostelium discoideum DDB_G0284985   Rab GTPase
Dictyostelium discoideum DDB_G0277867   Rab GTPase
Drosophila melanogaster Dmel_CG3320   CG3320 gene product from transcript CG3320-RA
Echinococcus granulosus EgrG_000255300   small GTP binding protein
Echinococcus granulosus EgrG_000548300   small GTP binding protein
Entamoeba histolytica EHI_108610   Rab family GTPase
Entamoeba histolytica EHI_146510   Rab family GTPase
Echinococcus multilocularis EmuJ_000255300   small GTP binding protein
Echinococcus multilocularis EmuJ_000548300   small GTP binding protein
Giardia lamblia GL50803_9558   Rab1a
Homo sapiens ENSG00000174903   RAB1B, member RAS oncogene family
Homo sapiens ENSG00000138069   RAB1A, member RAS oncogene family
Leishmania braziliensis LbrM.27.0850   small GTP-binding protein Rab1, putative
Leishmania donovani LdBPK_270620.1   ras-related protein RAB1A, putative
Leishmania infantum LinJ.27.0620   small GTP-binding protein Rab1, putative
Leishmania major LmjF.27.0760   small GTP-binding protein Rab1, putative
Leishmania mexicana LmxM.27.0760   small GTP-binding protein Rab1, putative
Loa Loa (eye worm) LOAG_03820   hypothetical protein
Loa Loa (eye worm) LOAG_05538   Rab1E
Mus musculus ENSMUSG00000020149   RAB1, member RAS oncogene family
Mus musculus ENSMUSG00000024870   RAB1B, member RAS oncogene family
Neospora caninum NCLIV_051820   hypothetical protein
Oryza sativa 4325347   Os01g0179700
Oryza sativa 4324675   Os01g0558600
Oryza sativa 4330181   Os02g0653800
Plasmodium berghei PBANKA_1112300   ras-related protein Rab-1B, putative
Plasmodium falciparum PF3D7_0512600   ras-related protein Rab-1B
Plasmodium knowlesi PKNH_1020500   ras-related protein Rab-1B, putative
Plasmodium vivax PVX_080610   ras-related protein Rab-1B, putative
Plasmodium yoelii PY04604   putative GTPase
Saccharomyces cerevisiae YFL038C   Rab family GTPase YPT1
Schistosoma japonicum Sjp_0044620   IPR013753,Ras,domain-containing
Schistosoma japonicum Sjp_0044630   Ras-like GTP-binding protein YPT1, putative
Schistosoma japonicum Sjp_0219250   Trafficking protein particle complex subunit 6B, putative
Schistosoma mansoni Smp_072290   rab15 13 10 1 35 5 and
Schmidtea mediterranea mk4.002844.04   FI01544p
Schmidtea mediterranea mk4.001775.03   Putative rab15, 13, 10, 1, 35, 5, and
Schmidtea mediterranea mk4.001287.03   Putative rab15, 13, 10, 1, 35, 5, and
Schmidtea mediterranea mk4.003474.01   Putative rab15, 13, 10, 1, 35, 5, and
Schmidtea mediterranea mk4.000617.00   FI01544p
Schmidtea mediterranea mk4.003653.01   Putative rab15, 13, 10, 1, 35, 5, and
Trypanosoma brucei gambiense Tbg972.8.510   small GTP-binding protein Rab1, putative
Trypanosoma brucei Tb927.8.890   Ras-related protein Rab1A
Trypanosoma congolense TcIL3000_0_14810   Ras-related protein RAB1A1, putative
Trypanosoma congolense TcIL3000_0_39520   Ras-related protein RAB1A2, putative
Trypanosoma cruzi TcCLB.503715.30   ras-related protein RAB1A, putative
Toxoplasma gondii TGME49_214770   small GTP binding protein rab1a, putative
Theileria parva TP03_0775   small GTP-binding protein rab1
Trichomonas vaginalis TVAG_383350   RAB-2,4
Trichomonas vaginalis TVAG_070500   Rab7g protein, putative
Trichomonas vaginalis TVAG_047800   Rab11, putative
Trichomonas vaginalis TVAG_379850   Rab32, putative

Essentiality

TcCLB.503715.30 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.890 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.890 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.890 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.890 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C39F7.4 Caenorhabditis elegans adult lethal wormbase
CELE_C39F7.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_C39F7.4 Caenorhabditis elegans larval arrest wormbase
CELE_C39F7.4 Caenorhabditis elegans larval lethal wormbase
CELE_C39F7.4 Caenorhabditis elegans slow growth wormbase
CELE_C39F7.4 Caenorhabditis elegans sterile wormbase
YFL038C Saccharomyces cerevisiae inviable yeastgenome
TGME49_214770 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • 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

  • Tcru001131AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tcru001131; Recombinant protein: full-length; Source: T cruzi; GTP-binding protein homologue ;

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.

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Gene identifier TcCLB.503715.30 (Trypanosoma cruzi), ras-related protein RAB1A, putative
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