Detailed view for Tb927.11.15240

Basic information

TDR Targets ID: 15679
Trypanosoma brucei, Ras-related protein RAB2B, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.6883 | Length (AA): 212 | MW (Da): 23512 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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:0005575   cellular_component  
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 is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
1 176 2a5j (A) 5 180 73.00 0 1 1.79019 -1.82

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 Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_128031)

Species Accession Gene Product
Arabidopsis thaliana AT4G17170   RAB GTPase homolog B1C
Babesia bovis BBOV_IV008990   Rab2
Brugia malayi Bm1_48090   Ras-related protein Rab-2
Caenorhabditis elegans CELE_F53F10.4   Protein UNC-108
Cryptosporidium parvum cgd1_2060   Rab2 GTPase, putative
Dictyostelium discoideum DDB_G0292268   Rab GTPase
Drosophila melanogaster Dmel_CG3269   CG3269 gene product from transcript CG3269-RA
Echinococcus granulosus EgrG_000430800   ras protein Rab 2A
Entamoeba histolytica EHI_046390   Rab family GTPase
Entamoeba histolytica EHI_067850   Rab family GTPase
Echinococcus multilocularis EmuJ_000430800   ras protein Rab 2A
Giardia lamblia GL50803_16636   Rab2b
Giardia lamblia GL50803_15567   Rab2a
Homo sapiens ENSG00000104388   RAB2A, member RAS oncogene family
Homo sapiens ENSG00000129472   RAB2B, member RAS oncogene family
Leishmania braziliensis LbrM.32.2240   ras-related protein rab-2a, putative
Leishmania donovani LdBPK_322160.1   Ras-related protein RAB2B, putative
Leishmania infantum LinJ.32.2160   ras-related protein rab-2a, putative
Leishmania major LmjF.32.2030   ras-related protein rab-2a, putative
Leishmania mexicana LmxM.31.2030   ras-related protein rab-2a, putative
Loa Loa (eye worm) LOAG_01691   uncoordinated protein 108
Mus musculus ENSMUSG00000022159   RAB2B, member RAS oncogene family
Mus musculus ENSMUSG00000047187   RAB2A, member RAS oncogene family
Neospora caninum NCLIV_055690   hypothetical protein
Oryza sativa 4336117   Os04g0470100
Oryza sativa 4329809   Os02g0586400
Plasmodium berghei PBANKA_1445800   ras-related protein Rab-2, putative
Plasmodium falciparum PF3D7_1231100   ras-related protein Rab-2
Plasmodium knowlesi PKNH_1450500   ras-related protein Rab-2, putative
Plasmodium vivax PVX_124195   ras-related protein Rab-2, putative
Plasmodium yoelii PY05254   putative Rab2 GTPase
Schistosoma japonicum Sjp_0217140   ko:K07878 Ras-related protein Rab-2B, putative
Schistosoma japonicum Sjp_0059440   GTP-binding protein yptV4, putative
Schistosoma japonicum Sjp_0059430   Ras-related protein Rab-2, putative
Schistosoma mansoni Smp_022810.1   rab-2414
Schistosoma mansoni Smp_022810.2   rab-2414
Schistosoma mansoni Smp_071630   rab-2414
Schmidtea mediterranea mk4.011455.00  
Schmidtea mediterranea mk4.002573.02   Ras-related protein Rab-25
Schmidtea mediterranea mk4.003457.03  
Schmidtea mediterranea mk4.007319.00  
Schmidtea mediterranea mk4.000716.01  
Schmidtea mediterranea mk4.004420.00  
Trypanosoma brucei gambiense Tbg972.11.17120   ras-related protein rab-2a, putative
Trypanosoma brucei Tb927.11.15240   Ras-related protein RAB2B, putative
Trypanosoma congolense TcIL3000.11.15390   Ras-related protein RAB2B, putative
Trypanosoma cruzi TcCLB.511711.80   Ras-related protein RAB2B, putative
Toxoplasma gondii TGME49_312050   small GTPase Rab2, putative
Theileria parva TP01_0877   GTP-binding protein rab2, putative
Trichomonas vaginalis TVAG_527180   RAB, putative

Essentiality

Tb927.11.15240 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.6890 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.6890 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.6890 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.6890 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F53F10.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53F10.4 Caenorhabditis elegans larval arrest wormbase
CELE_F53F10.4 Caenorhabditis elegans larval lethal wormbase
CELE_F53F10.4 Caenorhabditis elegans sterile wormbase
PBANKA_1445800 Plasmodium berghei Essential plasmo
TGME49_312050 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • 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)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier Tb927.11.15240 (Trypanosoma brucei), Ras-related protein RAB2B, putative
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