Detailed view for LmjF.36.5880

Basic information

TDR Targets ID: 28515
Leishmania major, ras-like small GTPases, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.2412 | Length (AA): 365 | MW (Da): 40691 | 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

PF04670   Gtr1/RagA G protein conserved region

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0005634   nucleus  
GO:0005525   GTP binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 5 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
6 195 2gf9 (A) 20 189 18.00 0 1 0.7 -0.64
7 186 2a5d (A) 12 170 23.00 0.000000000011 0.92 0.72 -0.95
8 191 2q3f (A) 43 220 42.00 0.0000000036 1 1.12761 -1.43
11 294 3r7w (B) 12 311 40.00 0 1 1.23218 -0.2
11 359 3r7w (B) 12 324 38.00 0 1 1.19566 0.04

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 60-80% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_128325)

Species Accession Gene Product
Brugia malayi Bm1_31450   Gtr1/RagA G protein conserved region containing protein
Candida albicans CaO19.9944   Small GTPase
Candida albicans CaO19.2406   Putative small GTPase
Caenorhabditis elegans CELE_Y24F12A.2   Protein RAGC-1
Cryptosporidium hominis Chro.80571   ENSANGP00000021537
Cryptosporidium parvum cgd8_4990   RagC like small GTpase of the Ras superfamily
Dictyostelium discoideum DDB_G0284495   Ras-related GTP-binding protein
Drosophila melanogaster Dmel_CG8707   Ras-related GTP binding C/D ortholog (H. sapiens)
Echinococcus granulosus EgrG_001120000   ras gtp binding protein d
Entamoeba histolytica EHI_023210   GTP-binding protein, putative
Echinococcus multilocularis EmuJ_001120000   ras gtp binding protein d
Homo sapiens ENSG00000025039   Ras-related GTP binding D
Homo sapiens ENSG00000116954   Ras-related GTP binding C
Leishmania braziliensis LbrM.35.6180   ras-like small GTPases, putative
Leishmania donovani LdBPK_366140.1   ras-like small GTPases, putative
Leishmania infantum LinJ.36.6140   ras-like small GTPases, putative
Leishmania major LmjF.36.5880   ras-like small GTPases, putative
Leishmania mexicana LmxM.36.5880   small GTPase, putative
Loa Loa (eye worm) LOAG_04712   rragc protein
Mus musculus ENSMUSG00000028646   Ras-related GTP binding C
Mus musculus ENSMUSG00000028278   Ras-related GTP binding D
Neospora caninum NCLIV_012780   hypothetical protein, conserved
Saccharomyces cerevisiae YGR163W   Gtr2p
Schistosoma japonicum Sjp_0302160   Ras-related GTP-binding protein D, putative
Schistosoma mansoni Smp_026090   ras-related GTP binding rag Cd/gtr2
Trypanosoma brucei gambiense Tbg972.10.10910   small GTPase, putative
Trypanosoma brucei Tb927.10.8920   ras-like small GTPase, putative
Trypanosoma congolense TcIL3000_10_7690   small GTPase, putative
Trypanosoma cruzi TcCLB.509791.170   small GTPase, putative
Trypanosoma cruzi TcCLB.508721.10   small GTPase, putative
Toxoplasma gondii TGME49_301290   hypothetical protein
Trichomonas vaginalis TVAG_111980   conserved hypothetical protein
Trichomonas vaginalis TVAG_003600   conserved hypothetical protein

Essentiality

LmjF.36.5880 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.8920 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.8920 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.8920 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.8920 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y24F12A.2 Caenorhabditis elegans embryonic lethal wormbase
TGME49_301290 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

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Gene identifier LmjF.36.5880 (Leishmania major), ras-like small GTPases, putative
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