Detailed view for LmjF.27.1250

Basic information

TDR Targets ID: 29954
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.1756 | Length (AA): 321 | MW (Da): 35305 | 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

PF00400   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Metabolic Pathways

RNA transport (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
3 299 1nex (B) 393 729 15.00 0 1 1.04 0.33
4 124 1sq9 (A) 199 336 13.00 0.000017 0.09 0.43 -0.22
18 309 1got (B) 38 340 15.00 0 1 1.12 -0.16
31 150 4lg9 (A) 393 514 17.00 0 0.67 0.635132 -0.62
34 313 3sfz (A) 614 914 25.00 0 1 1.10557 -0.01
74 146 1r5m (A) 353 427 26.00 0.099 0.77 0.534714 0.02
104 149 3f3f (A) 191 246 46.00 0.9 0.55 0.352602 0.88

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile amastigotes. 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_129553)

Species Accession Gene Product
Arabidopsis thaliana AT1G15470   transducin/WD40 repeat-like superfamily protein
Arabidopsis thaliana AT1G52730   transducin/WD-40 repeat-containing protein
Arabidopsis thaliana AT3G15610   transducin/WD40 domain-containing protein
Dictyostelium discoideum DDB_G0286457   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG3957   wing morphogenesis defect
Echinococcus granulosus EgrG_000622200   serine threonine kinase receptor associated
Echinococcus multilocularis EmuJ_000622200   serine threonine kinase receptor associated
Homo sapiens ENSG00000023734   serine/threonine kinase receptor associated protein
Leishmania braziliensis LbrM.27.1360   hypothetical protein, conserved
Leishmania donovani LdBPK_271140.1   Serine-threonine kinase receptor-associated protein, putative
Leishmania infantum LinJ.27.1140   hypothetical protein, conserved
Leishmania major LmjF.27.1250   hypothetical protein, conserved
Leishmania mexicana LmxM.27.1250   hypothetical protein, conserved
Mus musculus ENSMUSG00000030224   serine/threonine kinase receptor associated protein
Oryza sativa 4341446   Os06g0598900
Oryza sativa 4328675   Os02g0205400
Schistosoma japonicum Sjp_0216730   Serine-threonine kinase receptor-associated protein, putative
Schistosoma mansoni Smp_174390   serine-threonine kinase receptor-associated protein (strap)
Schmidtea mediterranea mk4.003038.00  
Trypanosoma brucei gambiense Tbg972.11.2020   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.1890   Serine-threonine kinase receptor-associated protein, putative
Trypanosoma congolense TcIL3000.11.1580   Serine-threonine kinase receptor-associated protein, putative
Trypanosoma cruzi TcCLB.508357.100   WD domain, G-beta repeat, putative

Essentiality

LmjF.27.1250 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.42.0004 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.42.0004 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.42.0004 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.42.0004 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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 LmjF.27.1250 (Leishmania major), hypothetical protein, conserved
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