Detailed view for LmjF.35.5270

Basic information

TDR Targets ID: 25468
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.8845 | Length (AA): 356 | MW (Da): 39856 | 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

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
63 354 2h14 (A) 33 330 18.00 0 1 0.98 -0.19
151 225 1vyh (C) 109 183 33.00 0.000035 0.65 0.65 -0.81
150 234 5hqg (A) 469 555 28.00 0.11 0.5 0.578664 -0.62
162 222 5kdo (B) 153 214 38.00 0.000041 0.61 0.620248 -0.3
170 356 3dm0 (A) 1082 1263 22.00 0.0044 1 0.771181 -0.18

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 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_128223)

Species Accession Gene Product
Arabidopsis thaliana AT5G24520   protein TRANSPARENT TESTA GLABRA 1
Arabidopsis thaliana AT3G26640   protein LIGHT-REGULATED WD 2
Arabidopsis thaliana AT1G12910   protein LIGHT-REGULATED WD1
Brugia malayi Bm1_52265   hypothetical protein
Brugia malayi Bm1_52260   hypothetical protein
Candida albicans CaO19.8014   has WD-40 repeats
Candida albicans CaO19.384   has WD-40 repeats
Caenorhabditis elegans CELE_F53C11.7   Protein SWAN-2
Dictyostelium discoideum DDB_G0275925   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG14614   wings apart
Echinococcus granulosus EgrG_001073200   WD repeat containing protein 68
Entamoeba histolytica EHI_198950   WD-repeat protein
Echinococcus multilocularis EmuJ_001073200   WD repeat containing protein 68
Giardia lamblia GL50803_17068   Hypothetical protein
Homo sapiens ENSG00000136485   DDB1 and CUL4 associated factor 7
Leishmania braziliensis LbrM.34.5210   hypothetical protein, conserved
Leishmania donovani LdBPK_355240.1   WD domain, G-beta repeat, putative
Leishmania infantum LinJ.35.5240   hypothetical protein, conserved
Leishmania major LmjF.35.5270   hypothetical protein, conserved
Leishmania mexicana LmxM.34.5270   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_11331   hypothetical protein
Loa Loa (eye worm) LOAG_11332   hypothetical protein
Loa Loa (eye worm) LOAG_11518   WD repeat-containing protein
Mus musculus ENSMUSG00000049354   DDB1 and CUL4 associated factor 7
Oryza sativa 4330331   Os02g0682500
Oryza sativa 4329512   Os02g0524600
Saccharomyces cerevisiae YPL247C   hypothetical protein
Schistosoma japonicum Sjp_0207790   WD repeat-containing protein 68, putative
Schistosoma mansoni Smp_018710   hypothetical protein
Schmidtea mediterranea mk4.021188.00  
Trypanosoma brucei gambiense Tbg972.9.5040   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.9090   WD domain, G-beta repeat, putative
Trypanosoma congolense TcIL3000_9_3190   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506883.60   WD domain, G-beta repeat, putative
Trypanosoma cruzi TcCLB.510429.30   WD domain, G-beta repeat, putative
Trichomonas vaginalis TVAG_409140   WD repeat containing protein, putative
Trichomonas vaginalis TVAG_183090   WD repeat containing protein, putative

Essentiality

LmjF.35.5270 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.0770 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.0770 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.0770 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb09.211.0770 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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

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.

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Gene identifier LmjF.35.5270 (Leishmania major), hypothetical protein, conserved
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