Detailed view for LmjF.01.0280

Basic information

TDR Targets ID: 25787
Leishmania major, pseudouridylate synthase-like protein

Source Database / ID:  TriTrypDB  GeneDB

pI: 10.2075 | Length (AA): 413 | MW (Da): 47376 | Paralog Number: 0

Signal peptide: Y | 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

PF00849   RNA pseudouridylate synthase

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  
GO:0009982   pseudouridine synthase activity  
GO:0001522   pseudouridine synthesis  
GO:0009451   RNA modification  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
169 406 1v9f (A) 88 318 22.00 0 1 0.89 -0.55
169 401 1v9k (A) 97 316 22.00 0 1 0.82 -0.7
60 411 2ist (A) 11 323 20.00 0 1 0.9062 0.71
165 400 1v9k (A) 93 315 23.00 0.00000055 1 0.855129 -0.13

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_129784)

Species Accession Gene Product
Arabidopsis thaliana AT3G19440   RNA pseudourine synthase 4
Brugia malayi Bm1_08265   RNA pseudouridylate synthase family protein
Dictyostelium discoideum DDB_G0285543   hypothetical protein
Echinococcus granulosus EgrG_000842200   methylmalonic aciduria and homocystinuria type D
Echinococcus granulosus EgrG_000878300   Pseudouridine synthase domain containing protein
Echinococcus multilocularis EmuJ_000878300   Pseudouridine synthase domain containing protein
Echinococcus multilocularis EmuJ_000842200   methylmalonic aciduria and homocystinuria type D
Homo sapiens ENSG00000165526   RNA pseudouridylate synthase domain containing 4
Leishmania braziliensis LbrM.01.0310   pseudouridylate synthase-like protein
Leishmania donovani LdBPK_010280.1   pseudouridylate synthase-like protein
Leishmania infantum LinJ.01.0280   pseudouridylate synthase-like protein
Leishmania major LmjF.01.0280   pseudouridylate synthase-like protein
Leishmania mexicana LmxM.01.0280   pseudouridylate synthase-like protein
Loa Loa (eye worm) LOAG_04880   hypothetical protein
Mus musculus ENSMUSG00000032044   RNA pseudouridylate synthase domain containing 4
Oryza sativa 4346373   Os09g0103500
Onchocerca volvulus OVOC8102   Putative ribosomal pseudouridine synthase
Schistosoma japonicum Sjp_0007980   ko:K06179 ribosomal large subunit pseudouridine synthase C, putative
Schistosoma japonicum Sjp_0303930   similar to Uncharacterized protein C2orf25 homolog, mitochondrial precursor, putative
Schistosoma mansoni Smp_194510   ribosomal pseudouridine synthase
Schmidtea mediterranea mk4.001567.07   Putative ribosomal pseudouridine synthase
Schmidtea mediterranea mk4.001929.04  
Trypanosoma brucei gambiense Tbg972.9.1670   pseudouridylate synthase, putative
Trypanosoma brucei Tb927.9.3350   pseudouridylate synthase, putative
Trypanosoma congolense TcIL3000_9_950   pseudouridylate synthase, putative
Trypanosoma cruzi TcCLB.511577.90   pseudouridylate synthase-like protein, putative
Trypanosoma cruzi TcCLB.504797.30   pseudouridylate synthase-like protein, putative
Treponema pallidum TP0231   hypothetical protein
Wolbachia endosymbiont of Brugia malayi Wbm0206   pseudouridylate synthase

Essentiality

No essentiality data collected for this gene and/or its orthologs.

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.01.0280 (Leishmania major), pseudouridylate synthase-like protein
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