Detailed view for LmjF.36.0470

Basic information

TDR Targets ID: 28679
Leishmania major, dihydrouridine synthase domain protein-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.624 | Length (AA): 455 | MW (Da): 49708 | 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

PF01207   Dihydrouridine synthase (Dus)

Gene Ontology

Mouse over links to read term descriptions.
GO:0050660   FAD binding  
GO:0017150   tRNA dihydrouridine synthase activity  
GO:0003824   catalytic activity  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  
GO:0008033   tRNA processing  

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
17 308 1tv5 (A) 211 534 11.00 0.0000000000047 0.21 0.69 -0.18
26 403 1vhn (A) 6 309 21.00 0 1 0.88 0
14 385 4bfa (A) 0 313 23.00 0 1 0.758782 0.83
23 365 4xp7 (A) 10 285 36.00 0 1 0.819346 0.49

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
Mid 40-60% 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_128801)

Species Accession Gene Product
Arabidopsis thaliana AT3G49640   aldolase-type TIM barrel family protein
Brugia malayi Bm1_02370   dihydrouridine synthase domain containing protein
Candida albicans CaO19.8942   potential dihydrouridine synthase similar to S. cerevisiae SMM1/DUS2 (YNR015W) dihydrouridine synthase specific for pre-tRNA-Leu
Candida albicans CaO19.1362   potential dihydrouridine synthase similar to S. cerevisiae SMM1/DUS2 (YNR015W) dihydrouridine synthase specific for pre-tRNA-Leu
Caenorhabditis elegans CELE_Y54E5A.6   Protein Y54E5A.6
Dictyostelium discoideum DDB_G0283877   tRNA-dihydrouridine synthase 2-like protein
Drosophila melanogaster Dmel_CG1434   CG1434 gene product from transcript CG1434-RB
Echinococcus granulosus EgrG_000169500   tRNA dihydrouridine synthase 2
Entamoeba histolytica EHI_023240   dihydrouridine synthase (Dus) family protein
Echinococcus multilocularis EmuJ_000169500   tRNA dihydrouridine synthase 2
Homo sapiens ENSG00000167264   dihydrouridine synthase 2
Leishmania braziliensis LbrM.35.0560   dihydrouridine synthase domain protein-like protein
Leishmania donovani LdBPK_360500.1   dihydrouridine synthase domain protein-like protein
Leishmania infantum LinJ.36.0500   dihydrouridine synthase domain protein-like protein
Leishmania major LmjF.36.0470   dihydrouridine synthase domain protein-like protein
Leishmania mexicana LmxM.36.0470   dihydrouridine synthase domain protein-like protein
Loa Loa (eye worm) LOAG_03826   dihydrouridine synthase domain-containing protein
Mus musculus ENSMUSG00000031901   dihydrouridine synthase 2
Neospora caninum NCLIV_019410   GH10224, related
Oryza sativa 4336488   Os04g0531300
Saccharomyces cerevisiae YNR015W   Smm1p
Schistosoma japonicum Sjp_0204740   ko:K05543 tRNA-dihydrouridine synthase 2, putative
Schistosoma mansoni Smp_149450   tRNA-dihydrouridine synthase
Schmidtea mediterranea mk4.013053.00   tRNA-dihydrouridine(20) synthase
Schmidtea mediterranea mk4.014238.00   tRNA-dihydrouridine(20) synthase
Trypanosoma brucei gambiense Tbg972.10.5920   tRNA-dihydrouridine synthase 2, putative
Trypanosoma brucei Tb927.10.4870   tRNA-dihydrouridine synthase 2, putative
Trypanosoma brucei Tb11.v5.0899   tRNA-dihydrouridine synthase 2, putative
Trypanosoma congolense TcIL3000_10_4060   tRNA-dihydrouridine synthase 2, putative
Trypanosoma cruzi TcCLB.504203.29   tRNA-dihydrouridine synthase 2, putative
Trypanosoma cruzi TcCLB.503791.40   dihydrouridine synthase, putative
Toxoplasma gondii TGME49_280780   dihydrouridine synthase (dus) protein
Trichomonas vaginalis TVAG_292590   tRNA-dihydrouridine synthase, putative
Trichomonas vaginalis TVAG_255860   tRNA-dihydrouridine synthase, putative

Essentiality

LmjF.36.0470 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4870 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.4870 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.4870 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.4870 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_280780 Toxoplasma gondii Essentiality uncertain sidik
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
  • 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
  • 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
  • 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
Species Known druggable target Linked compounds Reference
Homo sapiens dihydrouridine synthase 2 Compounds References
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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User comments

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Gene identifier LmjF.36.0470 (Leishmania major), dihydrouridine synthase domain protein-like protein
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