Detailed view for LmjF.18.1580

Basic information

TDR Targets ID: 28821
Leishmania major, nonspecific nucleoside hydrolase
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.1695 | Length (AA): 314 | MW (Da): 34282 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF01156   Inosine-uridine preferring nucleoside hydrolase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016799   hydrolase activity, hydrolyzing N-glycosyl compounds  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
2 313 1ezr (A) 2 313 99.99 0 1 2.32 -2.34
3 313 2mas (A) 3 314 79.00 0 1 2.11 -2.47
2 313 1ezr (A) 2 313 99.99 0 1 2.25343 -1.73

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:

PDB tag
  • 1EZR:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

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_127001)

Species Accession Gene Product
Arabidopsis thaliana AT1G05620   inosine nucleoside hydrolase
Arabidopsis thaliana AT2G36310   Uridine nucleosidase 1
Candida albicans CaO19.9444   uridine ribohydrolase
Candida albicans CaO19.1888   uridine ribohydrolase
Caenorhabditis elegans CELE_F13H8.3   Protein F13H8.3
Caenorhabditis elegans CELE_Y43F8C.13   Protein Y43F8C.13
Dictyostelium discoideum DDB_G0272738   N-D-ribosylpurine ribohydrolase
Drosophila melanogaster Dmel_CG5418   CG5418 gene product from transcript CG5418-RA
Drosophila melanogaster Dmel_CG12177   CG12177 gene product from transcript CG12177-RA
Drosophila melanogaster Dmel_CG11158   CG11158 gene product from transcript CG11158-RA
Escherichia coli b0651   ribonucleoside hydrolase 1
Escherichia coli b2162   ribonucleoside hydrolase 2
Escherichia coli b0030   ribonucleoside hydrolase 3
Entamoeba histolytica EHI_199960   Inosine-uridine preferring nucleoside hydrolase, putative
Giardia lamblia GL50803_13272   Hypothetical protein
Leishmania braziliensis LbrM.14.0130   inosine-guanine nucleoside hydrolase, putative
Leishmania braziliensis LbrM.18.1610   nonspecific nucleoside hydrolase;with=GeneDB:LmjF18.1580
Leishmania donovani LdBPK_181570.1   nonspecific nucleoside hydrolasewith
Leishmania donovani LdBPK_140130.1   nucleoside hydrolase-like protein
Leishmania infantum LinJ.18.1570   nonspecific nucleoside hydrolase;with=GeneDB:LmjF18.1580
Leishmania infantum LinJ.14.0130   inosine-guanine nucleoside hydrolase, putative
Leishmania major LmjF.14.0130   inosine-guanine nucleoside hydrolase, putative
Leishmania major LmjF.18.1580   nonspecific nucleoside hydrolase
Leishmania mexicana LmxM.18.1580   nonspecific nucleoside hydrolase
Leishmania mexicana LmxM.14.0130   nucleoside hydrolase-like protein
Mycobacterium tuberculosis Rv3393   Probable nucleoside hydrolase IunH (purine nucleosidase)
Oryza sativa 4346302   Os08g0557900
Oryza sativa 4333153   Os03g0425200
Oryza sativa 4347891   Os09g0567900
Saccharomyces cerevisiae YDR400W   trifunctional uridine nucleosidase/nicotinamide riboside hydrolase/nicotinic acid riboside hydrolase
Schmidtea mediterranea mk4.003175.02  
Schmidtea mediterranea mk4.005381.00  
Trypanosoma brucei gambiense Tbg972.7.5180   nucleoside hydrolase, putative
Trypanosoma brucei Tb927.7.4570   inosine-guanine nucleoside hydrolase
Trypanosoma congolense TcIL3000_7_3810   nucleoside hydrolase, putative
Trypanosoma cruzi TcCLB.506605.170   inosine-guanine nucleoside hydrolase, putative
Trichomonas vaginalis TVAG_092730   inosine-uridine preferring nucleoside hydrolase, putative
Trichomonas vaginalis TVAG_424130   inosine-uridine preferring nucleoside hydrolase, putative
Trichomonas vaginalis TVAG_213720   inosine-uridine preferring nucleoside hydrolase, putative
Trichomonas vaginalis TVAG_305790   inosine-uridine preferring nucleoside hydrolase, putative

Essentiality

LmjF.18.1580 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.4570 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.4570 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.4570 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.4570 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0030 Escherichia coli non-essential goodall
b0651 Escherichia coli non-essential goodall
b2162 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
catalytic activity (GO:0003824) decreased (PATO:0000468) in vitro (MI:0492) inferred from specific protein inhibition (ECO:0000020) Leishmania major No drug identifiers listed for this gene.
Annotator: crowther@u.washington.edu. Comment: Drug: 249503-25-1 (immucillin A); Drug: immucillin ACAP. chemical inhibitors reduce nucleoside hydrolase activity. References: 10409664

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

Druggability index (range: 0 to 1): 0.2

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
Crithidia fasciculata Inosine-uridine preferring nucleoside hydrolase 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.

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.18.1580 (Leishmania major), nonspecific nucleoside hydrolase
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