Detailed view for LmjF.33.2260

Basic information

TDR Targets ID: 23488
Leishmania major, glycosyl hydrolase-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6949 | Length (AA): 1432 | MW (Da): 154507 | Paralog Number: 0

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

PF03644   Glycosyl hydrolase family 85
PF05903   PPPDE putative peptidase domain
PF09409   PUB domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0033925   mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
224 322 2ccq (A) 11 105 32.00 0 1 0.38 -1.42
708 929 1edt () 17 261 13.00 0 0.11 -0.05 -0.22
9 166 2wp7 (A) 7 162 40.00 0 1 0.666635 -0.77
210 289 2d5u (A) 6 85 36.00 0.055 0.3 0.291166 0.44
221 324 2ccq (A) 17 107 29.00 0 1 0.447126 -1.53
696 805 4w5z (A) 42 155 33.00 0.7 0.93 0.275116 0.84
716 943 2w91 (A) 249 473 32.00 0 0.9 0.352518 0.06

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_130163)

Species Accession Gene Product
Arabidopsis thaliana AT5G05460   beta-endo-N-acetyglucosaminidase
Arabidopsis thaliana AT3G11040   glycosyl hydrolase family 85 protein
Brugia malayi Bm1_17595   Glycosyl hydrolase family 85 protein
Brugia malayi Bm1_00495   hypothetical protein
Caenorhabditis elegans CELE_F01F1.10   Protein ENG-1, isoform C
Dictyostelium discoideum DDB_G0268520   hypothetical protein
Drosophila melanogaster Dmel_CG5613   CG5613 gene product from transcript CG5613-RA
Echinococcus granulosus EgrG_000434910   endo beta n-acetylglucosaminidase
Echinococcus granulosus EgrG_000434920   mitochondrial ribosomal protein L17
Echinococcus multilocularis EmuJ_000434920   mitochondrial ribosomal protein L17
Echinococcus multilocularis EmuJ_000434910   endo beta n-acetylglucosaminidase
Homo sapiens 64772   endo-beta-N-acetylglucosaminidase
Leishmania braziliensis LbrM.33.2550   glycosyl hydrolase-like protein
Leishmania donovani LdBPK_332390.1   glycosyl hydrolase-like protein
Leishmania infantum LinJ.33.2390   glycosyl hydrolase-like protein
Leishmania major LmjF.33.2260   glycosyl hydrolase-like protein
Leishmania mexicana LmxM.32.2260   glycosyl hydrolase-like protein
Loa Loa (eye worm) LOAG_09591   glycosyl hydrolase family 85 protein
Mus musculus ENSMUSG00000033857   endo-beta-N-acetylglucosaminidase
Oryza sativa 4338487   Os05g0346500
Schistosoma japonicum Sjp_0316890   expressed protein
Schistosoma japonicum Sjp_0311470   expressed protein
Schistosoma japonicum Sjp_0009440   ko:K01227 mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase [EC3.2.1.96], putative
Schistosoma mansoni Smp_174990   endo beta n-acetylglucosaminidase
Trypanosoma brucei gambiense Tbg972.9.1720   endo-beta-N-acetylglucosaminidase, putative
Trypanosoma brucei Tb927.9.3400   endo-beta-N-acetylglucosaminidase, putative
Trypanosoma congolense TcIL3000_9_990   endo-beta-N-acetylglucosaminidase, putative
Trypanosoma cruzi TcCLB.511577.50   endo-beta-N-acetylglucosaminidase, putative
Trypanosoma cruzi TcCLB.504797.80   endo-beta-N-acetylglucosaminidase, putative

Essentiality

LmjF.33.2260 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.2050 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.160.2050 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.2050 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.160.2050 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • 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.
  • 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
  • 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
  • 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

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
Arthrobacter protophormiae Endo-beta-N-acetylglucosaminidase Compounds References
Homo sapiens endo-beta-N-acetylglucosaminidase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0232 0.5 0.5
0.0153 0.2871 1
0.0172 0.6205 0.5
0.016 0.2871 1
0.0343 1 1
0.0232 0.5 0.5
0.0153 0.2871 1
0.016 0.2871 1
0.0343 1 1
0.0343 1 1

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.33.2260 (Leishmania major), glycosyl hydrolase-like protein
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