Detailed view for LmjF.34.0900

Basic information

TDR Targets ID: 27528
Leishmania major, ubiquitin-conjugating enzyme e2, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.4569 | Length (AA): 289 | MW (Da): 31259 | 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

PF00179   Ubiquitin-conjugating enzyme

Gene Ontology

Mouse over links to read term descriptions.
GO:0019787   small conjugating protein ligase activity  
GO:0051246   regulation of protein metabolic process  
GO:0043687   post-translational protein modification  

Structural information

Modbase 3D models:

There are 6 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
3 120 2awf (A) 1 131 27.00 0 1 0.83 -1.41
5 166 1ayz (A) 2 154 23.00 0 1 0.82 -0.75
6 170 3k9o (A) 6 168 34.00 0.000000000078 1 0.951134 -0.3
7 147 3bzh (A) 47 190 23.00 0 0.91 0.873189 -1.12
11 117 2fo3 (A) 10 116 23.00 0 0.97 0.752542 -1.25
45 109 1yf9 (A) 46 110 40.00 0.00000071 0.39 0.546113 -0.32

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_128268)

Species Accession Gene Product
Arabidopsis thaliana AT5G50430   ubiquitin-conjugating enzyme 33
Arabidopsis thaliana AT1G17280   ubiquitin-conjugating enzyme E2 34
Brugia malayi Bm1_42605   ubiquitin conjugating enzyme 6
Candida albicans CaO19.7347   ubiquitin-conjugating enzyme
Caenorhabditis elegans CELE_Y110A2AM.3   Protein UBC-26
Dictyostelium discoideum DDB_G0286511   hypothetical protein
Dictyostelium discoideum DDB_G0294380   hypothetical protein
Drosophila melanogaster Dmel_CG5823   CG5823 gene product from transcript CG5823-RB
Echinococcus granulosus EgrG_001188800   ubiquitin conjugating enzyme E2 J2
Entamoeba histolytica EHI_150370   ubiquitin-conjugating enzyme family protein
Echinococcus multilocularis EmuJ_001188800   ubiquitin conjugating enzyme E2 J2
Giardia lamblia GL50803_6524   Ubiquitin-conjugating enzyme E2-28.4 kDa
Homo sapiens ENSG00000160087   ubiquitin-conjugating enzyme E2, J2
Leishmania braziliensis LbrM.20.0870   ubiquitin-conjugating enzyme e2, putative
Leishmania braziliensis LbrM.20.0900   ubiquitin-conjugating enzyme e2, putative
Leishmania braziliensis LbrM.20.0890   ubiquitin-conjugating enzyme e2, putative
Leishmania donovani LdBPK_340950.1   ubiquitin-conjugating enzyme E2, putative
Leishmania infantum LinJ.34.0950   ubiquitin-conjugating enzyme e2, putative
Leishmania major LmjF.34.0900   ubiquitin-conjugating enzyme e2, putative
Leishmania mexicana LmxM.33.0900   ubiquitin-conjugating enzyme e2, putative
Loa Loa (eye worm) LOAG_03681   ubiquitin conjugating enzyme 6
Mus musculus ENSMUSG00000023286   ubiquitin-conjugating enzyme E2J 2
Neospora caninum NCLIV_066720   cDNA clone:001-047-D04, full insert sequence, related
Oryza sativa 4340379   Os06g0193000
Saccharomyces cerevisiae YER100W   E2 ubiquitin-conjugating protein UBC6
Schistosoma japonicum Sjp_0049480   ko:K04554 ubiquitin-conjugating enzyme E2 J2, putative
Schistosoma mansoni Smp_059750.1   ubiquitin-conjugating enzyme E2 j2
Schistosoma mansoni Smp_059750.2   ubiquitin-conjugating enzyme E2 j2
Schmidtea mediterranea mk4.001006.00   Ubiquitin-conjugating enzyme E2 J2
Schmidtea mediterranea mk4.000544.12   Ubiquitin-conjugating enzyme E2 J2
Schmidtea mediterranea mk4.003904.02   Ubiquitin-conjugating enzyme E2 J2
Schmidtea mediterranea mk4.000544.08   Ubiquitin-conjugating enzyme E2 J2
Schmidtea mediterranea mk4.003910.04   Ubiquitin-conjugating enzyme E2 J2
Schmidtea mediterranea mk4.004804.02   Ubiquitin-conjugating enzyme E2 J2
Trypanosoma brucei gambiense Tbg972.4.3470   ubiquitin-conjugating enzyme e2, putative,ubiquitin carrier protein, putative,ubiquitin-protein ligase, putative
Trypanosoma brucei gambiense Tbg972.4.3220   ubiquitin-conjugating enzyme e2, putative,ubiquitin carrier protein, putative,ubiquitin-protein ligase, putative
Trypanosoma brucei Tb927.4.3460   ubiquitin-conjugating enzyme E2, putative
Trypanosoma brucei Tb927.4.3190   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.504055.81   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.506435.300   ubiquitin-conjugating enzyme E2, putative
Toxoplasma gondii TGME49_208570   ubiquitin conjugating enzyme E2, putative
Toxoplasma gondii TGME49_251640   ubiquitin-conjugating enzyme subfamily protein

Essentiality

LmjF.34.0900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.3190 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.3190 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.3190 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.3190 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.4.3460 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.3460 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.3460 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.3460 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_208570 Toxoplasma gondii Probably non-essential sidik
TGME49_251640 Toxoplasma gondii Probably non-essential 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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

1 literature reference was collected for this gene.

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User comments

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Gene identifier LmjF.34.0900 (Leishmania major), ubiquitin-conjugating enzyme e2, putative
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