Detailed view for LmjF.05.0930

Basic information

TDR Targets ID: 22952
Leishmania major, ubiquitin-conjugating enzyme, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.8836 | Length (AA): 464 | MW (Da): 49124 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

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
6 169 2f4w (A) 12 168 34.00 0 1 0.73 -1.02
9 122 1z3d (A) 7 113 32.00 0.000000088 1 0.71 -1.49
6 154 2f4w (A) 12 157 35.00 0 1 0.527521 -0.98
7 126 1wzv (A) 2 115 26.00 0 1 0.420021 -0.93
9 122 1z3d (A) 7 113 32.00 0.00000063 1 0.68789 -1.28
368 414 4x8w (H) 1 306 43.00 0.21 0.02 0.245493 2.82

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile amastigotes. 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_128898)

Species Accession Gene Product
Arabidopsis thaliana AT3G17000   ubiquitin-conjugating enzyme E2 32
Caenorhabditis elegans CELE_D1022.1   Protein UBC-6, isoform B
Cryptosporidium hominis Chro.80443   hypothetical protein
Cryptosporidium parvum cgd8_3850   Ubc6p like ubiquiting conjugating enzyme E2, possible transmembrane domain at C
Dictyostelium discoideum DDB_G0281369   hypothetical protein
Echinococcus granulosus EgrG_000406600   Ubiquitin conjugating enzyme E2 J1
Entamoeba histolytica EHI_049740   ubiquitin-conjugating enzyme family protein
Echinococcus multilocularis EmuJ_000406600   Ubiquitin conjugating enzyme E2 J1
Giardia lamblia GL50803_5921   Ubiquitin-conjugating enzyme E2-28.4 kDa
Homo sapiens ENSG00000198833   ubiquitin-conjugating enzyme E2, J1
Leishmania braziliensis LbrM.05.0910   ubiquitin-conjugating enzyme, putative
Leishmania donovani LdBPK_050930.1   ubiquitin-conjugating enzyme E2, putative
Leishmania infantum LinJ.05.0930   ubiquitin-conjugating enzyme, putative
Leishmania major LmjF.05.0930   ubiquitin-conjugating enzyme, putative
Leishmania mexicana LmxM.05.0930   ubiquitin-conjugating enzyme, putative
Loa Loa (eye worm) LOAG_05499   hypothetical protein
Mus musculus ENSMUSG00000028277   ubiquitin-conjugating enzyme E2J 1
Neospora caninum NCLIV_067330   ubiquitin-conjugating enzyme e2, putative
Oryza sativa 4332614   Os03g0308000
Schistosoma japonicum Sjp_0212120   ko:K10578 ubiquitin-conjugating enzyme E2 J1, putative
Schistosoma japonicum Sjp_0310290   expressed protein
Schistosoma mansoni Smp_174670   non-canonical ubiquitin conjugating enzyme
Schmidtea mediterranea mk4.001680.02   Ubiquitin-conjugating enzyme E2 J1
Trypanosoma brucei gambiense Tbg972.7.8160   ubiquitin-conjugating enzyme, putative,non-canonical ubiquiting-conjugating enzyme 1, putative
Trypanosoma brucei Tb927.7.6960   ubiquitin-conjugating enzyme E2, putative
Trypanosoma congolense TcIL3000_0_44030   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.508387.100   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.506789.200   ubiquitin-conjugating enzyme E2, putative
Toxoplasma gondii TGME49_278670   ubiquitin-conjugating enzyme subfamily protein
Trichomonas vaginalis TVAG_066800   ubiquitin-conjugating enzyme E2 j2, putative
Trichomonas vaginalis TVAG_091080   non-canonical ubiquitin conjugating enzyme, putative

Essentiality

LmjF.05.0930 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.6960 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.6960 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.6960 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.6960 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_D1022.1 Caenorhabditis elegans larval arrest wormbase
CELE_D1022.1 Caenorhabditis elegans slow growth wormbase
TGME49_278670 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

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.

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.05.0930 (Leishmania major), ubiquitin-conjugating enzyme, putative
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