Detailed view for LmjF.36.0540

Basic information

TDR Targets ID: 26064
Leishmania major, ubiquitin-like protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7938 | Length (AA): 317 | MW (Da): 33141 | 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

PF00240   Ubiquitin family
PF00627   UBA/TS-N domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0003684   damaged DNA binding  
GO:0043161   proteasomal ubiquitin-dependent protein catabolic process  
GO:0006289   nucleotide-excision repair  

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
1 317 1oqy (A) 3 358 18.00 0 1 0.83 0.78
273 315 2bwb (A) 327 369 49.00 0.000074 1 1.08 -3.62
1 315 1oqy (A) 3 356 20.00 0 1 0.794691 1.84
273 315 2bwe (B) 327 369 49.00 0.00026 1 0.937647 -2.22

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_127163)

Species Accession Gene Product
Arabidopsis thaliana AT2G17200   ubiquitin receptor protein DSK2B
Arabidopsis thaliana AT2G17190   ubiquitin family protein
Babesia bovis BBOV_IV011710   ubiquitin domain containing protein family
Brugia malayi Bm1_54685   Ubiquitin family protein
Candida albicans CaO19.12805   protein degradation tagging
Candida albicans CaO19.5345   protein degradation tagging
Caenorhabditis elegans CELE_F15C11.2   Protein UBQL-1, isoform C
Cryptosporidium hominis Chro.40266   required with RAD23 for duplication of the spindle pole body; Dsk2p
Cryptosporidium hominis Chro.70562   suppressor of NosA
Cryptosporidium parvum cgd7_5020   ubiqutin family protein
Cryptosporidium parvum cgd4_2360   DSK2 like protein with a ubiquitin domain, 2 STI1 motifs and a UBA domain at its C-terminus
Dictyostelium discoideum DDB_G0267452   UAS domain-containing protein
Drosophila melanogaster Dmel_CG8160   CG8160 gene product from transcript CG8160-RA
Drosophila melanogaster Dmel_CG14224   Ubiquilin
Echinococcus granulosus EgrG_000262650   ubiquilin 1
Echinococcus granulosus EgrG_000262500   ubiquilin 1
Entamoeba histolytica EHI_022980   ubiquitin-like protein
Echinococcus multilocularis EmuJ_000262500   ubiquilin 1
Giardia lamblia GL50803_15270   Ubiquitin protein, putative
Homo sapiens ENSG00000135018   ubiquilin 1
Homo sapiens 29978   ubiquilin 2
Homo sapiens ENSG00000160803   ubiquilin 4
Leishmania braziliensis LbrM.35.0650   ubiquitin-like protein, putative
Leishmania donovani LdBPK_360590.1   ubiquitin-like protein, putative
Leishmania infantum LinJ.36.0590   ubiquitin-like protein, putative
Leishmania major LmjF.36.0540   ubiquitin-like protein, putative
Leishmania mexicana LmxM.36.0540   ubiquitin-like protein, putative
Loa Loa (eye worm) LOAG_12826   ubiquitin family protein
Mus musculus ENSMUSG00000008604   ubiquilin 4
Mus musculus ENSMUSG00000050148   ubiquilin 2
Mus musculus ENSMUSG00000005312   ubiquilin 1
Neospora caninum NCLIV_048800   hypothetical protein
Neospora caninum NCLIV_016890   hypothetical protein
Oryza sativa 4349264   Os10g0542200
Oryza sativa 4331510   Os03g0131300
Plasmodium berghei PBANKA_0934200   ubiquitin domain-containing protein DSK2, putative
Plasmodium berghei PBANKA_0916400   ubiquitin-like protein, putative
Plasmodium falciparum PF3D7_1132000   ubiquitin-like protein, putative
Plasmodium falciparum PF3D7_1113400   ubiquitin domain-containing protein DSK2, putative
Plasmodium knowlesi PKNH_0911000   ubiquitin domain-containing protein DSK2, putative
Plasmodium knowlesi PKNH_0930200   ubiquitin-like protein, putative
Plasmodium vivax PVX_092205   ubiquitin domain containing protein
Plasmodium vivax PVX_091315   ubiquitin domain-containing protein DSK2, putative
Plasmodium yoelii PY04045   ubiquitin-like protein dsk2
Plasmodium yoelii PY03631   suppressor of NosA
Saccharomyces cerevisiae YMR276W   Dsk2p
Schistosoma japonicum Sjp_0057840   ko:K04523 ubiquilin 1, putative
Schistosoma japonicum Sjp_0057850   ko:K04523 ubiquilin 1, putative
Schistosoma mansoni Smp_010290   ubiquilin 12
Schmidtea mediterranea mk4.002345.07   Ubiquilin-1
Trypanosoma brucei gambiense Tbg972.10.6030   ubiquitin-like protein DSK2, putative
Trypanosoma brucei Tb927.10.4980   ubiquitin-like protein DSK2, putative
Trypanosoma congolense TcIL3000_10_4160   ubiquitin-like protein DSK2, putative
Trypanosoma cruzi TcCLB.506677.10   ubiquitin-like protein, putative
Trypanosoma cruzi TcCLB.506583.30   ubiquitin-like protein, putative
Toxoplasma gondii TGME49_223680   ubiquitin family protein
Toxoplasma gondii TGME49_240700   ubiquitin family protein
Theileria parva TP01_1137   hypothetical protein
Trichomonas vaginalis TVAG_369460   ubiquitin, putative
Trichomonas vaginalis TVAG_265390   conserved hypothetical protein
Trichomonas vaginalis TVAG_097660   ubiquilin, putative

Essentiality

LmjF.36.0540 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4980 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.4980 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.4980 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.4980 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
YMR276W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0916400 Plasmodium berghei Slow plasmo
TGME49_240700 Toxoplasma gondii Essentiality uncertain sidik
TGME49_223680 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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.
  • 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

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

  • Lmaj006411AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj006411; Recombinant protein: full-length; Source: L major; ubiquitin-like protein, putative ;

Bibliographic References

No literature references available for this target.

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Gene identifier LmjF.36.0540 (Leishmania major), ubiquitin-like protein, putative
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