Detailed view for LmjF.29.0120

Basic information

TDR Targets ID: 22532
Leishmania major, proteasome regulatory non-ATPase subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7013 | Length (AA): 909 | MW (Da): 99325 | 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

PF01851   Proteasome/cyclosome repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0000502   proteasome complex  
GO:0030234   enzyme regulator activity  
GO:0005488   binding  
GO:0042176   regulation of protein catabolic process  

Metabolic Pathways

Proteasome (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
1 772 2bpt (A) 1 812 12.00 0 1 0.67 -0.05
318 853 2bpt (A) 34 652 11.00 0 0.3 0.54 -0.31
381 772 1b3u (A) 171 587 13.00 0 0.49 0.59 -0.61
48 909 4ady (A) 8 913 16.00 0 1 1.03299 0
115 890 4ady (B) 63 882 16.00 0 1 0.923385 0.05
458 588 2n3t (A) 482 612 37.00 0 0.87 0.573914 0.22
701 797 5dcq (A) 41 130 18.00 0.17 0.17 0.205111 -0.45

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_127950)

Species Accession Gene Product
Arabidopsis thaliana AT2G20580   26S proteasome regulatory subunit S2 1A
Arabidopsis thaliana AT4G28470   26S proteasome non-ATPase regulatory subunit 2 1B
Babesia bovis BBOV_IV009920   proteasome 26S regulatory subunit, putative
Brugia malayi Bm1_30845   26S proteasome regulatory complex subunit p97
Candida albicans CaO19.12421   similar to S. cerevisiae RPN1 (YHR027C) subunit of the 19S regulatory particle of the 26S proteasome
Candida albicans CaO19.4956   similar to S. cerevisiae RPN1 (YHR027C) subunit of the 19S regulatory particle of the 26S proteasome
Caenorhabditis elegans CELE_T22D1.9   Protein RPN-1
Cryptosporidium hominis Chro.80073   26S proteasome regulatory subunit S2 (RPN1)
Cryptosporidium parvum cgd8_570   proteasome regulatory subunit S2 (RPN1)
Dictyostelium discoideum DDB_G0293752   26S proteasome non-ATPase regulatory subunit 2
Drosophila melanogaster Dmel_CG7762   Regulatory particle non-ATPase 1
Echinococcus granulosus EgrG_000223600   26s proteasome regulatory particle subunit
Entamoeba histolytica EHI_198010   19S cap proteasome S2 subunit
Echinococcus multilocularis EmuJ_000223600   26s proteasome regulatory particle subunit
Giardia lamblia GL50803_33166   26S proteasome non-ATPase regulatory subunit 2
Homo sapiens ENSG00000175166   proteasome (prosome, macropain) 26S subunit, non-ATPase, 2
Leishmania braziliensis LbrM.29.0130   proteasome regulatory non-ATPase subunit, putative
Leishmania donovani LdBPK_290120.1   proteasome regulatory non-ATPase subunit, putative
Leishmania infantum LinJ.29.0120   proteasome regulatory non-ATPase subunit, putative
Leishmania major LmjF.29.0120   proteasome regulatory non-ATPase subunit, putative
Leishmania mexicana LmxM.08_29.0120   proteasome regulatory non-ATPase subunit, putative
Loa Loa (eye worm) LOAG_02608   26S proteasome regulatory complex subunit p97
Mus musculus ENSMUSG00000006998   proteasome (prosome, macropain) 26S subunit, non-ATPase, 2
Neospora caninum NCLIV_056700   26S proteasome regulatory subunit rpn1, related
Oryza sativa 4346741   Os09g0326800
Oryza sativa 4328287   Os02g0146700
Plasmodium berghei PBANKA_0303600   26S proteasome regulatory subunit RPN1, putative
Plasmodium falciparum PF3D7_0205900   26S proteasome regulatory subunit RPN1, putative
Plasmodium knowlesi PKNH_0415000   26S proteasome regulatory subunit RPN1, putative
Plasmodium vivax PVX_003730   26S proteasome regulatory subunit RPN1, putative
Plasmodium yoelii PY01123   Proteasome/cyclosome repeat, putative
Saccharomyces cerevisiae YHR027C   proteasome regulatory particle base subunit RPN1
Schistosoma japonicum Sjp_0076480   ko:K03028 26S proteasome regulatory subunit N1, putative
Schistosoma mansoni Smp_000030.3   26s proteasome regulatory particle subunit
Schistosoma mansoni Smp_000030.1   26s proteasome regulatory particle subunit
Schistosoma mansoni Smp_000030.2   26s proteasome regulatory particle subunit
Schmidtea mediterranea mk4.005486.05   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.008626.01   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.000133.00   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.005537.01   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.011959.00   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.004253.03   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.007990.01  
Schmidtea mediterranea mk4.001339.01   26S proteasome non-ATPase regulatory subunit 2
Schmidtea mediterranea mk4.011440.00  
Schmidtea mediterranea mk4.014019.01   26S proteasome non-ATPase regulatory subunit 2
Trypanosoma brucei gambiense Tbg972.3.6220   26S proteasome regulatory non-ATPase subunit
Trypanosoma brucei Tb927.3.5520   26S proteasome regulatory non-ATPase subunit
Trypanosoma congolense TcIL3000_3_3470   26S proteasome regulatory non-ATPase subunit
Trypanosoma cruzi TcCLB.508409.9   26S proteasome regulatory non-ATPase subunit, putative
Trypanosoma cruzi TcCLB.504221.20   26S proteasome regulatory non-ATPase subunit, putative
Toxoplasma gondii TGME49_313410   proteasome 26S regulatory subunit
Theileria parva TP01_0709   26S proteasome regulatory subunit 2, putative
Trichomonas vaginalis TVAG_286380   26S proteasome regulatory subunit, putative

Essentiality

LmjF.29.0120 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.5520 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.5520 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.5520 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.5520 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T22D1.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_T22D1.9 Caenorhabditis elegans larval arrest wormbase
CELE_T22D1.9 Caenorhabditis elegans slow growth wormbase
CELE_T22D1.9 Caenorhabditis elegans sterile wormbase
YHR027C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0303600 Plasmodium berghei Slow plasmo
TGME49_313410 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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

Druggability index (range: 0 to 1): 0.5

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
Homo sapiens proteasome (prosome, macropain) 26S subunit, non-ATPase, 2 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.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier LmjF.29.0120 (Leishmania major), proteasome regulatory non-ATPase subunit, putative
Title for this comment
Comment