Detailed view for PF3D7_0931800

Basic information

TDR Targets ID: 4989
Plasmodium falciparum, proteasome subunit beta type-6, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.3807 | Length (AA): 282 | MW (Da): 32602 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG3

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

PF00227   Proteasome subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0005839   proteasome core complex  
GO:0004298   threonine endopeptidase activity  
GO:0051603   proteolysis involved in cellular protein catabolic process  
GO:0043161   proteasomal ubiquitin-dependent protein catabolic process  

Metabolic Pathways

Proteasome (KEGG)

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
1 282 1iru (E) 12 237 26.00 0 1 1.01 0.32
13 277 1ryp (E) 18 234 25.00 0 0.95 1.03 0.21
31 282 1yar (H) 1 195 22.00 0 1 0.88 -0.33
24 280 4r3o (N) 2 209 25.00 0.0035 1 0.943148 0.57
31 278 4r3o (H) 1 194 36.00 0 1 1.03323 0.25
31 277 1j2q (H) 1 190 23.00 0.00000015 1 0.865187 0.6

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:

PDB tag
  • 5FMG:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early schizont, early trophozoite, late schizont, late trophozoite, Oocyst, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, sporozoite, early ring, late ring. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte, merozoite, Female Gametocyte, Male Gametocyte. PlasmoDB Lasonder E
Show/Hide expression data references
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB

Orthologs

Ortholog group members (OG5_127762)

Species Accession Gene Product
Arabidopsis thaliana AT4G31300   20S proteasome subunit PBA1
Babesia bovis BBOV_II005970   proteosome A, putative
Brugia malayi Bm1_51640   Proteasome A-type and B-type family protein
Candida albicans CaO19.6991   multicatalytic endopeptidase
Caenorhabditis elegans CELE_K08D12.1   Protein PBS-1
Cryptosporidium hominis Chro.20097   proteasome B type subunit
Cryptosporidium parvum cgd2_860   Pre3p/proteasome regulatory subunit beta type 6, NTN hydrolase fold
Dictyostelium discoideum DDB_G0267390   20S proteasome subunit beta-6
Drosophila melanogaster Dmel_CG8392   Proteasome beta1 subunit
Echinococcus granulosus EgrG_000230600   proteasome subunit beta type 6
Entamoeba histolytica EHI_024470   proteasome subunit beta type 6 precursor, putative
Echinococcus multilocularis EmuJ_000230600   proteasome subunit beta type 6
Giardia lamblia GL50803_9824   Proteasome subunit beta type 9 precursor
Homo sapiens ENSG00000142507   proteasome (prosome, macropain) subunit, beta type, 6
Leishmania braziliensis LbrM.12.0040   proteasome beta-1 subunit, putative
Leishmania donovani LdBPK_120030.1   proteasome beta-1 subunit, putative
Leishmania major LmjF.12.0030   proteasome beta-1 subunit, putative
Leishmania mexicana LmxM.12.0030   proteasome beta-1 subunit, putative
Loa Loa (eye worm) LOAG_02565   proteasome A-type and B-type family protein
Mus musculus ENSMUSG00000018286   proteasome (prosome, macropain) subunit, beta type 6
Neospora caninum NCLIV_048880   Proteasome subunit beta type-7, related
Oryza sativa 4330861   Os02g0770000
Oryza sativa 4340065   Os06g0139900
Plasmodium berghei PBANKA_0832600   proteasome subunit beta type-6, putative
Plasmodium falciparum PF3D7_0931800   proteasome subunit beta type-6, putative
Plasmodium knowlesi PKNH_0730500   proteasome subunit beta type-6, putative
Plasmodium vivax PVX_087115   proteasome subunit beta type-6, putative
Plasmodium yoelii PY03212   proteasome beta-subunit, putative
Saccharomyces cerevisiae YJL001W   proteasome core particle subunit beta 1
Schistosoma japonicum Sjp_0080900   ko:K02738 20S proteasome subunit beta 1, putative
Schistosoma mansoni Smp_034490   proteasome catalytic subunit 1 (T01 family)
Schmidtea mediterranea mk4.000268.10   Proteasome subunit beta type
Trypanosoma brucei gambiense Tbg972.6.970   proteasome beta-1 subunit, putative
Trypanosoma brucei Tb927.6.1260   proteasome beta-1 subunit, putative
Trypanosoma congolense TcIL3000_6_820   proteasome beta-1 subunit, putative
Trypanosoma cruzi TcCLB.509429.110   proteasome beta-1 subunit, putative
Trypanosoma cruzi TcCLB.507603.40   proteasome beta-1 subunit, putative
Toxoplasma gondii TGME49_223590   proteasome subunit
Theileria parva TP02_0560   proteasome precursor, putative
Trichomonas vaginalis TVAG_127250   Family T1, proteasome beta subunit, threonine peptidase

Essentiality

PF3D7_0931800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.1260 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.1260 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.1260 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.1260 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_K08D12.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_K08D12.1 Caenorhabditis elegans larval arrest wormbase
CELE_K08D12.1 Caenorhabditis elegans slow growth wormbase
CELE_K08D12.1 Caenorhabditis elegans sterile wormbase
YJL001W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0832600 Plasmodium berghei Slow plasmo
TGME49_223590 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • 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.
  • 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
Homo sapiens proteasome (prosome, macropain) subunit, beta type, 6 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
0.0141 0.3349 0.4911
0.0266 0.3346 0.4911
0.0141 0.3349 0.4911
0.0259 0.3483 0.506
0.0129 0.3349 0.4911
0.0117 0.2777 0.4911
0.0235 0.3363 0.4911
0.0141 0.3349 0.4911
0.0114 0.3349 0.4911
0.0141 0.3349 0.4911
0.0262 0.3351 0.4911
0.0125 0.3552 0.3707
0.0141 0.3363 0.4911
0.0136 0.3338 0.4898
0.0122 0.3556 0.3685
0.0141 0.3363 0.4911
0.0254 0.3363 0.4911
0.0245 0.3363 0.4911

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

15 literature references were 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 PF3D7_0931800 (Plasmodium falciparum), proteasome subunit beta type-6, putative
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