Detailed view for PF3D7_0413600

Basic information

TDR Targets ID: 3909
Plasmodium falciparum, 26S protease regulatory subunit 6B, putative

Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.3782 | Length (AA): 392 | MW (Da): 44666 | 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

PF00004   ATPase family associated with various cellular activities (AAA)

Gene Ontology

Mouse over links to read term descriptions.
GO:0005838   proteasome regulatory particle  
GO:0036402   GO:proteasome-activating ATPase activity  

GO:0005737   cytoplasm  
GO:0005634   nucleus  
GO:0016887   ATPase activity  
GO:0016787   hydrolase activity  
GO:0005524   ATP binding  
GO:0000166   nucleotide binding  
GO:0017111   nucleoside-triphosphatase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  
GO:0030163   protein catabolic process  

Metabolic Pathways

Proteasome (KEGG)

Structural information

Modbase 3D models:

There are 5 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
2 389 1e32 (A) 44 454 30.00 0 1 1.28 -0.03
130 377 1ixz (A) 148 393 42.00 0 1 1.26 -1.79
1 390 3cf3 (A) 344 758 31.00 0.049 1 1.2912 0.31
127 384 3h4m (A) 159 416 57.00 0.000023 1 1.44736 -1.33
310 381 3aji (B) 337 408 60.00 0 1 1.02567 -1.49

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 intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst, Ring, Sporozoite, Female Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile gametocyte, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Male Gametocyte. PlasmoDB Lasonder E
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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.
  • 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_127831)

Species Accession Gene Product
Arabidopsis thaliana AT5G58290   regulatory particle triple-A ATPase 3
Babesia bovis BBOV_II004930   26s proteasome aaa-ATPase subunit Rpt3, putative
Brugia malayi Bm1_46680   26S proteasome subunit P45 family protein
Candida albicans CaO19.13215   likely ATPase similar to S. cerevisiae RPT3 (YDR394W) ATPase subunit of the 19S regulatory particle of the 26S proteasome
Candida albicans CaO19.5793   likely ATPase similar to S. cerevisiae RPT3 (YDR394W) ATPase subunit of the 19S regulatory particle of the 26S proteasome
Caenorhabditis elegans CELE_F23F12.6   Protein RPT-3
Cryptosporidium hominis Chro.40284   26S proteasome AAA-ATPase subunit RPT3
Cryptosporidium parvum cgd4_2540   26S proteasome regulatory subunit 26b like AAA ATpase
Dictyostelium discoideum DDB_G0289003   26S protease regulatory subunit 6B
Drosophila melanogaster Dmel_CG16916   Regulatory particle triple-A ATPase 3
Drosophila melanogaster Dmel_CG9475   Regulatory particle triple-A ATPase 3-related
Echinococcus granulosus EgrG_000223000   26S proteasome regulatory subunit T3
Entamoeba histolytica EHI_177320   26S protease regulatory subunit, putative
Echinococcus multilocularis EmuJ_000223000   26S proteasome regulatory subunit T3
Giardia lamblia GL50803_7950   26S protease regulatory subunit 6B
Homo sapiens ENSG00000013275   proteasome (prosome, macropain) 26S subunit, ATPase, 4
Leishmania braziliensis LbrM.12.0230   proteasome regulatory ATPase subunittcc1l8.3, putative
Leishmania donovani LdBPK_120190.1   proteasome regulatory ATPase subunittcc1l8.3, putative
Leishmania infantum LinJ.12.0190   proteasome regulatory ATPase subunittcc1l8.3, putative
Leishmania major LmjF.12.0210   proteasome regulatory ATPase subunittcc1l8.3, putative
Leishmania mexicana LmxM.12.0210   proteasome regulatory ATPase subunittcc1l8.3, putative
Loa Loa (eye worm) LOAG_02032   hypothetical protein
Loa Loa (eye worm) LOAG_02033   hypothetical protein
Mus musculus ENSMUSG00000030603   proteasome (prosome, macropain) 26S subunit, ATPase, 4
Neospora caninum NCLIV_030650   26S protease regulatory subunit 6b, putative
Oryza sativa 4329182   Os02g0325100
Onchocerca volvulus OVOC9841  
Onchocerca volvulus OVOC9840  
Plasmodium berghei PBANKA_0715600   26S protease regulatory subunit 6B, putative
Plasmodium falciparum PF3D7_0413600   26S protease regulatory subunit 6B, putative
Plasmodium knowlesi PKNH_0505200   26S protease regulatory subunit 6B, putative
Plasmodium vivax PVX_089640   26S proteasome AAA-ATPase subunit RPT3, putative
Plasmodium yoelii PY00544   26S proteasome ATPase
Saccharomyces cerevisiae YDR394W   proteasome regulatory particle base subunit RPT3
Schistosoma japonicum Sjp_0044260   ko:K03063 26S proteasome regulatory subunit T3, putative
Schistosoma mansoni Smp_072340   26S protease regulatory subunit 6b
Schmidtea mediterranea mk4.001221.01   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.011994.00   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.036310.00   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.012227.01   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.001192.11   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.001674.04   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.037323.01   Probable 26S protease regulatory subunit 6B
Schmidtea mediterranea mk4.002262.02  
Schmidtea mediterranea mk4.001406.00   Probable 26S protease regulatory subunit 6B
Trypanosoma brucei gambiense Tbg972.6.790   proteasome regulatory ATPase subunit 3, putative
Trypanosoma brucei Tb927.6.1090   proteasome regulatory ATPase subunit 3
Trypanosoma congolense TcIL3000_6_560   proteasome regulatory ATPase subunit 3, putative
Trypanosoma congolense TcIL3000_0_16770   proteasome regulatory ATPase subunit 3
Trypanosoma cruzi TcCLB.509429.270   proteasome regulatory ATPase subunit 3, putative
Trypanosoma cruzi TcCLB.507603.200   proteasome regulatory ATPase subunit 3, putative
Toxoplasma gondii TGME49_229950   26S proteasome regulatory subunit 6b, putative
Theileria parva TP04_0031   26S proteasome aaa-ATPase subunit Rpt3, putative
Trichomonas vaginalis TVAG_433230   26S protease regulatory subunit, putative
Trichomonas vaginalis TVAG_135700   26S protease regulatory subunit, putative

Essentiality

PF3D7_0413600 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.1090 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.1090 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.1090 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.1090 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F23F12.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_F23F12.6 Caenorhabditis elegans larval lethal wormbase
CELE_F23F12.6 Caenorhabditis elegans slow growth wormbase
CELE_F23F12.6 Caenorhabditis elegans sterile wormbase
YDR394W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0715600 Plasmodium berghei Slow plasmo
TGME49_229950 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.

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) 26S subunit, ATPase, 4 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.

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Gene identifier PF3D7_0413600 (Plasmodium falciparum), 26S protease regulatory subunit 6B, putative
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