EMD-9769

Single-particle
7.0 Å
EMD-9769
3D View Gallery
Deposition: 01/01/2019
Map released: 13/03/2019
Last modified: 06/11/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-9769
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EMICSS annotations (xml)

Yeast proteasome in translocation competent state (C3-a)

EMD-9769

Single-particle
7.0 Å
EMD-9769
3D View Gallery
Deposition: 01/01/2019
Map released: 13/03/2019
Last modified: 06/11/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Name: yeast 26S proteasome
Complex [1]
Name: yeast 26S proteasome
Natural source [1]
Organism: Saccharomyces cerevisiae S288c
Complex Portal [1]
ID Name Overlap
CPX-2262 26S Proteasome complex 0.88
Protein [33]
LEVO
Name: Proteasome subunit beta type-1
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB PDBe-KB AlphaFold DB AlphaFold DB
Domains
Gene Ontology [11]
Biological process:
proteasomal protein catabolic process proteasomal ubiquitin-independent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
threonine-type endopeptidase activity endopeptidase activity
Cellular location:
nucleus proteasome core complex, beta-subunit complex proteasome complex endoplasmic reticulum membrane proteasome core complex proteasome storage granule
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 23 kDa -
LEVO
Name: Proteasome subunit beta type-2
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [12]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
endopeptidase activity threonine-type endopeptidase activity
Cellular location:
endoplasmic reticulum membrane nucleus proteasome core complex proteasome core complex, beta-subunit complex proteasome storage granule cytosol proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 28 kDa -
LEVO
Name: Proteasome subunit beta type-3
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB PDBe-KB AlphaFold DB AlphaFold DB
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 22 kDa -
LEVO
Name: Proteasome subunit beta type-4
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB PDBe-KB AlphaFold DB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal protein catabolic process
Molecular function:
endopeptidase activator activity
Cellular location:
proteasome core complex, beta-subunit complex proteasome storage granule nucleus proteasome complex proteasome core complex endoplasmic reticulum membrane
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 22 kDa -
LEVO
Name: Proteasome subunit beta type-5
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [13]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasome core complex assembly proteasomal protein catabolic process
Molecular function:
threonine-type endopeptidase activity endopeptidase activity
Cellular location:
proteasome core complex endoplasmic reticulum membrane proteasome storage granule cytosol proteasome core complex, beta-subunit complex nucleus proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 31 kDa -
LEVO
Name: Proteasome subunit beta type-6
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal ubiquitin-independent protein catabolic process
Molecular function:
threonine-type endopeptidase activity peptidase activity
Cellular location:
proteasome core complex proteasome core complex, beta-subunit complex proteasome complex cytosol nucleus
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 26 kDa -
LEVO
Name: Proteasome subunit beta type-7
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [11]
Biological process:
proteasomal protein catabolic process proteasomal ubiquitin-independent protein catabolic process proteasome assembly proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
threonine-type endopeptidase activity
Cellular location:
nucleus proteasome storage granule proteasome complex endoplasmic reticulum membrane proteasome core complex proteasome core complex, beta-subunit complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 29 kDa -
LEVO
Name: Proteasome subunit alpha type-1
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 28 kDa -
LEVO
Name: Proteasome subunit alpha type-2
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal ubiquitin-independent protein catabolic process proteasomal protein catabolic process

Cellular location:
proteasome storage granule proteasome core complex, alpha-subunit complex nuclear outer membrane-endoplasmic reticulum membrane network cytoplasm proteasome core complex nucleus proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 27 kDa -
LEVO
Name: Proteasome subunit alpha type-3
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [12]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasomal protein catabolic process proteasome core complex assembly proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
threonine-type endopeptidase activity
Cellular location:
proteasome complex proteasome core complex, alpha-subunit complex proteasome storage granule proteasome core complex nuclear outer membrane-endoplasmic reticulum membrane network nucleus cytosol
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 28 kDa -
LEVO
Name: Proteasome subunit alpha type-4
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [11]
Biological process:
proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal protein catabolic process proteasomal ubiquitin-independent protein catabolic process
Molecular function:
threonine-type endopeptidase activity
Cellular location:
nucleus mitochondrion proteasome storage granule proteasome complex proteasome core complex nuclear outer membrane-endoplasmic reticulum membrane network proteasome core complex, alpha-subunit complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 28 kDa -
LEVO
Name: Proteasome subunit alpha type-5
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasomal protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal ubiquitin-independent protein catabolic process

Cellular location:
nuclear outer membrane-endoplasmic reticulum membrane network proteasome complex proteasome storage granule nucleus proteasome core complex, alpha-subunit complex cytoplasm proteasome core complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 28 kDa -
LEVO
Name: Proteasome subunit alpha type-6
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal protein catabolic process

Cellular location:
proteasome core complex proteasome core complex, alpha-subunit complex proteasome storage granule nucleus nuclear outer membrane-endoplasmic reticulum membrane network cytoplasm proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 25 kDa -
LEVO
Name: Probable proteasome subunit alpha type-7
EC number: 3.4.25.1
Number of copies: 2
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [11]
Biological process:
proteasomal ubiquitin-independent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process proteasomal protein catabolic process
Molecular function:
mRNA binding
Cellular location:
proteasome core complex, alpha-subunit complex nuclear outer membrane-endoplasmic reticulum membrane network proteasome core complex proteasome complex proteasome storage granule cytoplasm nucleus
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 31 kDa -
LEVO
Name: 26S protease regulatory subunit 7 homolog
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [13]
Biological process:
proteasome regulatory particle assembly ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process positive regulation of protein catabolic process positive regulation of RNA polymerase II transcription preinitiation complex assembly
Molecular function:
ATP hydrolysis activity proteasome-activating activity ATP binding ubiquitin protein ligase binding
Cellular location:
proteasome complex nucleus proteasome regulatory particle, base subcomplex cytoplasm
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 52 kDa -
LEVO
Name: 26S protease regulatory subunit 4 homolog
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [14]
Biological process:
proteasome regulatory particle assembly proteasome-mediated ubiquitin-dependent protein catabolic process positive regulation of protein catabolic process protein-containing complex localization peptide catabolic process ubiquitin-dependent protein catabolic process nonfunctional rRNA decay
Molecular function:
ATP hydrolysis activity proteasome-activating activity ATP binding
Cellular location:
proteasome complex nucleus proteasome regulatory particle, base subcomplex cytoplasm
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 48 kDa -
LEVO
Name: 26S protease regulatory subunit 8 homolog
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [19]
Biological process:
positive regulation of transcription elongation by RNA polymerase II negative regulation of DNA-binding transcription factor activity nonfunctional rRNA decay positive regulation of DNA-binding transcription factor activity proteasome regulatory particle assembly nucleotide-excision repair chromatin remodeling proteasome-mediated ubiquitin-dependent protein catabolic process positive regulation of RNA polymerase II transcription preinitiation complex assembly positive regulation of transcription elongation from RNA polymerase II promoter
Molecular function:
protein domain specific binding ubiquitin protein ligase binding proteasome-activating activity ATP hydrolysis activity ATP binding
Cellular location:
nucleus proteasome storage granule proteasome complex proteasome regulatory particle, base subcomplex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 45 kDa -
LEVO
Name: 26S protease regulatory subunit 6B homolog
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [12]
Biological process:
proteasome regulatory particle assembly ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process positive regulation of RNA polymerase II transcription preinitiation complex assembly
Molecular function:
proteasome-activating activity ATP binding ATP hydrolysis activity identical protein binding
Cellular location:
nucleus proteasome complex proteasome regulatory particle, base subcomplex cytoplasm
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 47 kDa -
LEVO
Name: 26S protease subunit RPT4
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [16]
Biological process:
positive regulation of transcription elongation by RNA polymerase II nucleotide-excision repair ubiquitin-dependent ERAD pathway positive regulation of RNA polymerase II transcription preinitiation complex assembly proteasome regulatory particle assembly positive regulation of transcription elongation from RNA polymerase II promoter proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
proteasome-activating activity protein domain specific binding ATP hydrolysis activity ATP binding ubiquitin protein ligase binding
Cellular location:
proteasome regulatory particle, base subcomplex cytosolic proteasome complex nucleus proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 49 kDa -
LEVO
Name: 26S protease regulatory subunit 6A
Number of copies: 1
UniProtKB UniProtKB PDBe-KB PDBe-KB AlphaFold DB AlphaFold DB
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 48 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN2
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [10]
Biological process:
proteasome assembly regulation of protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process
Molecular function:
enzyme regulator activity ubiquitin protein ligase binding
Cellular location:
proteasome regulatory particle, base subcomplex nucleus proteasome storage granule proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 104 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN9
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [9]
Biological process:
proteasome assembly ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
structural molecule activity
Cellular location:
cytosol proteasome regulatory particle, lid subcomplex nucleus proteasome complex proteasome storage granule
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 45 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN5
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [8]
Biological process:
protein deneddylation proteasome-mediated ubiquitin-dependent protein catabolic process

Cellular location:
proteasome storage granule proteasome regulatory particle, lid subcomplex nuclear proteasome complex cytoplasm COP9 signalosome proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 51 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN6
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [7]
Biological process:
proteasome-mediated ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process proteasome assembly
Molecular function:
structural molecule activity
Cellular location:
proteasome complex proteasome regulatory particle, lid subcomplex proteasome storage granule
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 49 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN7
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [8]
Biological process:
ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
enzyme regulator activity structural molecule activity
Cellular location:
proteasome regulatory particle proteasome complex proteasome regulatory particle, lid subcomplex nucleus
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 49 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN3
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [6]
Biological process:
ubiquitin-dependent protein catabolic process regulation of protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
enzyme regulator activity
Cellular location:
proteasome complex proteasome regulatory particle, lid subcomplex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 60 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN12
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [6]
Biological process:
ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process

Cellular location:
proteasome storage granule nucleus proteasome complex proteasome regulatory particle, lid subcomplex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 31 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN8
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [7]
Biological process:
ubiquitin-dependent protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
metallopeptidase activity isopeptidase activity
Cellular location:
proteasome storage granule proteasome regulatory particle, lid subcomplex proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 38 kDa -
LEVO
Name: Ubiquitin carboxyl-terminal hydrolase RPN11
EC number: 3.4.19.12
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [19]
Biological process:
protein deubiquitination proteasome assembly proteasome storage granule assembly peroxisome fission mitochondrial fission proteasome-mediated ubiquitin-dependent protein catabolic process
Molecular function:
cysteine-type deubiquitinase activity isopeptidase activity metal ion binding Lys63-specific deubiquitinase activity proteasome binding thiol-dependent deubiquitinase metallopeptidase activity
Cellular location:
proteasome complex proteasome storage granule proteasome regulatory particle, lid subcomplex cytosol mitochondrion nucleus
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 34 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN10
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [9]
Biological process:
proteasome assembly proteasome-mediated ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process
Molecular function:
K48-linked polyubiquitin modification-dependent protein binding polyubiquitin modification-dependent protein binding
Cellular location:
nucleus cytosol proteasome regulatory particle, base subcomplex proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 29 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN13
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [9]
Biological process:
proteasome-mediated ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process
Molecular function:
ubiquitin binding endopeptidase activator activity proteasome binding
Cellular location:
proteasome storage granule proteasome complex proteasome regulatory particle, lid subcomplex nucleus
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 17 kDa -
LEVO
Name: 26S proteasome complex subunit SEM1
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [18]
Biological process:
positive regulation of transcription by RNA polymerase II histone deubiquitination mRNA export from nucleus regulation of cell cycle filamentous growth proteasome-mediated ubiquitin-dependent protein catabolic process proteasome assembly double-strand break repair via homologous recombination maintenance of DNA trinucleotide repeats SAGA complex localization to transcription regulatory region ubiquitin-dependent protein catabolic process
Molecular function:
protein folding chaperone molecular adaptor activity
Cellular location:
proteasome complex proteasome storage granule transcription export complex 2 cytosol proteasome regulatory particle, lid subcomplex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 10 kDa -
LEVO
Name: 26S proteasome regulatory subunit RPN1
Number of copies: 1
UniProtKB PDBe-KB AlphaFold DB
Domains
Gene Ontology [11]
Biological process:
proteasome-mediated ubiquitin-dependent protein catabolic process regulation of protein catabolic process ubiquitin-dependent protein catabolic process
Molecular function:
protein-macromolecule adaptor activity enzyme regulator activity
Cellular location:
proteasome regulatory particle, base subcomplex cytoplasm endoplasmic reticulum nucleus proteasome storage granule proteasome complex
Natural source
Organism: Baker's yeast
Strain: ATCC 204508 / S288c
Molecular weight
Experimental Theoretical Method
- 109 kDa -