5VHM

Conformational Landscape of the p28-Bound Human Proteasome Regulatory Particle


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Conformational Landscape of the p28-Bound Human Proteasome Regulatory Particle.

Lu, Y.Wu, J.Dong, Y.Chen, S.Sun, S.Ma, Y.B.Ouyang, Q.Finley, D.Kirschner, M.W.Mao, Y.

(2017) Mol Cell 67: 322-333.e6

  • DOI: https://doi.org/10.1016/j.molcel.2017.06.007
  • Primary Citation of Related Structures:  
    5VGZ, 5VHF, 5VHH, 5VHI, 5VHJ, 5VHM, 5VHN, 5VHO, 5VHP, 5VHQ, 5VHR, 5VHS

  • PubMed Abstract: 

    The proteasome holoenzyme is activated by its regulatory particle (RP) consisting of two subcomplexes, the lid and the base. A key event in base assembly is the formation of a heterohexameric ring of AAA-ATPases, which is guided by at least four RP assembly chaperones in mammals: PAAF1, p28/gankyrin, p27/PSMD9, and S5b. Using cryogenic electron microscopy, we analyzed the non-AAA structure of the p28-bound human RP at 4.5 Å resolution and determined seven distinct conformations of the Rpn1-p28-AAA subcomplex within the p28-bound RP at subnanometer resolutions. Remarkably, the p28-bound AAA ring does not form a channel in the free RP and spontaneously samples multiple "open" and "closed" topologies at the Rpt2-Rpt6 and Rpt3-Rpt4 interfaces. Our analysis suggests that p28 assists the proteolytic core particle to select a specific conformation of the ATPase ring for RP engagement and is released in a shoehorn-like fashion in the last step of the chaperone-mediated proteasome assembly.


  • Organizational Affiliation

    Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 10A [auth G]223Homo sapiensMutation(s): 0 
Gene Names: PSMD10
UniProt & NIH Common Fund Data Resources
Find proteins for O75832 (Homo sapiens)
Explore O75832 
Go to UniProtKB:  O75832
PHAROS:  O75832
GTEx:  ENSG00000101843 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO75832
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 7B [auth A]266Homo sapiensMutation(s): 0 
Gene Names: PSMC2MSS1
UniProt & NIH Common Fund Data Resources
Find proteins for P35998 (Homo sapiens)
Explore P35998 
Go to UniProtKB:  P35998
PHAROS:  P35998
GTEx:  ENSG00000161057 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35998
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 4C [auth B]266Homo sapiensMutation(s): 0 
Gene Names: PSMC1
UniProt & NIH Common Fund Data Resources
Find proteins for P62191 (Homo sapiens)
Explore P62191 
Go to UniProtKB:  P62191
GTEx:  ENSG00000100764 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62191
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 6B262Homo sapiensMutation(s): 0 
Gene Names: PSMC4MIP224TBP7
UniProt & NIH Common Fund Data Resources
Find proteins for P43686 (Homo sapiens)
Explore P43686 
Go to UniProtKB:  P43686
PHAROS:  P43686
GTEx:  ENSG00000013275 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP43686
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 10B262Homo sapiensMutation(s): 0 
Gene Names: PSMC6SUG2
UniProt & NIH Common Fund Data Resources
Find proteins for P62333 (Homo sapiens)
Explore P62333 
Go to UniProtKB:  P62333
GTEx:  ENSG00000100519 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62333
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 6A267Homo sapiensMutation(s): 0 
Gene Names: PSMC3TBP1
UniProt & NIH Common Fund Data Resources
Find proteins for P17980 (Homo sapiens)
Explore P17980 
Go to UniProtKB:  P17980
PHAROS:  P17980
GTEx:  ENSG00000165916 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP17980
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 8G [auth C]266Homo sapiensMutation(s): 0 
Gene Names: PSMC5SUG1
UniProt & NIH Common Fund Data Resources
Find proteins for P62195 (Homo sapiens)
Explore P62195 
Go to UniProtKB:  P62195
PHAROS:  P62195
GTEx:  ENSG00000087191 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62195
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 2H [auth f]848Homo sapiensMutation(s): 0 
Gene Names: PSMD2TRAP2
UniProt & NIH Common Fund Data Resources
Find proteins for Q13200 (Homo sapiens)
Explore Q13200 
Go to UniProtKB:  Q13200
PHAROS:  Q13200
GTEx:  ENSG00000175166 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13200
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-08-23
    Type: Initial release
  • Version 1.1: 2018-08-22
    Changes: Data collection, Database references
  • Version 1.2: 2018-09-12
    Changes: Data collection, Database references
  • Version 1.3: 2024-03-13
    Changes: Data collection, Database references