7PX8

CryoEM structure of mammalian acylaminoacyl-peptidase


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cryo-EM structure of acylpeptide hydrolase reveals substrate selection by multimerization and a multi-state serine-protease triad.

Kiss-Szeman, A.J.Straner, P.Jakli, I.Hosogi, N.Harmat, V.Menyhard, D.K.Perczel, A.

(2022) Chem Sci 13: 7132-7142

  • DOI: 10.1039/d2sc02276a
  • Primary Citation of Related Structures:  
    7PX8

  • PubMed Abstract: 
  • The first structure of tetrameric mammalian acylaminoacyl peptidase, an enzyme that functions as an upstream regulator of the proteasome through the removal of terminal N -acetylated residues from its protein substrates, was determined by cryo-EM and further elucidated by MD simulations ...

    The first structure of tetrameric mammalian acylaminoacyl peptidase, an enzyme that functions as an upstream regulator of the proteasome through the removal of terminal N -acetylated residues from its protein substrates, was determined by cryo-EM and further elucidated by MD simulations. Self-association results in a toroid-shaped quaternary structure, guided by an amyloidogenic β-edge and unique inserts. With a Pro introduced into its central β-sheet, sufficient conformational freedom is awarded to the segment containing the catalytic Ser587 that the serine protease catalytic triad alternates between active and latent states. Active site flexibility suggests that the dual function of catalysis and substrate selection are fulfilled by a novel mechanism: substrate entrance is regulated by flexible loops creating a double-gated channel system, while binding of the substrate to the active site is required for stabilization of the catalytic apparatus - as a second filter before hydrolysis. The structure not only underlines that within the family of S9 proteases homo-multimerization acts as a crucial tool for substrate selection, but it will also allow drug design targeting of the ubiquitin-proteasome system.


    Organizational Affiliation

    MTA-ELTE Protein Modelling Research Group, Eötvös Loránd Research Network Budapest - 1117 Hungary.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Acylamino-acid-releasing enzymeA, B, C, D732Sus scrofa domesticusMutation(s): 0 
EC: 3.4.19.1
UniProt
Find proteins for P19205 (Sus scrofa)
Explore P19205 
Go to UniProtKB:  P19205
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP19205
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Regional Development FundHungaryVEKOP-2.3.2-16-2017-00014
European Regional Development FundHungaryVEKOP-2.3.3-15-2017-00018
Ministry of Human CapacitiesHungary2018-1.2.1-NKP-2018-00005
National Research Development and Innovation Office (NKFIH)HungaryThematic Excellence Program 2019, Synth+
National Research Development and Innovation Office (NKFIH)HungaryK116305

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-25
    Type: Initial release
  • Version 1.1: 2022-06-01
    Changes: Data collection
  • Version 1.2: 2022-07-20
    Changes: Database references