5M32

Human 26S proteasome in complex with Oprozomib


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 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

Long-range allosteric regulation of the human 26S proteasome by 20S proteasome-targeting cancer drugs.

Haselbach, D.Schrader, J.Lambrecht, F.Henneberg, F.Chari, A.Stark, H.

(2017) Nat Commun 8: 15578-15578

  • DOI: 10.1038/ncomms15578
  • Primary Citation of Related Structures:  
    5M32

  • PubMed Abstract: 
  • The proteasome holoenzyme is the major non-lysosomal protease; its proteolytic activity is essential for cellular homeostasis. Thus, it is an attractive target for the development of chemotherapeutics. While the structural basis of core particle (CP) inhibitors is largely understood, their structural impact on the proteasome holoenzyme remains entirely elusive ...

    The proteasome holoenzyme is the major non-lysosomal protease; its proteolytic activity is essential for cellular homeostasis. Thus, it is an attractive target for the development of chemotherapeutics. While the structural basis of core particle (CP) inhibitors is largely understood, their structural impact on the proteasome holoenzyme remains entirely elusive. Here, we determined the structure of the 26S proteasome with and without the inhibitor Oprozomib. Drug binding modifies the energy landscape of conformational motion in the proteasome regulatory particle (RP). Structurally, the energy barrier created by Oprozomib triggers a long-range allosteric regulation, resulting in the stabilization of a non-productive state. Thereby, the chemical drug-binding signal is converted, propagated and amplified into structural changes over a distance of more than 150 Å from the proteolytic site to the ubiquitin receptor Rpn10. The direct visualization of changes in conformational dynamics upon drug binding allows new ways to screen and develop future allosteric proteasome inhibitors.


    Organizational Affiliation

    Department for Structural Dynamics, Max-Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-2A, O234Homo sapiensMutation(s): 0 
Gene Names: PSMA2HC3PSC3
EC: 3.4.25.1
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-4B, P261Homo sapiensMutation(s): 0 
Gene Names: PSMA4HC9PSC9
EC: 3.4.25.1
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-7C234Homo sapiensMutation(s): 0 
Gene Names: PSMA7HSPC
EC: 3.4.25.1
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-5D, R241Homo sapiensMutation(s): 0 
Gene Names: PSMA5
EC: 3.4.25.1
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1E234Homo sapiensMutation(s): 0 
Gene Names: PSMA1HC2NUPROS30PSC2
EC: 3.4.25.1
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3F, T255Homo sapiensMutation(s): 0 
Gene Names: PSMA3HC8PSC8
EC: 3.4.25.1
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-6G, U246Homo sapiensMutation(s): 0 
Gene Names: PSMA6PROS27
EC: 3.4.25.1
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-7H, V277Homo sapiensMutation(s): 0 
Gene Names: PSMB7Z
EC: 3.4.25.1
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Entity ID: 9
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Proteasome subunit beta type-3I, W205Homo sapiensMutation(s): 0 
Gene Names: PSMB3
EC: 3.4.25.1
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Entity ID: 10
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Proteasome subunit beta type-2J, X196Homo sapiensMutation(s): 0 
Gene Names: PSMB2
EC: 3.4.25.1
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Entity ID: 11
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Proteasome subunit beta type-5K, Y204Homo sapiensMutation(s): 0 
Gene Names: PSMB5LMPXMB1X
EC: 3.4.25.1
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-1L, Z241Homo sapiensMutation(s): 0 
Gene Names: PSMB1PSC5
EC: 3.4.25.1
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-4M, AA [auth a]264Homo sapiensMutation(s): 0 
Gene Names: PSMB4PROS26
EC: 3.4.25.1
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Entity ID: 14
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Proteasome subunit beta type-6N, BA [auth b]239Homo sapiensMutation(s): 0 
Gene Names: PSMB6LMPYY
EC: 3.4.25.1
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Entity ID: 15
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Proteasome subunit alpha type-7Q235Homo sapiensMutation(s): 0 
Gene Names: PSMA7HSPC
EC: 3.4.25.1
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1S238Homo sapiensMutation(s): 0 
Gene Names: PSMA1HC2NUPROS30PSC2
EC: 3.4.25.1
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 7CA [auth c]433Homo sapiensMutation(s): 0 
Gene Names: PSMC2MSS1
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Entity ID: 18
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26S protease regulatory subunit 4DA [auth d]428Homo sapiensMutation(s): 0 
Gene Names: PSMC1
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Entity ID: 19
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26S protease regulatory subunit 6BEA [auth e]418Homo sapiensMutation(s): 0 
Gene Names: PSMC4MIP224TBP7
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Entity ID: 20
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26S protease regulatory subunit 10BFA [auth f]379Homo sapiensMutation(s): 0 
Gene Names: PSMC6SUG2
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Entity ID: 21
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26S protease regulatory subunit 6AGA [auth g]439Homo sapiensMutation(s): 0 
Gene Names: PSMC3TBP1
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Entity ID: 22
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26S protease regulatory subunit 8HA [auth h]355Homo sapiensMutation(s): 0 
Gene Names: PSMC5SUG1
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Entity ID: 23
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26S proteasome non-ATPase regulatory subunit 1IA [auth i]953Homo sapiensMutation(s): 0 
Gene Names: PSMD1
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Entity ID: 24
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26S proteasome non-ATPase regulatory subunit 3JA [auth j]534Homo sapiensMutation(s): 0 
Gene Names: PSMD3
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Entity ID: 25
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26S proteasome non-ATPase regulatory subunit 12KA [auth k]456Homo sapiensMutation(s): 0 
Gene Names: PSMD12
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Entity ID: 26
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26S proteasome non-ATPase regulatory subunit 11LA [auth l]422Homo sapiensMutation(s): 0 
Gene Names: PSMD11
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Entity ID: 27
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26S proteasome non-ATPase regulatory subunit 6MA [auth m]389Homo sapiensMutation(s): 0 
Gene Names: PSMD6KIAA0107PFAAP4
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Entity ID: 28
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26S proteasome non-ATPase regulatory subunit 7NA [auth n]324Homo sapiensMutation(s): 0 
Gene Names: PSMD7MOV34L
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Entity ID: 29
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26S proteasome non-ATPase regulatory subunit 13OA [auth o]376Homo sapiensMutation(s): 0 
Gene Names: PSMD13
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Entity ID: 30
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26S proteasome non-ATPase regulatory subunit 4PA [auth p]377Homo sapiensMutation(s): 0 
Gene Names: PSMD4MCB1
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Entity ID: 31
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26S proteasome non-ATPase regulatory subunit 14QA [auth q]310Homo sapiensMutation(s): 0 
Gene Names: PSMD14POH1
EC: 3.4.19
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Entity ID: 32
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26S proteasome non-ATPase regulatory subunit 8RA [auth r]350Homo sapiensMutation(s): 0 
Gene Names: PSMD8
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome complex subunit SEM1SA [auth s]70Homo sapiensMutation(s): 0 
Gene Names: SEM1C7orf76DSS1SHFDG1SHFM1
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetailsImage
bound OprozomibTA [auth t], UA [auth u]4synthetic constructMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanyCH1098-1/1
German Research FoundationGermanySFB860-TP A5
ESFRIGermany--

Revision History  (Full details and data files)

  • Version 1.0: 2017-07-05
    Type: Initial release
  • Version 1.1: 2017-08-02
    Changes: Data collection
  • Version 1.2: 2019-10-09
    Changes: Advisory, Data collection, Derived calculations, Other
  • Version 1.3: 2019-12-11
    Changes: Other