7QVE

Spinach 20S proteasome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-EM structure of the plant 26S proteasome.

Kandolf, S.Grishkovskaya, I.Belacic, K.Bolhuis, D.L.Amann, S.Foster, B.Imre, R.Mechtler, K.Schleiffer, A.Tagare, H.D.Zhong, E.D.Meinhart, A.Brown, N.G.Haselbach, D.

(2022) Plant Commun 3: 100310-100310

  • DOI: 10.1016/j.xplc.2022.100310
  • Primary Citation of Related Structures:  
    7QVE

  • PubMed Abstract: 
  • Targeted proteolysis is a hallmark of life. It is especially important in long-lived cells that can be found in higher eukaryotes, like plants. This task is mainly fulfilled by the ubiquitin-proteasome system. Thus, proteolysis by the 26S proteasome is vital to development, immunity, and cell division ...

    Targeted proteolysis is a hallmark of life. It is especially important in long-lived cells that can be found in higher eukaryotes, like plants. This task is mainly fulfilled by the ubiquitin-proteasome system. Thus, proteolysis by the 26S proteasome is vital to development, immunity, and cell division. Although the yeast and animal proteasomes are well characterized, there is only limited information on the plant proteasome. We determined the first plant 26S proteasome structure from Spinacia oleracea by single-particle electron cryogenic microscopy at an overall resolution of 3.3 Å. We found an almost identical overall architecture of the spinach proteasome compared with the known structures from mammals and yeast. Nevertheless, we noticed a structural difference in the proteolytic active β1 subunit. Furthermore, we uncovered an unseen compression state by characterizing the proteasome's conformational landscape. We suspect that this new conformation of the 20S core protease, in correlation with a partial opening of the unoccupied gate, may contribute to peptide release after proteolysis. Our data provide a structural basis for the plant proteasome, which is crucial for further studies.


    Organizational Affiliation

    Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), Campus-Vienna-BioCenter 1, 1030 Vienna, Austria; Institute of Physical Chemistry, University of Freiburg, Albertstraße 21, Freiburg 79104, Germany; CIBSS Centre for Integrative Biological Signalling Studies, University of Freiburg, Freiburg, Germany. Electronic address: david.haselbach@imp.ac.at.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeH [auth C],
A [auth i]
235Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_201960
UniProt
Find proteins for A0A0K9QA79 (Spinacia oleracea)
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UniProt GroupA0A0K9QA79
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeI [auth D],
B [auth j]
250Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_067770
UniProt
Find proteins for A0A0K9RH20 (Spinacia oleracea)
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UniProt GroupA0A0K9RH20
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeJ [auth E],
C [auth k]
247Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_013850
UniProt
Find proteins for A0A0K9S0K6 (Spinacia oleracea)
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UniProt GroupA0A0K9S0K6
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeK [auth F],
D [auth l]
237Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_076310
UniProt
Find proteins for A0A0K9RE77 (Spinacia oleracea)
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UniProt GroupA0A0K9RE77
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeL [auth G],
E [auth m]
274Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_075310
UniProt
Find proteins for A0A0K9RGG6 (Spinacia oleracea)
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UniProt GroupA0A0K9RGG6
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3M [auth X],
F [auth n]
249Spinacia oleraceaMutation(s): 0 
Gene Names: PAG1PSC8
UniProt
Find proteins for O24362 (Spinacia oleracea)
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UniProt GroupO24362
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha typeG [auth B],
BA [auth h]
246Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_093600
UniProt
Find proteins for A0A0K9R8Z8 (Spinacia oleracea)
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UniProt GroupA0A0K9R8Z8
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaU [auth a],
N [auth o]
236Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_007620
UniProt
Find proteins for A0A0K9S2G1 (Spinacia oleracea)
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UniProt GroupA0A0K9S2G1
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaV [auth b],
O [auth p]
274Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_003170
UniProt
Find proteins for A0A0K9S3A8 (Spinacia oleracea)
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UniProt GroupA0A0K9S3A8
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaW [auth c],
P [auth q]
204Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_015190
UniProt
Find proteins for A0A0K9S024 (Spinacia oleracea)
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UniProt GroupA0A0K9S024
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaX [auth d],
Q [auth r]
209Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_145550
UniProt
Find proteins for A0A0K9QSM9 (Spinacia oleracea)
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UniProt GroupA0A0K9QSM9
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-5Y [auth e],
R [auth s]
272Spinacia oleraceaMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for O24361 (Spinacia oleracea)
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UniProt GroupO24361
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaZ [auth f],
S [auth t]
223Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_035230
UniProt
Find proteins for A0A0K9RTN8 (Spinacia oleracea)
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UniProt GroupA0A0K9RTN8
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit betaAA [auth g],
T [auth u]
240Spinacia oleraceaMutation(s): 0 
Gene Names: SOVF_076470
UniProt
Find proteins for A0A0K9RED8 (Spinacia oleracea)
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UniProt GroupA0A0K9RED8
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
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Revision History  (Full details and data files)

  • Version 1.0: 2022-05-25
    Type: Initial release
  • Version 1.1: 2022-06-01
    Changes: Database references