6FVT

26S proteasome, s1 state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report



Literature

Expanded Coverage of the 26S Proteasome Conformational Landscape Reveals Mechanisms of Peptidase Gating.

Eisele, M.R.Reed, R.G.Rudack, T.Schweitzer, A.Beck, F.Nagy, I.Pfeifer, G.Plitzko, J.M.Baumeister, W.Tomko Jr., R.J.Sakata, E.

(2018) Cell Rep 24: 1301-1315.e5

  • DOI: 10.1016/j.celrep.2018.07.004
  • Primary Citation of Related Structures:  
    6FVW, 6FVV, 6FVY, 6FVX, 6FVU, 6FVT

  • PubMed Abstract: 
  • The proteasome is the central protease for intracellular protein breakdown. Coordinated binding and hydrolysis of ATP by the six proteasomal ATPase subunits induces conformational changes that drive the unfolding and translocation of substrates into ...

    The proteasome is the central protease for intracellular protein breakdown. Coordinated binding and hydrolysis of ATP by the six proteasomal ATPase subunits induces conformational changes that drive the unfolding and translocation of substrates into the proteolytic 20S core particle for degradation. Here, we combine genetic and biochemical approaches with cryo-electron microscopy and integrative modeling to dissect the relationship between individual nucleotide binding events and proteasome conformational dynamics. We demonstrate unique impacts of ATP binding by individual ATPases on the proteasome conformational distribution and report two conformational states of the proteasome suggestive of a rotary ATP hydrolysis mechanism. These structures, coupled with functional analyses, reveal key roles for the ATPases Rpt1 and Rpt6 in gating substrate entry into the core particle. This deepened knowledge of proteasome conformational dynamics reveals key elements of intersubunit communication within the proteasome and clarifies the regulation of substrate entry into the proteolytic chamber.


    Organizational Affiliation

    Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany. Electronic address: sakata@biochem.mpg.de.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1Aa241Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SCL1PRC2PRS2YGL011C
EC: 3.4.25.1
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-2Bb249Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE8PRS4YML092C
EC: 3.4.25.1
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3Cc244Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE9PRS5YGR135W
EC: 3.4.25.1
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-4Dd251Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE6YOL038W
EC: 3.4.25.1
Find proteins for P40303 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-5Ee244Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PUP2DOA5YGR253CG9155
EC: 3.4.25.1
Find proteins for P32379 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-6Ff231Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE5YMR314WYM9924.06
EC: 3.4.25.1
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Probable proteasome subunit alpha type-7Gg245Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE10PRC1PRS1YOR362CO6650
EC: 3.4.25.1
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-11h196Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE3YJL001WJ1407
EC: 3.4.25.1
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-22i226Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PUP1YOR157C
EC: 3.4.25.1
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-33j204Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PUP3YER094C
EC: 3.4.25.1
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-44k195Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE1YER012W
EC: 3.4.25.1
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-55l212Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE2DOA3PRG1YPR103WP8283.10
EC: 3.4.25.1
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-66m222Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE7PRS3PTS1YBL041WYBL0407
EC: 3.4.25.1
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-77n232Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PRE4YFR050C
EC: 3.4.25.1
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN10W197Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN10MCB1SUN1YHR200W
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquitin carboxyl-terminal hydrolase RPN11V289Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN11MPR1YFR004W
EC: 3.4.19.12
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Entity ID: 17
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26S proteasome regulatory subunit RPN12T266Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN12NIN1YFR052W
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN13X127Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN13DAQ1YLR421C
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome complex subunit SEM1Y89Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SEM1DSH1YDR363W-A
Find proteins for O94742 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN1Z970Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN1HRD2NAS1RPD1YHR027C
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN2N922Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN2SEN3YIL075C
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN3S475Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN3SUN2YER021W
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN5P440Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN5NAS5YDL147WD1572
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN6Q434Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN6NAS4YDL097CD2381
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN7R405Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN7YPR108WP8283.8
Find proteins for Q06103 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN8U304Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN8YOR261CO5360
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit RPN9O388Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPN9NAS7YDR427WD9461.14
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 7 homologH426Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT1CIM5YTA3YKL145W
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 4 homologI385Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT2YHS4YTA5YDL007WD2920
Find proteins for P40327 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 6B homologK394Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT3YNT1YTA2YDR394WD9509.14
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome subunit RPT4L388Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT4CRL13PCS1SUG2YOR259C
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 6AM421Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT5YTA1YOR117WO3258YOR3258W
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome regulatory subunit 8 homologJ405Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RPT6CIM3CRL3SUG1TBPYTBY1YGL048C
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-08-22
    Type: Initial release