5GJR

An atomic structure of the human 26S proteasome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 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

An atomic structure of the human 26S proteasome.

Huang, X.Luan, B.Wu, J.Shi, Y.

(2016) Nat Struct Mol Biol 23: 778-785

  • DOI: 10.1038/nsmb.3273
  • Primary Citation of Related Structures:  
    5GJQ, 5GJR

  • PubMed Abstract: 
  • We report the cryo-EM structure of the human 26S proteasome at an average resolution of 3.5 Å, allowing atomic modeling of 28 subunits in the core particle (CP) and 18 subunits in the regulatory particle (RP). The C-terminal residues of Rpt3 and Rpt5 ...

    We report the cryo-EM structure of the human 26S proteasome at an average resolution of 3.5 Å, allowing atomic modeling of 28 subunits in the core particle (CP) and 18 subunits in the regulatory particle (RP). The C-terminal residues of Rpt3 and Rpt5 subunits in the RP can be seen inserted into surface pockets formed between adjacent α subunits in the CP. Each of the six Rpt subunits contains a bound nucleotide, and the central gate of the CP α-ring is closed despite RP association. The six pore 1 loops in the Rpt ring are arranged similarly to a spiral staircase along the axial channel of substrate transport, which is constricted by the pore 2 loops. We also determined the cryo-EM structure of the human proteasome bound to the deubiquitinating enzyme USP14 at 4.35-Å resolution. Together, our structures provide a framework for mechanistic understanding of eukaryotic proteasome function.


    Organizational Affiliation

    Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing, China.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 4Iw440Homo sapiensMutation(s): 0 
Gene Names: PSMC1
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 7Hv433Homo sapiensMutation(s): 0 
Gene Names: PSMC2MSS1
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 10BLz389Homo sapiensMutation(s): 0 
Gene Names: PSMC6SUG2
Find proteins for P62333 (Homo sapiens)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 6A0M439Homo sapiensMutation(s): 0 
Gene Names: PSMC3TBP1
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 8Jx406Homo sapiensMutation(s): 0 
Gene Names: PSMC5SUG1
Find proteins for P62195 (Homo sapiens)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
26S protease regulatory subunit 6BKy418Homo sapiensMutation(s): 0 
Gene Names: PSMC4MIP224TBP7
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 11N953Homo sapiensMutation(s): 0 
Gene Names: PSMD1
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 132O376Homo sapiensMutation(s): 0 
Gene Names: PSMD13
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 123P456Homo sapiensMutation(s): 0 
Gene Names: PSMD12
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 114Q422Homo sapiensMutation(s): 0 
Gene Names: PSMD11
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 65R389Homo sapiensMutation(s): 0 
Gene Names: PSMD6KIAA0107PFAAP4
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Entity ID: 12
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26S proteasome non-ATPase regulatory subunit 36S525Homo sapiensMutation(s): 0 
Gene Names: PSMD3
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 87T350Homo sapiensMutation(s): 0 
Gene Names: PSMD8
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 78U324Homo sapiensMutation(s): 0 
Gene Names: PSMD7MOV34L
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome non-ATPase regulatory subunit 149V310Homo sapiensMutation(s): 0 
Gene Names: PSMD14POH1
EC: 3.4.19
Find proteins for O00487 (Homo sapiens)
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Entity ID: 16
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26S proteasome non-ATPase regulatory subunit 4AAW377Homo sapiensMutation(s): 0 
Gene Names: PSMD4MCB1
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
26S proteasome complex subunit DSS1ABY70Homo sapiensMutation(s): 0 
Gene Names: SEM1C7orf76DSS1SHFDG1SHFM1
Find proteins for P60896 (Homo sapiens)
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Entity ID: 18
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26S proteasome non-ATPase regulatory subunit 2ACZ908Homo sapiensMutation(s): 0 
Gene Names: PSMD2TRAP2
Find proteins for Q13200 (Homo sapiens)
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-6Bh246Homo sapiensMutation(s): 0 
Gene Names: PSMA6PROS27
EC: 3.4.25.1
Find proteins for P60900 (Homo sapiens)
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-2Ci234Homo sapiensMutation(s): 0 
Gene Names: PSMA2HC3PSC3
EC: 3.4.25.1
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-4Dj261Homo sapiensMutation(s): 0 
Gene Names: PSMA4HC9PSC9
EC: 3.4.25.1
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-7Ek248Homo sapiensMutation(s): 0 
Gene Names: PSMA7HSPC
EC: 3.4.25.1
Find proteins for O14818 (Homo sapiens)
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-5Fl241Homo sapiensMutation(s): 0 
Gene Names: PSMA5
EC: 3.4.25.1
Find proteins for P28066 (Homo sapiens)
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1Gm263Homo sapiensMutation(s): 0 
Gene Names: PSMA1HC2NUPROS30PSC2
EC: 3.4.25.1
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3Xn255Homo sapiensMutation(s): 0 
Gene Names: PSMA3HC8PSC8
EC: 3.4.25.1
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-6ao239Homo sapiensMutation(s): 0 
Gene Names: PSMB6LMPYY
EC: 3.4.25.1
Find proteins for P28072 (Homo sapiens)
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-7bp277Homo sapiensMutation(s): 0 
Gene Names: PSMB7Z
EC: 3.4.25.1
Find proteins for Q99436 (Homo sapiens)
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-3cq205Homo sapiensMutation(s): 0 
Gene Names: PSMB3
EC: 3.4.25.1
Find proteins for P49720 (Homo sapiens)
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-2dr201Homo sapiensMutation(s): 0 
Gene Names: PSMB2
EC: 3.4.25.1
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-5es263Homo sapiensMutation(s): 0 
Gene Names: PSMB5LMPXMB1X
EC: 3.4.25.1
Find proteins for P28074 (Homo sapiens)
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-1ft241Homo sapiensMutation(s): 0 
Gene Names: PSMB1PSC5
EC: 3.4.25.1
Find proteins for P20618 (Homo sapiens)
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-4gu264Homo sapiensMutation(s): 0 
Gene Names: PSMB4PROS26
EC: 3.4.25.1
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Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download CCD File 
0, H, I, J, K, L, M, v, w, x, y, z
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31130002
National Natural Science Foundation of ChinaChina31321062
National Natural Science Foundation of ChinaChina31430020

Revision History 

  • Version 1.0: 2016-09-07
    Type: Initial release
  • Version 1.1: 2017-04-05
    Changes: Database references
  • Version 1.2: 2019-10-09
    Changes: Advisory, Data collection, Other, Structure summary