6EPE

Substrate processing state 26S proteasome (SPS2)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 12.8 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

In Situ Structure of Neuronal C9orf72 Poly-GA Aggregates Reveals Proteasome Recruitment.

Guo, Q., Lehmer, C., Martinez-Sanchez, A., Rudack, T., Beck, F., Hartmann, H., Perez-Berlanga, M., Frottin, F., Hipp, M.S., Hartl, F.U., Edbauer, D., Baumeister, W., Fernandez-Busnadiego, R.

(2018) Cell 172: 696-705.e12

  • DOI: 10.1016/j.cell.2017.12.030
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • Protein aggregation and dysfunction of the ubiquitin-proteasome system are hallmarks of many neurodegenerative diseases. Here, we address the elusive link between these phenomena by employing cryo-electron tomography to dissect the molecular architec ...

    Protein aggregation and dysfunction of the ubiquitin-proteasome system are hallmarks of many neurodegenerative diseases. Here, we address the elusive link between these phenomena by employing cryo-electron tomography to dissect the molecular architecture of protein aggregates within intact neurons at high resolution. We focus on the poly-Gly-Ala (poly-GA) aggregates resulting from aberrant translation of an expanded GGGGCC repeat in C9orf72, the most common genetic cause of amyotrophic lateral sclerosis and frontotemporal dementia. We find that poly-GA aggregates consist of densely packed twisted ribbons that recruit numerous 26S proteasome complexes, while other macromolecules are largely excluded. Proximity to poly-GA ribbons stabilizes a transient substrate-processing conformation of the 26S proteasome, suggesting stalled degradation. Thus, poly-GA aggregates may compromise neuronal proteostasis by driving the accumulation and functional impairment of a large fraction of cellular proteasomes.

    Organizational Affiliation: 

    Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-6
A
246Rattus norvegicusMutation(s): 0 
Gene Names: Psma6
EC: 3.4.25.1
Find proteins for P60901 (Rattus norvegicus)
Go to UniProtKB:  P60901
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-2
B
234Rattus norvegicusMutation(s): 0 
Gene Names: Psma2
EC: 3.4.25.1
Find proteins for P17220 (Rattus norvegicus)
Go to UniProtKB:  P17220
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-4
C
261Rattus norvegicusMutation(s): 0 
Gene Names: Psma4
EC: 3.4.25.1
Find proteins for P21670 (Rattus norvegicus)
Go to UniProtKB:  P21670
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-7
D
254Rattus norvegicusMutation(s): 0 
Gene Names: Psma7
EC: 3.4.25.1
Find proteins for P48004 (Rattus norvegicus)
Go to UniProtKB:  P48004
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-5
E
241Rattus norvegicusMutation(s): 0 
Gene Names: Psma5
EC: 3.4.25.1
Find proteins for P34064 (Rattus norvegicus)
Go to UniProtKB:  P34064
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-1
F
263Rattus norvegicusMutation(s): 0 
Gene Names: Psma1
EC: 3.4.25.1
Find proteins for P18420 (Rattus norvegicus)
Go to UniProtKB:  P18420
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit alpha type-3
G
255Rattus norvegicusMutation(s): 0 
Gene Names: Psma3
EC: 3.4.25.1
Find proteins for P18422 (Rattus norvegicus)
Go to UniProtKB:  P18422
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-6
1
238Rattus norvegicusMutation(s): 0 
Gene Names: Psmb6 (Psmb6l)
EC: 3.4.25.1
Find proteins for P28073 (Rattus norvegicus)
Go to UniProtKB:  P28073
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-7
2
277Rattus norvegicusMutation(s): 0 
Gene Names: Psmb7
EC: 3.4.25.1
Find proteins for Q9JHW0 (Rattus norvegicus)
Go to UniProtKB:  Q9JHW0
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-3
3
205Rattus norvegicusMutation(s): 0 
Gene Names: Psmb3
EC: 3.4.25.1
Find proteins for P40112 (Rattus norvegicus)
Go to UniProtKB:  P40112
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-2
4
201Rattus norvegicusMutation(s): 0 
Gene Names: Psmb2
EC: 3.4.25.1
Find proteins for P40307 (Rattus norvegicus)
Go to UniProtKB:  P40307
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-5
5
263Rattus norvegicusMutation(s): 0 
Gene Names: Psmb5
EC: 3.4.25.1
Find proteins for P28075 (Rattus norvegicus)
Go to UniProtKB:  P28075
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-1
6
240Rattus norvegicusMutation(s): 0 
Gene Names: Psmb1
EC: 3.4.25.1
Find proteins for P18421 (Rattus norvegicus)
Go to UniProtKB:  P18421
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Proteasome subunit beta type-4
7
263Rattus norvegicusMutation(s): 0 
Gene Names: Psmb4
EC: 3.4.25.1
Find proteins for P34067 (Rattus norvegicus)
Go to UniProtKB:  P34067
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
26S proteasome subunit S5a
W
377Rattus norvegicusMutation(s): 0 
Gene Names: Psmd4
Find proteins for Q9ESH1 (Rattus norvegicus)
Go to UniProtKB:  Q9ESH1
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14
V
310Rattus norvegicusMutation(s): 0 
Gene Names: Psmd14
Find proteins for Q4V8E2 (Rattus norvegicus)
Go to UniProtKB:  Q4V8E2
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
Proteasome 26S subunit, non-ATPase 8
T
353Rattus norvegicusMutation(s): 0 
Gene Names: Psmd8
Find proteins for F1LMQ3 (Rattus norvegicus)
Go to UniProtKB:  F1LMQ3
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
RCG28037
Y
70Rattus norvegicusMutation(s): 0 
Gene Names: Sem1 (Shfm1)
Find proteins for D3ZHW9 (Rattus norvegicus)
Go to UniProtKB:  D3ZHW9
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
26S proteasome non-ATPase regulatory subunit 2
Z
908Rattus norvegicusMutation(s): 0 
Gene Names: Psmd2
Find proteins for Q4FZT9 (Rattus norvegicus)
Go to UniProtKB:  Q4FZT9
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
26S proteasome non-ATPase regulatory subunit 1
N
953Rattus norvegicusMutation(s): 0 
Gene Names: Psmd1
Find proteins for O88761 (Rattus norvegicus)
Go to UniProtKB:  O88761
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3
S
530Rattus norvegicusMutation(s): 0 
Gene Names: Psmd3
Find proteins for Q5U2S7 (Rattus norvegicus)
Go to UniProtKB:  Q5U2S7
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12
P
456Rattus norvegicusMutation(s): 0 
Gene Names: Psmd12
Find proteins for Q5XIC6 (Rattus norvegicus)
Go to UniProtKB:  Q5XIC6
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
26S proteasome non-ATPase regulatory subunit 11
Q
422Rattus norvegicusMutation(s): 0 
Gene Names: Psmd11
Find proteins for F1LMZ8 (Rattus norvegicus)
Go to UniProtKB:  F1LMZ8
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6
R
389Rattus norvegicusMutation(s): 0 
Gene Names: Psmd6
Find proteins for Q6PCT9 (Rattus norvegicus)
Go to UniProtKB:  Q6PCT9
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 7 (Predicted)
U
320Rattus norvegicusMutation(s): 0 
Gene Names: Psmd7 (Psmd7_predicted)
Find proteins for D4AEH3 (Rattus norvegicus)
Go to UniProtKB:  D4AEH3
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
26S proteasome non-ATPase regulatory subunit 13
O
376Rattus norvegicusMutation(s): 0 
Gene Names: Psmd13
Find proteins for B0BN93 (Rattus norvegicus)
Go to UniProtKB:  B0BN93
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
26S proteasome regulatory subunit 7
H
433Rattus norvegicusMutation(s): 0 
Gene Names: Psmc2 (Mss1)
Find proteins for Q63347 (Rattus norvegicus)
Go to UniProtKB:  Q63347
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
26S proteasome regulatory subunit 4
I
440Rattus norvegicusMutation(s): 0 
Gene Names: Psmc1
Find proteins for P62193 (Rattus norvegicus)
Go to UniProtKB:  P62193
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
26S proteasome regulatory subunit 6B
K
418Rattus norvegicusMutation(s): 0 
Gene Names: Psmc4 (Tbp7)
Find proteins for Q63570 (Rattus norvegicus)
Go to UniProtKB:  Q63570
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
Proteasome 26S subunit, ATPase 6
L
403Rattus norvegicusMutation(s): 0 
Gene Names: Psmc6 (LOC100365869)
Find proteins for G3V6W6 (Rattus norvegicus)
Go to UniProtKB:  G3V6W6
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
26S proteasome regulatory subunit 6A
M
442Rattus norvegicusMutation(s): 0 
Gene Names: Psmc3 (Tbp1)
Find proteins for Q63569 (Rattus norvegicus)
Go to UniProtKB:  Q63569
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
26S proteasome regulatory subunit 8
J
406Rattus norvegicusMutation(s): 0 
Gene Names: Psmc5 (Sug1)
Find proteins for P62198 (Rattus norvegicus)
Go to UniProtKB:  P62198
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 12.8 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
European CommissionGermanyFP7 GA ERC-2012-SyG_318987-ToPAG
European CommissionGermanyFP7 GA ERC-2013-CoG_617198 DPR-MODELS
German Research FoundationGermanySFB-1035/Project A01
National Institutes of HealthUnited States9P41GM104601

Revision History 

  • Version 1.0: 2018-02-07
    Type: Initial release
  • Version 1.1: 2018-02-14
    Type: Database references
  • Version 1.2: 2018-02-21
    Type: Database references