6EPD image
Deposition Date 2017-10-11
Release Date 2018-02-07
Last Version Date 2024-05-15
Entry Detail
PDB ID:
6EPD
Keywords:
Title:
Substrate processing state 26S proteasome (SPS1)
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
15.40 Å
Aggregation State:
CELL
Reconstruction Method:
SUBTOMOGRAM AVERAGING
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-6
Gene (Uniprot):Psmb6
Chain IDs:H (auth: 1)
Chain Length:238
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-7
Gene (Uniprot):Psmb7
Chain IDs:I (auth: 2)
Chain Length:277
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-3
Gene (Uniprot):Psmb3
Chain IDs:J (auth: 3)
Chain Length:205
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-2
Gene (Uniprot):Psmb2
Chain IDs:K (auth: 4)
Chain Length:201
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-5
Gene (Uniprot):Psmb5
Chain IDs:L (auth: 5)
Chain Length:263
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-1
Gene (Uniprot):Psmb1
Chain IDs:M (auth: 6)
Chain Length:240
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-4
Gene (Uniprot):Psmb4
Chain IDs:N (auth: 7)
Chain Length:263
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-6
Gene (Uniprot):Psma6
Chain IDs:A
Chain Length:246
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-2
Gene (Uniprot):Psma2
Chain IDs:B
Chain Length:234
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-4
Gene (Uniprot):Psma4
Chain IDs:C
Chain Length:261
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-7
Gene (Uniprot):Psma7
Chain IDs:D
Chain Length:254
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-5
Gene (Uniprot):Psma5
Chain IDs:E
Chain Length:241
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-1
Gene (Uniprot):Psma1
Chain IDs:F
Chain Length:263
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type-3
Gene (Uniprot):Psma3
Chain IDs:G
Chain Length:255
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome regulatory subunit 7
Gene (Uniprot):Psmc2
Chain IDs:AA (auth: H)
Chain Length:433
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome regulatory subunit 4
Gene (Uniprot):Psmc1
Chain IDs:BA (auth: I)
Chain Length:440
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome regulatory subunit 8
Gene (Uniprot):Psmc5
Chain IDs:FA (auth: J)
Chain Length:406
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome regulatory subunit 6B
Gene (Uniprot):Psmc4
Chain IDs:CA (auth: K)
Chain Length:418
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome 26S subunit, ATPase 6
Gene (Uniprot):Psmc6
Chain IDs:DA (auth: L)
Chain Length:403
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome regulatory subunit 6A
Chain IDs:EA (auth: M)
Chain Length:442
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome non-ATPase regulatory subunit 1
Gene (Uniprot):Psmd1
Chain IDs:T (auth: N)
Chain Length:953
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome non-ATPase regulatory subunit 13
Gene (Uniprot):Psmd13
Chain IDs:Z (auth: O)
Chain Length:376
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12
Gene (Uniprot):Psmd12
Chain IDs:V (auth: P)
Chain Length:456
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome non-ATPase regulatory subunit 11
Gene (Uniprot):Psmd11
Chain IDs:W (auth: Q)
Chain Length:422
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6
Gene (Uniprot):Psmd6
Chain IDs:X (auth: R)
Chain Length:389
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3
Chain IDs:U (auth: S)
Chain Length:530
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome 26S subunit, non-ATPase 8
Gene (Uniprot):Psmd8
Chain IDs:Q (auth: T)
Chain Length:353
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 7 (Predicted)
Gene (Uniprot):Psmd7
Chain IDs:Y (auth: U)
Chain Length:320
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14
Gene (Uniprot):Psmd14
Chain IDs:P (auth: V)
Chain Length:310
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome subunit S5a
Gene (Uniprot):Psmd4
Chain IDs:O (auth: W)
Chain Length:377
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:RCG28037
Gene (Uniprot):Sem1
Chain IDs:R (auth: Y)
Chain Length:70
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:26S proteasome non-ATPase regulatory subunit 2
Gene (Uniprot):Psmd2
Chain IDs:S (auth: Z)
Chain Length:908
Number of Molecules:1
Biological Source:Rattus norvegicus
Ligand Molecules
Primary Citation
In Situ Structure of Neuronal C9orf72 Poly-GA Aggregates Reveals Proteasome Recruitment.
Cell 172 696 705.e12 (2018)
PMID: 29398115 DOI: 10.1016/j.cell.2017.12.030

Abstact

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.

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Disease

Primary Citation of related structures