6REY

Human 20S-PA200 Proteasome Complex

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report



Literature

Characterization of Fully Recombinant Human 20S and 20S-PA200 Proteasome Complexes.

Toste Rego, A., da Fonseca, P.C.A.

(2019) Mol Cell 76: 138-147.e5

  • DOI: 10.1016/j.molcel.2019.07.014
  • Primary Citation of Related Structures:  
    6REY, 6RGQ

  • PubMed Abstract: 

    • Proteasomes are essential in all eukaryotic cells. However, their function and regulation remain considerably elusive, particularly those of less abundant variants. We demonstrate the human 20S proteasome recombinant assembly and confirmed the recombinan ...

    Proteasomes are essential in all eukaryotic cells. However, their function and regulation remain considerably elusive, particularly those of less abundant variants. We demonstrate the human 20S proteasome recombinant assembly and confirmed the recombinant complex integrity biochemically and with a 2.6 Å resolution cryo-EM map. To assess its competence to form higher-order assemblies, we prepared and analyzed recombinant human 20S-PA200, a poorly characterized nuclear complex. Its 3.0 Å resolution cryo-EM structure reveals the PA200 unique architecture; the details of its intricate interactions with the proteasome, resulting in unparalleled proteasome α ring rearrangements; and the molecular basis for PA200 allosteric modulation of the proteasome active sites. Non-protein cryo-EM densities could be assigned to PA200-bound inositol phosphates, and we speculate regarding their functional role. Here we open extensive opportunities to study the fundamental properties of the diverse and distinct eukaryotic proteasome variants and to improve proteasome targeting under different therapeutic conditions.

    Organizational Affiliation: 

    MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK. Electronic address: pauladf@mrc-lmb.cam.ac.uk.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-6 A, O246Homo sapiensMutation(s): 0 
Gene Names: PSMA6, PROS27
EC: 3.4.25.1
Find proteins for P60900 (Homo sapiens)
Explore P60900 
Go to UniProtKB:  P60900
NIH Common Fund Data Resources
PHAROS:  P60900
GTEx:  ENSG00000100902
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-2 B, P234Homo sapiensMutation(s): 0 
Gene Names: PSMA2, HC3, PSC3
EC: 3.4.25.1
Find proteins for P25787 (Homo sapiens)
Explore P25787 
Go to UniProtKB:  P25787
NIH Common Fund Data Resources
PHAROS:  P25787
GTEx:  ENSG00000106588
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-4 C, Q261Homo sapiensMutation(s): 0 
Gene Names: PSMA4, HC9, PSC9
EC: 3.4.25.1
Find proteins for P25789 (Homo sapiens)
Explore P25789 
Go to UniProtKB:  P25789
NIH Common Fund Data Resources
PHAROS:  P25789
GTEx:  ENSG00000041357
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-7 D, R248Homo sapiensMutation(s): 0 
Gene Names: PSMA7, HSPC
EC: 3.4.25.1
Find proteins for O14818 (Homo sapiens)
Explore O14818 
Go to UniProtKB:  O14818
NIH Common Fund Data Resources
PHAROS:  O14818
GTEx:  ENSG00000101182
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-5 E, S241Homo sapiensMutation(s): 0 
Gene Names: PSMA5
EC: 3.4.25.1
Find proteins for P28066 (Homo sapiens)
Explore P28066 
Go to UniProtKB:  P28066
NIH Common Fund Data Resources
PHAROS:  P28066
GTEx:  ENSG00000143106
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1 F, T263Homo sapiensMutation(s): 0 
Gene Names: PSMA1, HC2, NU, PROS30, PSC2
EC: 3.4.25.1
Find proteins for P25786 (Homo sapiens)
Explore P25786 
Go to UniProtKB:  P25786
NIH Common Fund Data Resources
PHAROS:  P25786
GTEx:  ENSG00000129084
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3 G, U255Homo sapiensMutation(s): 0 
Gene Names: PSMA3, HC8, PSC8
EC: 3.4.25.1
Find proteins for P25788 (Homo sapiens)
Explore P25788 
Go to UniProtKB:  P25788
NIH Common Fund Data Resources
PHAROS:  P25788
GTEx:  ENSG00000100567
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-6 H, V205Homo sapiensMutation(s): 0 
Gene Names: PSMB6, LMPY, Y
EC: 3.4.25.1
Find proteins for P28072 (Homo sapiens)
Explore P28072 
Go to UniProtKB:  P28072
NIH Common Fund Data Resources
PHAROS:  P28072
GTEx:  ENSG00000142507
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-7 I, W234Homo sapiensMutation(s): 0 
Gene Names: PSMB7, Z
EC: 3.4.25.1
Find proteins for Q99436 (Homo sapiens)
Explore Q99436 
Go to UniProtKB:  Q99436
NIH Common Fund Data Resources
PHAROS:  Q99436
GTEx:  ENSG00000136930
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-3 J, X205Homo sapiensMutation(s): 0 
Gene Names: PSMB3
EC: 3.4.25.1
Find proteins for P49720 (Homo sapiens)
Explore P49720 
Go to UniProtKB:  P49720
NIH Common Fund Data Resources
PHAROS:  P49720
GTEx:  ENSG00000277791
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-2 K, Y201Homo sapiensMutation(s): 0 
Gene Names: PSMB2
EC: 3.4.25.1
Find proteins for P49721 (Homo sapiens)
Explore P49721 
Go to UniProtKB:  P49721
NIH Common Fund Data Resources
PHAROS:  P49721
GTEx:  ENSG00000126067
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-5 L, Z204Homo sapiensMutation(s): 0 
Gene Names: PSMB5, LMPX, MB1, X
EC: 3.4.25.1
Find proteins for P28074 (Homo sapiens)
Explore P28074 
Go to UniProtKB:  P28074
NIH Common Fund Data Resources
PHAROS:  P28074
GTEx:  ENSG00000100804
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-1 M, a213Homo sapiensMutation(s): 0 
Gene Names: PSMB1, PSC5
EC: 3.4.25.1
Find proteins for P20618 (Homo sapiens)
Explore P20618 
Go to UniProtKB:  P20618
NIH Common Fund Data Resources
PHAROS:  P20618
GTEx:  ENSG00000008018
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome subunit beta type-4 N, b219Homo sapiensMutation(s): 0 
Gene Names: PSMB4, PROS26
EC: 3.4.25.1
Find proteins for P28070 (Homo sapiens)
Explore P28070 
Go to UniProtKB:  P28070
NIH Common Fund Data Resources
PHAROS:  P28070
GTEx:  ENSG00000159377
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome activator complex subunit 4 c, d1843Homo sapiensMutation(s): 0 
Gene Names: PSME4, KIAA0077
Find proteins for Q14997 (Homo sapiens)
Explore Q14997 
Go to UniProtKB:  Q14997
NIH Common Fund Data Resources
PHAROS:  Q14997
GTEx:  ENSG00000068878
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K0W
Query on K0W
Download Ideal Coordinates CCD File 
c, d
[(1~{S},2~{R},3~{R},4~{S},5~{S},6~{R})-2-[oxidanyl(phosphonooxy)phosphoryl]oxy-3,4,5,6-tetraphosphonooxy-cyclohexyl] phosphono hydrogen phosphate
C6 H20 O30 P8
GXPFHIDIIMSLOF-FTYOSCRSSA-N		 Ligand Interaction
IHP
Query on IHP
Download Ideal Coordinates CCD File 
c, d
INOSITOL HEXAKISPHOSPHATE
C6 H18 O24 P6
IMQLKJBTEOYOSI-GPIVLXJGSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report


View more in-depth experimental data

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMC_UP_1201/5

Revision History 

  • Version 1.0: 2019-09-04
    Type: Initial release
  • Version 1.1: 2019-09-11
    Changes: Data collection, Database references
  • Version 1.2: 2019-10-16
    Changes: Data collection, Database references
  • Version 2.0: 2020-10-07
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary