1IRU

Crystal Structure of the mammalian 20S proteasome at 2.75 A resolution

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.252 

wwPDB Validation   3D Report Full Report


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


Literature

The structure of the mammalian 20S proteasome at 2.75 A resolution.

Unno, M., Mizushima, T., Morimoto, Y., Tomisugi, Y., Tanaka, K., Yasuoka, N., Tsukihara, T.

(2002) Structure 10: 609-618

  • DOI: https://doi.org/10.1016/s0969-2126(02)00748-7
  • Primary Citation of Related Structures:  
    1IRU

  • PubMed Abstract: 

    • The 20S proteasome is the catalytic portion of the 26S proteasome. Constitutively expressed mammalian 20S proteasomes have three active subunits, beta 1, beta 2, and beta 5, which are replaced in the immunoproteasome by interferon-gamma-inducible subunits beta 1i, beta 2i, and beta 5i, respectively ...

    The 20S proteasome is the catalytic portion of the 26S proteasome. Constitutively expressed mammalian 20S proteasomes have three active subunits, beta 1, beta 2, and beta 5, which are replaced in the immunoproteasome by interferon-gamma-inducible subunits beta 1i, beta 2i, and beta 5i, respectively. Here we determined the crystal structure of the bovine 20S proteasome at 2.75 A resolution. The structures of alpha 2, beta 1, beta 5, beta 6, and beta 7 subunits of the bovine enzyme were different from the yeast enzyme but enabled the bovine proteasome to accommodate either the constitutive or the inducible subunits. A novel N-terminal nucleophile hydrolase activity was proposed for the beta 7 subunit. We also determined the site of the nuclear localization signals in the molecule. A model of the immunoproteasome was predicted from this constitutive structure.

    Organizational Affiliation: 

    Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
A, O
246Bos taurusMutation(s): 0 
Gene Names: PSMA6
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
B, P
233Bos taurusMutation(s): 0 
Gene Names: PSMA2
UniProt
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
C, Q
261Bos taurusMutation(s): 0 
Gene Names: PSMA4
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
D, R
248Bos taurusMutation(s): 0 
Gene Names: PSMA7
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
E, S
241Bos taurusMutation(s): 0 
Gene Names: PSMA5
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
F, T
263Bos taurusMutation(s): 0 
Gene Names: PSMA1
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
G, U
254Bos taurusMutation(s): 0 
Gene Names: PSMA3
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
H, V
205Bos taurusMutation(s): 0 
Gene Names: PSMB6
EC: 3.4.25.1
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
I, W
234Bos taurusMutation(s): 0 
Gene Names: PSMB7
EC: 3.4.25.1
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
J, X
205Bos taurusMutation(s): 0 
Gene Names: PSMB3
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
K, Y
201Bos taurusMutation(s): 0 
Gene Names: PSMB2
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasome
L, Z
204Bos taurusMutation(s): 0 
Gene Names: PSMB5
EC: 3.4.25.1
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasomeAA [auth 1],
M		213Bos taurusMutation(s): 0 
Gene Names: PSMB1
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
20S proteasomeBA [auth 2],
N		219Bos taurusMutation(s): 0 
Gene Names: PSMB4
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Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG
Download Ideal Coordinates CCD File 
AB [auth X]
BB [auth X]
CA [auth A]
CB [auth X]
DA [auth B]
AB [auth X],
BB [auth X],
CA [auth A],
CB [auth X],
DA [auth B],
DB [auth Y],
EA [auth C],
EB [auth 1],
FA [auth D],
FB [auth 1],
GA [auth G],
HA [auth G],
IA [auth G],
JA [auth I],
KA [auth J],
LA [auth J],
MA [auth J],
NA [auth J],
OA [auth K],
PA [auth M],
QA [auth M],
RA [auth O],
SA [auth P],
TA [auth Q],
UA [auth R],
VA [auth U],
WA [auth U],
XA [auth U],
YA [auth W],
ZA [auth X]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.252 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 316.7α = 90
b = 205.9β = 90
c = 116γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
X-PLORmodel building
CNSrefinement
CCP4data scaling
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-05-22
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance