› 3nzw

X-ray diffraction
2.5Å resolution

Crystal structure of the yeast 20S proteasome in complex with 2b

Released:
DOI: 10.2210/pdb3nzw/pdb
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Source organism: Saccharomyces cerevisiae
Primary publication:
20S proteasome inhibition: designing noncovalent linear peptide mimics of the natural product TMC-95A.
Groll M, Gallastegui N, Maréchal X, Le Ravalec V, Basse N, Richy N, Genin E, Huber R, Moroder L, Vidal J, Reboud-Ravaux M
ChemMedChem 5 1701-5 (2010)
PMID: 20715286

Function and Biology Details

Reaction catalysed: 
Cleavage of peptide bonds with very broad specificity.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 30-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149140 (preferred)
Entry contents:
15 distinct polypeptide molecules
Macromolecules (15 distinct):
Proteasome subunit alpha type-2 Chains: A, O
Molecule details ›
Chains: A, O
Length: 250 amino acids
Theoretical weight: 27.19 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P23639 (Residues: 1-250; Coverage: 100%)
Gene names: PRE8, PRS4, YML092C
Sequence domains:
Structure domains: Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
Proteasome subunit alpha type-3 Chains: B, P
Molecule details ›
Chains: B, P
Length: 258 amino acids
Theoretical weight: 28.75 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P23638 (Residues: 1-258; Coverage: 100%)
Gene names: PRE9, PRS5, YGR135W
Sequence domains:
Structure domains: Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
Proteasome subunit alpha type-4 Chains: C, Q
Proteasome subunit alpha type-5 Chains: D, R
Proteasome subunit alpha type-6 Chains: E, S
Probable proteasome subunit alpha type-7 Chains: F, T
Proteasome subunit alpha type-1 Chains: G, U
Proteasome subunit beta type-2 Chains: H, V
Proteasome subunit beta type-3 Chains: I, W
Proteasome subunit beta type-4 Chains: J, X
Proteasome subunit beta type-5 Chains: K, Y
Proteasome subunit beta type-6 Chains: L, Z
Proteasome subunit beta type-7 Chains: 1, M
Proteasome subunit beta type-1 Chains: 2, N
TMC-95A mimic ligand 2b Chains: 3, 4

Ligands and Environments

1 bound ligand:
Ligand MES 2 x MES
2 modified residues:
Ligand TY5 2 x TY5
Ligand RE0 2 x RE0

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P21
Unit cell:
a: 135.3Å b: 300.01Å c: 144.51Å
α: 90° β: 112.92° γ: 90°
R-values:
R R work R free
0.221 0.219 0.24

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Citations

7 review citations

Inhibitors for the immuno- and constitutive proteasome: current and future trends in drug development.
Huber et al. (2012)
6 more

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