Research workbench
Crystal structure of a novel chaperone complex for yeast 20S proteasome assembly
Analyse Crystal structure of a novel chaperone complex for yeast 20S proteasome assembly in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2Z5C
- Type
- protein
- Length
- 838 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein YPL144W; Uncharacterized protein YLR021W; Proteasome component PUP2
- EC
- 3.4.25.1
- UniProt
- Q12245, Q07951, P32379
- Pockets
- 5 · best druggability 0.61
Structure
x-ray diffraction · 3 distinct chains · 32% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Protein YPL144W | protein | 124 | 30% helix, 35% strand | Q12245 |
| B, E | Uncharacterized protein YLR021W | protein | 106 | 25% helix, 34% strand | Q07951 |
| C, F | Proteasome component PUP2 (EC 3.4.25.1) | protein | 189 | 37% helix, 28% strand | P32379 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 142 | 0.61 | 0.84 | 25 | empty |
| 2 | 173 | 0.60 | 0.83 | 36 | empty |
| 3 | 109 | 0.48 | 0.80 | 21 | empty |
| 4 | 125 | 0.48 | 0.79 | 21 | empty |
| 5 | 58 | 0.29 | 0.74 | 19 | empty |
Interfaces
6 interfaces between chains.
- D–E · 1038 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1037 Ų buried · 16 hydrogen bonds · protein-protein
- D–F · 626 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 626 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 499 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 2Z5C · Crystal Structure of a Novel Chaperone Complex for Yeast 20S Proteasome Assembly · the same entry in another collection · chain F against F, TM-score 1.00
- Q07951 · AlphaFold monomer V2.0 prediction for proteasome chaperone 3 (Q07951) · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q12245 · AlphaFold monomer V2.0 prediction for proteasome chaperone 4 (Q12245) · a predicted model of the same protein · chain A against A, TM-score 0.96
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q12245
- Every structure of UniProt Q07951
- Every structure of UniProt P32379
- Elsewhere: RCSB PDB 2Z5C · PDBe 2Z5C · UniProt Q12245 · UniProt Q07951 · UniProt P32379
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