MolNFT v1 · #137215 · protein
Conformational landscape of the P28-bound human proteasome regulatory particle
5VHQ · 26S proteasome non-ATPase regulatory subunit 10: “Conformational landscape of the P28-bound human proteasome regulatory particle”. Electron microscopy, 20 pockets (best druggability 0.88). MolNFT v1 #137215 on GenesisL1: 3D…
- PDB
- 5VHQ
- Type
- protein
- Length
- 2,318 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 26S proteasome non-ATPase regulatory subunit 10; 26S proteasome regulatory subunit 7; 26S…
- UniProt
- O75832, P35998, P62191, P43686, P62333, P17980, P62195, Q13200
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 8 distinct chains · 49% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G | 26S proteasome non-ATPase regulatory subunit 10 | protein | 220 | 52% helix, 0% strand | O75832 |
| A | 26S proteasome regulatory subunit 7 | protein | 261 | 47% helix, 7% strand | P35998 |
| B | 26S proteasome regulatory subunit 4 | protein | 233 | 49% helix, 10% strand | P62191 |
| D | 26S proteasome regulatory subunit 6B | protein | 236 | 42% helix, 6% strand | P43686 |
| E | 26S proteasome regulatory subunit 10B | protein | 210 | 40% helix, 10% strand | P62333 |
| F | 26S proteasome regulatory subunit 6A | protein | 238 | 42% helix, 8% strand | P17980 |
| C | 26S proteasome regulatory subunit 8 | protein | 234 | 41% helix, 7% strand | P62195 |
| f | 26S proteasome non-ATPase regulatory subunit 2 | protein | 686 | 59% helix, 0% strand | Q13200 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1188 | 0.88 | 0.89 | 184 | empty |
| 2 | 750 | 0.81 | 0.84 | 79 | empty |
| 3 | 922 | 0.81 | 0.83 | 89 | empty |
| 4 | 235 | 0.81 | 0.93 | 36 | empty |
| 5 | 468 | 0.77 | 0.85 | 57 | empty |
Interfaces
8 interfaces between chains.
- E–F · 1814 Ų buried · 13 hydrogen bonds · protein-protein
- G–D · 1298 Ų buried · 13 hydrogen bonds · protein-protein
- A–F · 1132 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 734 Ų buried · 2 hydrogen bonds · protein-protein
- D–C · 680 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5VHQ · Conformational Landscape of the p28-Bound Human Proteasome Regulatory Particle · the same entry in another collection · chain f against f, TM-score 1.00
- O75832 · AlphaFold monomer V2.0 prediction for 26S proteasome non-ATPase regulatory subunit 10… · a predicted model of the same protein · chain G against A, TM-score 0.95
- Q13200 · AlphaFold monomer V2.0 prediction for 26S proteasome non-ATPase regulatory subunit 2… · a predicted model of the same protein · chain f against A, TM-score 0.89
- P35998 · AlphaFold monomer V2.0 prediction for 26S proteasome regulatory subunit 7 (P35998) · a predicted model of the same protein · chain A against A, TM-score 0.85
- P43686 · AlphaFold monomer V2.0 prediction for 26S proteasome regulatory subunit 6B (P43686) · a predicted model of the same protein · chain D against A, TM-score 0.84
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 O75832
- Every structure of UniProt P35998
- Every structure of UniProt P62191
- Every structure of UniProt P43686
- Every structure of UniProt P62333
- Every structure of UniProt P17980
- Every structure of UniProt P62195
- Every structure of UniProt Q13200
- Elsewhere: RCSB PDB 5VHQ · PDBe 5VHQ · UniProt O75832 · UniProt P35998 · UniProt P62191 · UniProt P43686 · UniProt P62333 · UniProt P17980 · UniProt P62195 · UniProt Q13200
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