MolNFT v1 · #137211 · protein
Conformational landscape of the P28-bound human proteasome regulatory particle
5VHM · 26S proteasome non-ATPase regulatory subunit 10: “Conformational landscape of the P28-bound human proteasome regulatory particle”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #137211 on GenesisL1: 3D…
- PDB
- 5VHM
- Type
- protein
- Length
- 2,263 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 0.85
Structure
electron microscopy · 8 distinct chains · 50% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G | 26S proteasome non-ATPase regulatory subunit 10 | protein | 210 | 51% helix, 0% strand | O75832 |
| A | 26S proteasome regulatory subunit 7 | protein | 258 | 46% helix, 5% strand | P35998 |
| B | 26S proteasome regulatory subunit 4 | protein | 232 | 44% helix, 8% strand | P62191 |
| D | 26S proteasome regulatory subunit 6B | protein | 220 | 45% helix, 5% strand | P43686 |
| E | 26S proteasome regulatory subunit 10B | protein | 209 | 44% helix, 10% strand | P62333 |
| F | 26S proteasome regulatory subunit 6A | protein | 219 | 41% helix, 11% strand | P17980 |
| C | 26S proteasome regulatory subunit 8 | protein | 229 | 45% helix, 8% strand | P62195 |
| f | 26S proteasome non-ATPase regulatory subunit 2 | protein | 686 | 63% 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 | 948 | 0.85 | 0.86 | 114 | empty |
| 2 | 906 | 0.81 | 0.83 | 92 | empty |
| 3 | 840 | 0.80 | 0.83 | 103 | empty |
| 4 | 173 | 0.80 | 0.95 | 42 | empty |
| 5 | 350 | 0.78 | 0.88 | 48 | empty |
Interfaces
10 interfaces between chains.
- G–D · 1530 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 846 Ų buried · 7 hydrogen bonds · protein-protein
- E–F · 704 Ų buried · 11 hydrogen bonds · protein-protein
- D–C · 555 Ų buried · 3 hydrogen bonds · protein-protein
- A–F · 487 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5VHM · Conformational Landscape of the p28-Bound Human Proteasome Regulatory Particle · the same entry in another collection · chain C against C, 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 0.96
- 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 0.86
- P62191 · AlphaFold monomer V2.0 prediction for 26S proteasome regulatory subunit 4 (P62191) · a predicted model of the same protein · chain B against A, TM-score 0.80
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 5VHM · PDBe 5VHM · UniProt O75832 · UniProt P35998 · UniProt P62191 · UniProt P43686 · UniProt P62333 · UniProt P17980 · UniProt P62195 · UniProt Q13200
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