Research workbench
The human 26S proteasome lid
Analyse The human 26S proteasome lid in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5L4K
- Type
- protein
- Length
- 5,000 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 26S proteasome non-ATPase regulatory subunit 4; 26S proteasome non-ATPase regulatory…
- EC
- 3.4.19.-
- UniProt
- P55036, O00487, P48556, P60896, Q13200, Q99460, O43242, O00232, O00231, Q15008, P51665, Q9UNM6
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 12 distinct chains · 55% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| W | 26S proteasome non-ATPase regulatory subunit 4 | protein | 196 | 29% helix, 21% strand | P55036 |
| V | 26S proteasome non-ATPase regulatory subunit 14 (EC 3.4.19.-) | protein | 293 | 42% helix, 17% strand | O00487 |
| T | 26S proteasome non-ATPase regulatory subunit 8 | protein | 272 | 60% helix, 3% strand | P48556 |
| Y | 26S proteasome complex subunit DSS1 | protein | 56 | 20% helix, 0% strand | P60896 |
| Z | 26S proteasome non-ATPase regulatory subunit 2 | protein | 881 | 50% helix, 3% strand | Q13200 |
| N | 26S proteasome non-ATPase regulatory subunit 1 | protein | 876 | 55% helix, 3% strand | Q99460 |
| S | 26S proteasome non-ATPase regulatory subunit 3 | protein | 491 | 65% helix, 3% strand | O43242 |
| P | 26S proteasome non-ATPase regulatory subunit 12 | protein | 456 | 63% helix, 2% strand | O00232 |
| Q | 26S proteasome non-ATPase regulatory subunit 11 | protein | 422 | 60% helix, 2% strand | O00231 |
| R | 26S proteasome non-ATPase regulatory subunit 6 | protein | 389 | 64% helix, 2% strand | Q15008 |
| U | 26S proteasome non-ATPase regulatory subunit 7 | protein | 292 | 47% helix, 18% strand | P51665 |
| O | 26S proteasome non-ATPase regulatory subunit 13 | protein | 376 | 61% helix, 4% strand | Q9UNM6 |
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 | 1106 | 0.85 | 0.86 | 105 | empty |
| 2 | 712 | 0.81 | 0.85 | 78 | empty |
| 3 | 860 | 0.80 | 0.82 | 83 | empty |
| 4 | 125 | 0.78 | 0.96 | 27 | empty |
| 5 | 704 | 0.75 | 0.80 | 83 | empty |
Interfaces
29 interfaces between chains.
- V–U · 3998 Ų buried · 21 hydrogen bonds · protein-protein
- T–S · 2130 Ų buried · 18 hydrogen bonds · protein-protein
- U–O · 1855 Ų buried · 3 hydrogen bonds · protein-protein
- Y–S · 1773 Ų buried · 36 hydrogen bonds · protein-protein
- P–U · 1612 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5L4K · The human 26S proteasome lid · the same entry in another collection · chain O against O, TM-score 1.00
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 P55036
- Every structure of UniProt O00487
- Every structure of UniProt P48556
- Every structure of UniProt P60896
- Every structure of UniProt Q13200
- Every structure of UniProt Q99460
- Every structure of UniProt O43242
- Every structure of UniProt O00232
- Every structure of UniProt O00231
- Every structure of UniProt Q15008
- Every structure of UniProt P51665
- Every structure of UniProt Q9UNM6
- Elsewhere: RCSB PDB 5L4K · PDBe 5L4K · UniProt P55036 · UniProt O00487 · UniProt P48556 · UniProt P60896 · UniProt Q13200 · UniProt Q99460 · UniProt O43242 · UniProt O00232 · UniProt O00231 · UniProt Q15008 · UniProt P51665 · UniProt Q9UNM6
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