Research workbench
Rat 20S proteasome
Analyse Rat 20S proteasome in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TU3
- Type
- protein
- Length
- 6,158 residues
- Chains
- 28
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome subunit alpha type-6; Proteasome subunit alpha type-2; Proteasome subunit…
- EC
- 3.4.25.1
- UniProt
- P60901, P17220, P21670, P48004, P34064, P18420, P18422, P28073, Q9JHW0, P40112, P40307, P28075, P18421, P34067
- Pockets
- 20 · best druggability 0.78
Structure
electron microscopy · 14 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, O | Proteasome subunit alpha type-6 (EC 3.4.25.1) | protein | 240 | 35% helix, 24% strand | P60901 |
| B, P | Proteasome subunit alpha type-2 (EC 3.4.25.1) | protein | 229 | 36% helix, 24% strand | P17220 |
| C, Q | Proteasome subunit alpha type-4 (EC 3.4.25.1) | protein | 247 | 36% helix, 22% strand | P21670 |
| D, R | Proteasome subunit alpha type-7 (EC 3.4.25.1) | protein | 232 | 36% helix, 22% strand | P48004 |
| E, S | Proteasome subunit alpha type-5 (EC 3.4.25.1) | protein | 233 | 31% helix, 23% strand | P34064 |
| F, T | Proteasome subunit alpha type-1 (EC 3.4.25.1) | protein | 234 | 34% helix, 21% strand | P18420 |
| G, U | Proteasome subunit alpha type-3 (EC 3.4.25.1) | protein | 239 | 36% helix, 24% strand | P18422 |
| H, V | Proteasome subunit beta type-6 (EC 3.4.25.1) | protein | 202 | 33% helix, 32% strand | P28073 |
| I, W | Proteasome subunit beta type-7 (EC 3.4.25.1) | protein | 197 | 33% helix, 36% strand | Q9JHW0 |
| J, X | Proteasome subunit beta type-3 (EC 3.4.25.1) | protein | 204 | 30% helix, 32% strand | P40112 |
| K, Y | Proteasome subunit beta type-2 (EC 3.4.25.1) | protein | 197 | 31% helix, 31% strand | P40307 |
| L, Z | Proteasome subunit beta type-5 (EC 3.4.25.1) | protein | 201 | 34% helix, 33% strand | P28075 |
| M, a | Proteasome subunit beta type-1 (EC 3.4.25.1) | protein | 212 | 30% helix, 30% strand | P18421 |
| N, b | Proteasome subunit beta type-4 (EC 3.4.25.1) | protein | 212 | 33% helix, 33% strand | P34067 |
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 | 1079 | 0.78 | 0.80 | 96 | empty |
| 2 | 973 | 0.78 | 0.80 | 91 | empty |
| 3 | 973 | 0.77 | 0.80 | 86 | empty |
| 4 | 905 | 0.77 | 0.80 | 99 | empty |
| 5 | 831 | 0.77 | 0.80 | 83 | empty |
Interfaces
82 interfaces between chains.
- R–Q · 1509 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1503 Ų buried · 18 hydrogen bonds · protein-protein
- P–Q · 1378 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 1372 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 1360 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6TU3 · Rat 20S proteasome · the same entry in another collection · chain K against K, 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 P60901
- Every structure of UniProt P17220
- Every structure of UniProt P21670
- Every structure of UniProt P48004
- Every structure of UniProt P34064
- Every structure of UniProt P18420
- Every structure of UniProt P18422
- Every structure of UniProt P28073
- Every structure of UniProt Q9JHW0
- Every structure of UniProt P40112
- Every structure of UniProt P40307
- Every structure of UniProt P28075
- Every structure of UniProt P18421
- Every structure of UniProt P34067
- Elsewhere: RCSB PDB 6TU3 · PDBe 6TU3 · UniProt P60901 · UniProt P17220 · UniProt P21670 · UniProt P48004 · UniProt P34064 · UniProt P18420 · UniProt P18422 · UniProt P28073 · UniProt Q9JHW0 · UniProt P40112 · UniProt P40307 · UniProt P28075 · UniProt P18421 · UniProt P34067
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