Research workbench
Ground state 26S proteasome (GS1)
Analyse Ground state 26S proteasome (GS1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6EPF
- Type
- protein
- Length
- 10,504 residues
- Chains
- 32
- 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, Q9ESH1, Q4V8E2, F1LMQ3, D3ZHW9, Q4FZT9, O88761, Q5U2S7, Q5XIC6, F1LMZ8, Q6PCT9, D4AEH3, B0BN93, Q63347, P62193, Q63570, G3V6W6, Q6P6U2, P62198
- Pockets
- 20 · best druggability 0.90
Structure
electron microscopy · 32 distinct chains · 50% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proteasome subunit alpha type-6 (EC 3.4.25.1) | protein | 246 | 37% helix, 24% strand | P60901 |
| B | Proteasome subunit alpha type-2 (EC 3.4.25.1) | protein | 234 | 36% helix, 21% strand | P17220 |
| C | Proteasome subunit alpha type-4 (EC 3.4.25.1) | protein | 249 | 40% helix, 23% strand | P21670 |
| D | Proteasome subunit alpha type-7 (EC 3.4.25.1) | protein | 246 | 39% helix, 22% strand | P48004 |
| E | Proteasome subunit alpha type-5 (EC 3.4.25.1) | protein | 233 | 33% helix, 23% strand | P34064 |
| F | Proteasome subunit alpha type-1 (EC 3.4.25.1) | protein | 238 | 35% helix, 25% strand | P18420 |
| G | Proteasome subunit alpha type-3 (EC 3.4.25.1) | protein | 245 | 36% helix, 24% strand | P18422 |
| 1 | Proteasome subunit beta type-6 (EC 3.4.25.1) | protein | 202 | 30% helix, 26% strand | P28073 |
| 2 | Proteasome subunit beta type-7 (EC 3.4.25.1) | protein | 219 | 29% helix, 28% strand | Q9JHW0 |
| 3 | Proteasome subunit beta type-3 (EC 3.4.25.1) | protein | 205 | 30% helix, 20% strand | P40112 |
| 4 | Proteasome subunit beta type-2 (EC 3.4.25.1) | protein | 196 | 34% helix, 25% strand | P40307 |
| 5 | Proteasome subunit beta type-5 (EC 3.4.25.1) | protein | 201 | 36% helix, 25% strand | P28075 |
| 6 | Proteasome subunit beta type-1 (EC 3.4.25.1) | protein | 213 | 28% helix, 27% strand | P18421 |
| 7 | Proteasome subunit beta type-4 (EC 3.4.25.1) | protein | 216 | 29% helix, 29% strand | P34067 |
| W | 26S proteasome subunit S5A | protein | 195 | 32% helix, 18% strand | Q9ESH1 |
| V | Proteasome (prosome, macropain) 26S subunit, non-ATPase, 14 | protein | 289 | 48% helix, 17% strand | Q4V8E2 |
| T | Proteasome 26S subunit, non-ATPase 8 | protein | 263 | 57% helix, 1% strand | F1LMQ3 |
| Y | RCG28037 | protein | 24 | 79% helix, 0% strand | D3ZHW9 |
| Z | 26S proteasome non-ATPase regulatory subunit 2 | protein | 896 | 59% helix, 2% strand | Q4FZT9 |
| N | 26S proteasome non-ATPase regulatory subunit 1 | protein | 905 | 61% helix, 2% strand | O88761 |
| S | Proteasome (prosome, macropain) 26S subunit, non-ATPase, 3 | protein | 476 | 65% helix, 2% strand | Q5U2S7 |
| P | Proteasome (prosome, macropain) 26S subunit, non-ATPase, 12 | protein | 456 | 73% helix, 1% strand | Q5XIC6 |
| Q | 26S proteasome non-ATPase regulatory subunit 11 | protein | 422 | 76% helix, 2% strand | F1LMZ8 |
| R | Proteasome (prosome, macropain) 26S subunit, non-ATPase, 6 | protein | 389 | 73% helix, 2% strand | Q6PCT9 |
| U | Proteasome (prosome, macropain) 26S subunit, non-ATPase, 7 (predicted) | protein | 288 | 44% helix, 18% strand | D4AEH3 |
| O | 26S proteasome non-ATPase regulatory subunit 13 | protein | 376 | 67% helix, 4% strand | B0BN93 |
| H | 26S proteasome regulatory subunit 7 | protein | 396 | 45% helix, 14% strand | Q63347 |
| I | 26S proteasome regulatory subunit 4 | protein | 385 | 47% helix, 15% strand | P62193 |
| K | 26S proteasome regulatory subunit 6B | protein | 391 | 44% helix, 15% strand | Q63570 |
| L | Proteasome 26S subunit, ATPase 6 | protein | 389 | 47% helix, 13% strand | G3V6W6 |
| M | 26S proteasome regulatory subunit 6A | protein | 415 | 45% helix, 12% strand | Q6P6U2 |
| J | 26S proteasome regulatory subunit 8 | protein | 406 | 48% helix, 14% strand | P62198 |
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 | 966 | 0.90 | 0.92 | 90 | empty |
| 2 | 1119 | 0.87 | 0.88 | 101 | empty |
| 3 | 847 | 0.87 | 0.89 | 91 | empty |
| 4 | 1166 | 0.85 | 0.86 | 84 | empty |
| 5 | 334 | 0.85 | 0.94 | 47 | empty |
Interfaces
129 interfaces between chains.
- L–M · 5570 Ų buried · 61 hydrogen bonds · protein-protein
- H–I · 4747 Ų buried · 36 hydrogen bonds · protein-protein
- V–U · 4548 Ų buried · 34 hydrogen bonds · protein-protein
- K–J · 4241 Ų buried · 38 hydrogen bonds · protein-protein
- H–M · 3532 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 6EPF · Ground state 26S proteasome (GS1) · the same entry in another collection · chain C against C, 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
- Every structure of UniProt Q9ESH1
- Every structure of UniProt Q4V8E2
- Every structure of UniProt F1LMQ3
- Every structure of UniProt D3ZHW9
- Every structure of UniProt Q4FZT9
- Every structure of UniProt O88761
- Every structure of UniProt Q5U2S7
- Every structure of UniProt Q5XIC6
- Every structure of UniProt F1LMZ8
- Every structure of UniProt Q6PCT9
- Every structure of UniProt D4AEH3
- Every structure of UniProt B0BN93
- Every structure of UniProt Q63347
- Every structure of UniProt P62193
- Every structure of UniProt Q63570
- Every structure of UniProt G3V6W6
- Every structure of UniProt Q6P6U2
- Every structure of UniProt P62198
- Elsewhere: RCSB PDB 6EPF · PDBe 6EPF · 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 · UniProt Q9ESH1 · UniProt Q4V8E2 · UniProt F1LMQ3 · UniProt D3ZHW9 · UniProt Q4FZT9 · UniProt O88761 · UniProt Q5U2S7 · UniProt Q5XIC6 · UniProt F1LMZ8 · UniProt Q6PCT9 · UniProt D4AEH3 · UniProt B0BN93 · UniProt Q63347 · UniProt P62193 · UniProt Q63570 · UniProt G3V6W6 · UniProt Q6P6U2 · UniProt P62198
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