Research workbench
Proteasome from thermoplasma acidophilum
Analyse Proteasome from thermoplasma acidophilum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1PMA
- Type
- protein
- Length
- 5,936 residues
- Chains
- 28
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome
- EC
- 3.4.99.46
- UniProt
- P25156, P28061
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D, E, F, G, H, I, J, K, L, M, N, O | Proteasome (EC 3.4.99.46) | protein | 221 | 39% helix, 28% strand | P25156 |
| B, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 2 | Proteasome (EC 3.4.99.46) | protein | 203 | 37% helix, 32% strand | P28061 |
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 | 794 | 0.76 | 0.80 | 78 | empty |
| 2 | 765 | 0.75 | 0.80 | 73 | empty |
| 3 | 799 | 0.75 | 0.80 | 82 | empty |
| 4 | 786 | 0.75 | 0.80 | 80 | empty |
| 5 | 701 | 0.74 | 0.80 | 71 | empty |
Interfaces
70 interfaces between chains.
- I–J · 1300 Ų buried · 26 hydrogen bonds · protein-protein
- L–M · 1297 Ų buried · 25 hydrogen bonds · protein-protein
- E–F · 1292 Ų buried · 25 hydrogen bonds · protein-protein
- A–H · 1292 Ų buried · 25 hydrogen bonds · protein-protein
- I–O · 1276 Ų buried · 23 hydrogen bonds · protein-protein
Compared structures
- 1PMA · Proteasome from thermoplasma acidophilum · the same entry in another collection · chain H against H, 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 P25156
- Every structure of UniProt P28061
- Elsewhere: RCSB PDB 1PMA · PDBe 1PMA · UniProt P25156 · UniProt P28061
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