Research workbench
Leishmania tarentolae proteasome 20S subunit apo structure
Analyse Leishmania tarentolae proteasome 20S subunit apo structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QM8
- Type
- protein
- Length
- 6,350 residues
- Chains
- 28
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proteasome ALPHA1 chain; Proteasome ALPHA2 chain; Proteasome ALPHA3 chain; Proteasome…
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 14 distinct chains · 33% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, O | Proteasome ALPHA1 chain | protein | 244 | 38% helix, 22% strand | — |
| B, P | Proteasome ALPHA2 chain | protein | 229 | 36% helix, 25% strand | — |
| C, Q | Proteasome ALPHA3 chain | protein | 276 | 36% helix, 22% strand | — |
| D, R | Proteasome ALPHA4 chain | protein | 239 | 36% helix, 25% strand | — |
| E, S | Proteasome ALPHA5 chain | protein | 229 | 31% helix, 27% strand | — |
| F, T | Proteasome ALPHA6 chain | protein | 238 | 35% helix, 26% strand | — |
| G, U | Proteasome ALPHA7 chain | protein | 228 | 31% helix, 26% strand | — |
| H, V | Proteasome BETA1 chain | protein | 229 | 30% helix, 28% strand | — |
| I, W | Proteasome BETA2 chain | protein | 219 | 30% helix, 33% strand | — |
| J, X | Proteasome BETA3 chain | protein | 204 | 30% helix, 31% strand | — |
| K, Y | Proteasome BETA4 chain | protein | 206 | 32% helix, 31% strand | — |
| L, Z | Proteasome BETA5 chain | protein | 202 | 35% helix, 33% strand | — |
| M, a | Proteasome BETA6 chain | protein | 214 | 30% helix, 25% strand | — |
| N, b | Proteasome BETA7 chain | protein | 218 | 34% helix, 28% strand | — |
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 | 1150 | 0.83 | 0.84 | 80 | empty |
| 2 | 1190 | 0.82 | 0.84 | 86 | empty |
| 3 | 422 | 0.80 | 0.88 | 41 | empty |
| 4 | 790 | 0.79 | 0.82 | 70 | empty |
| 5 | 1170 | 0.79 | 0.80 | 139 | empty |
Interfaces
86 interfaces between chains.
- H–b · 2419 Ų buried · 34 hydrogen bonds · protein-protein
- N–V · 2418 Ų buried · 36 hydrogen bonds · protein-protein
- I–J · 1749 Ų buried · 21 hydrogen bonds · protein-protein
- W–X · 1745 Ų buried · 22 hydrogen bonds · protein-protein
- P–Q · 1556 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 6QM8 · Leishmania tarentolae proteasome 20S subunit apo structure · the same entry in another collection · chain B against B, 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
- Elsewhere: RCSB PDB 6QM8 · PDBe 6QM8
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