Research workbench
Alpha-synuclein fibril from spontaneous control
Analyse Alpha-synuclein fibril from spontaneous control in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8CYR
- Type
- protein
- Length
- 864 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 4.2
- Source
- Homo sapiens
- Molecule
- Alpha-synuclein
- UniProt
- P37840
- Pockets
- 5 · best druggability 0.79
Structure
electron microscopy · resolution 4.2 · 1 distinct chain · 0% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, I, J, K, L, M, N | Alpha-synuclein | protein | 72 | 0% helix, 49% strand | P37840 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 933 | 0.79 | 0.82 | 74 | empty |
| 2 | 930 | 0.78 | 0.81 | 80 | empty |
| 3 | 194 | 0.60 | 0.81 | 30 | empty |
| 4 | 206 | 0.57 | 0.79 | 28 | empty |
| 5 | 54 | 0.23 | 0.72 | 20 | empty |
Interfaces
21 interfaces between chains.
- K–M · 2812 Ų buried · 78 hydrogen bonds · protein-protein
- J–L · 2810 Ų buried · 88 hydrogen bonds · protein-protein
- A–I · 2810 Ų buried · 77 hydrogen bonds · protein-protein
- A–E · 2809 Ų buried · 78 hydrogen bonds · protein-protein
- C–E · 2809 Ų buried · 78 hydrogen bonds · protein-protein
Compared structures
- P37840 · AlphaFold monomer V2.0 prediction for alpha-synuclein (P37840) · a predicted model of the same protein · chain A against A, TM-score 0.19
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 P37840
- Elsewhere: RCSB PDB 8CYR · PDBe 8CYR · UniProt P37840
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