Research workbench
Cryo-EM structure of alpha-synuclein fibril polymorph 2B
Analyse Cryo-EM structure of alpha-synuclein fibril polymorph 2B in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6RTB
- Type
- protein
- Length
- 699 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alpha-synuclein
- UniProt
- P37840
- Pockets
- 5 · best druggability 0.69
Structure
electron microscopy · 2 distinct chains · 0% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H, C, I, J, E, G, B, F, A | Alpha-synuclein | protein | 70 | 0% helix, 44% strand | P37840 |
| D | Alpha-synuclein | protein | 69 | 0% helix, 38% strand | P37840 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 242 | 0.69 | 0.85 | 43 | empty |
| 2 | 63 | 0.34 | 0.77 | 14 | empty |
| 3 | 76 | 0.30 | 0.73 | 14 | empty |
| 4 | 55 | 0.28 | 0.74 | 14 | empty |
| 5 | 53 | 0.26 | 0.74 | 18 | empty |
Interfaces
19 interfaces between chains.
- D–E · 2720 Ų buried · 62 hydrogen bonds · protein-protein
- I–J · 2701 Ų buried · 60 hydrogen bonds · protein-protein
- C–B · 2701 Ų buried · 61 hydrogen bonds · protein-protein
- G–F · 2697 Ų buried · 69 hydrogen bonds · protein-protein
- H–G · 2679 Ų buried · 70 hydrogen bonds · protein-protein
Compared structures
- 6RTB · cryo-em structure of alpha-synuclein fibril polymorph 2B · 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 P37840
- Elsewhere: RCSB PDB 6RTB · PDBe 6RTB · UniProt P37840
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