Research workbench
Cryo-EM structure of pepper cryptic virus 1 vlp
Analyse Cryo-EM structure of pepper cryptic virus 1 vlp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NCR
- Type
- protein
- Length
- 668 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coat protein
- UniProt
- F8VBM8
- Pockets
- 7 · best druggability 0.76
Structure
electron microscopy · 1 distinct chain · 35% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Coat protein | protein | 334 | 35% helix, 17% strand | F8VBM8 |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 223 | 0.76 | 0.90 | 41 | empty |
| 2 | 271 | 0.61 | 0.80 | 42 | empty |
| 3 | 84 | 0.48 | 0.83 | 20 | empty |
| 4 | 79 | 0.45 | 0.82 | 19 | empty |
| 5 | 67 | 0.38 | 0.77 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 6938 Ų buried · 125 hydrogen bonds · protein-protein
Compared structures
- 7NCR · Cryo-EM structure of Pepper cryptic virus 1 VLP · the same entry in another collection · chain A against A, 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 F8VBM8
- Elsewhere: RCSB PDB 7NCR · PDBe 7NCR · UniProt F8VBM8
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