Research workbench
Feline Calicivirus Strain F9
Analyse Feline Calicivirus Strain F9 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GSH
- Type
- protein
- Length
- 1,597 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.0
- Source
- Feline calicivirus
- Molecule
- VP1
- UniProt
- A2T4P8
- Ligands
- K
- Pockets
- 11 · best druggability 0.81
Structure
electron microscopy · resolution 3.0 · 3 distinct chains · 8% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VP1 | protein | 533 | 9% helix, 32% strand | A2T4P8 |
| B | VP1 | protein | 530 | 8% helix, 34% strand | A2T4P8 |
| C | VP1 | protein | 534 | 8% helix, 31% strand | A2T4P8 |
Ligands and binding sites
- K · Potassium ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 576 | 0.81 | 0.87 | 93 | empty |
| 2 | 411 | 0.79 | 0.87 | 70 | empty |
| 3 | 496 | 0.78 | 0.86 | 75 | empty |
| 4 | 81 | 0.66 | 0.92 | 20 | empty |
| 5 | 298 | 0.65 | 0.81 | 40 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1496 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 1228 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 933 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6GSH · Feline calicivirus strain F9 · 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 A2T4P8
- Elsewhere: RCSB PDB 6GSH · PDBe 6GSH · UniProt A2T4P8
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