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Structure of respiratory syncytial virus F protein head domain
Analyse Structure of respiratory syncytial virus F protein head domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CCF
- Type
- protein
- Length
- 1,574 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fusion glycoprotein F0
- UniProt
- G8EJ09
- Ligands
- SO4
- Pockets
- 18 · best druggability 0.82
Structure
x-ray diffraction · 6 distinct chains · 19% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fusion glycoprotein F0 | protein | 265 | 17% helix, 48% strand | G8EJ09 |
| B | Fusion glycoprotein F0 | protein | 258 | 19% helix, 47% strand | G8EJ09 |
| C | Fusion glycoprotein F0 | protein | 261 | 20% helix, 48% strand | G8EJ09 |
| D | Fusion glycoprotein F0 | protein | 268 | 18% helix, 47% strand | G8EJ09 |
| E | Fusion glycoprotein F0 | protein | 257 | 20% helix, 47% strand | G8EJ09 |
| F | Fusion glycoprotein F0 | protein | 265 | 19% helix, 48% strand | G8EJ09 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 844 | 0.82 | 0.85 | 137 | empty |
| 2 | 364 | 0.73 | 0.84 | 65 | empty |
| 3 | 206 | 0.73 | 0.89 | 32 | SO4 |
| 4 | 231 | 0.71 | 0.87 | 32 | empty |
| 5 | 216 | 0.70 | 0.87 | 48 | empty |
Interfaces
9 interfaces between chains.
- D–F · 1843 Ų buried · 23 hydrogen bonds · protein-protein
- E–F · 1611 Ų buried · 22 hydrogen bonds · protein-protein
- D–E · 1605 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 1539 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 1536 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 36 disulfide (disulfide).
Compared structures
- 4CCF · Structure of Respiratory Syncytial Virus F protein head domain · the same entry in another collection · chain F against F, 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 G8EJ09
- Elsewhere: RCSB PDB 4CCF · PDBe 4CCF · UniProt G8EJ09
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