Research workbench
Crystal structure of A/VICTORIA/361/2011 (H3N2) influenza virus hemagglutinin
Analyse Crystal structure of A/VICTORIA/361/2011 (H3N2) influenza virus hemagglutinin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4O5N
- Type
- protein
- Length
- 490 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemagglutinin HA1 chain; Hemagglutinin HA2 chain
- UniProt
- R9U684
- Ligands
- NAG, BMA
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemagglutinin HA1 chain | protein | 317 | 10% helix, 40% strand | R9U684 |
| B | Hemagglutinin HA2 chain | protein | 173 | 53% helix, 15% strand | R9U684 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar
- GOL · Glycerol · additive · 8 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.60 | 0.92 | 18 | empty |
| 2 | 57 | 0.56 | 0.89 | 19 | empty |
| 3 | 90 | 0.37 | 0.76 | 17 | empty |
| 4 | 71 | 0.33 | 0.75 | 15 | GOL |
| 5 | 53 | 0.28 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 3010 Ų buried · 45 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 4O5N · Crystal structure of A/Victoria/361/2011 (H3N2) influenza virus hemagglutinin · 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 R9U684
- Elsewhere: RCSB PDB 4O5N · PDBe 4O5N · UniProt R9U684
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.