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The crystal structure of hemagglutinin HA1 domain from influenza virus A/PERTH/142/2007(H3N2)
Analyse The crystal structure of hemagglutinin HA1 domain from influenza virus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WE6
- Type
- protein
- Length
- 546 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemagglutinin HA1 chain
- UniProt
- G8HJ45
- Ligands
- NAG
- Pockets
- 5 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Hemagglutinin HA1 chain | protein | 273 | 11% helix, 39% strand | G8HJ45 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, B
- GOL · Glycerol · additive · 4 copies · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 192 | 0.49 | 0.76 | 37 | GOL |
| 2 | 172 | 0.43 | 0.74 | 26 | empty |
| 3 | 71 | 0.38 | 0.78 | 19 | empty |
| 4 | 58 | 0.30 | 0.75 | 15 | empty |
| 5 | 53 | 0.29 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 428 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide, 4 glycan (disulfide, N-glycosylation).
Compared structures
- 4WE6 · The crystal structure of hemagglutinin HA1 domain from influenza virus… · 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 G8HJ45
- Elsewhere: RCSB PDB 4WE6 · PDBe 4WE6 · UniProt G8HJ45
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