Research workbench
Influenza virus hemagglutinin, (escape) mutant with thr 131 replaced by ile, complexed with a neutralizing antibody
Analyse Influenza virus hemagglutinin, (escape) mutant with thr 131 replaced by ile… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2VIS
- Type
- protein
- Length
- 698 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Immunoglobulin (IGG1, lambda); Hemagglutinin
- UniProt
- P03437
- Ligands
- NAG, ZN
- Pockets
- 5 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Immunoglobulin (IGG1, lambda) | protein | 210 | 8% helix, 52% strand | — |
| B | Immunoglobulin (IGG1, lambda) | protein | 221 | 5% helix, 50% strand | — |
| C | Hemagglutinin | protein | 267 | 12% helix, 41% strand | P03437 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains C
- ZN · Zinc ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 424 | 0.64 | 0.78 | 56 | empty |
| 2 | 488 | 0.59 | 0.74 | 52 | empty |
| 3 | 243 | 0.54 | 0.77 | 26 | empty |
| 4 | 61 | 0.39 | 0.80 | 19 | empty |
| 5 | 65 | 0.31 | 0.75 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1857 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 680 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 54 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 8 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 2VIS · Influenza virus hemagglutinin, (escape) mutant with thr 131 replaced by ile, complexed… · 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 P03437
- Elsewhere: RCSB PDB 2VIS · PDBe 2VIS · UniProt P03437
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