MolNFT v1 · #138483 · protein
Crystal structure of antibody 27F3 recognizing the ha from A/CALIFORNIA/04/2009 (H1N1) influenza virus
5WKO · Antibody 27F3 heavy chain: “Crystal structure of antibody 27F3 recognizing the ha from A/CALIFORNIA/04/2009 (H1N1) influenza virus”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #138483 on GenesisL1: 3D…
- PDB
- 5WKO
- Type
- protein
- Length
- 5,608 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody 27F3 heavy chain; Antibody 27F3 light chain; Hemagglutinin
- UniProt
- Q6N089, Q9UL78, Q6P5S8, C3W5S1, A0A023ZYH9
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 7 distinct chains · 16% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | Antibody 27F3 heavy chain | protein | 225 | 4% helix, 50% strand | Q6N089 |
| B, D, F, H, J, L | Antibody 27F3 light chain | protein | 213 | 4% helix, 49% strand | Q9UL78, Q6P5S8 |
| M, S | Hemagglutinin | protein | 324 | 8% helix, 42% strand | C3W5S1 |
| N, T | Hemagglutinin | protein | 323 | 8% helix, 40% strand | C3W5S1 |
| O, U | Hemagglutinin | protein | 326 | 8% helix, 40% strand | C3W5S1 |
| P, V | Hemagglutinin | protein | 175 | 57% helix, 14% strand | A0A023ZYH9 |
| Q, R, W, X | Hemagglutinin | protein | 171 | 56% helix, 15% strand | A0A023ZYH9 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 219 | 0.84 | 0.96 | 30 | empty |
| 2 | 206 | 0.83 | 0.96 | 28 | empty |
| 3 | 884 | 0.80 | 0.82 | 107 | empty |
| 4 | 874 | 0.79 | 0.82 | 102 | empty |
| 5 | 1178 | 0.75 | 0.78 | 123 | empty |
Interfaces
60 interfaces between chains.
- U–X · 2826 Ų buried · 41 hydrogen bonds · protein-protein
- O–R · 2782 Ų buried · 41 hydrogen bonds · protein-protein
- T–W · 2750 Ų buried · 38 hydrogen bonds · protein-protein
- M–P · 2742 Ų buried · 38 hydrogen bonds · protein-protein
- S–V · 2731 Ų buried · 40 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 60 disulfide (disulfide).
Compared structures
- 5WKO · Crystal structure of antibody 27F3 recognizing the HA from A/California/04/2009 (H1N1)… · 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 Q6N089
- Every structure of UniProt Q9UL78
- Every structure of UniProt Q6P5S8
- Every structure of UniProt C3W5S1
- Every structure of UniProt A0A023ZYH9
- Elsewhere: RCSB PDB 5WKO · PDBe 5WKO · UniProt Q6N089 · UniProt Q9UL78 · UniProt Q6P5S8 · UniProt C3W5S1 · UniProt A0A023ZYH9
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