Research workbench
Crystal structure of an influenza a hemagglutinin antibody Fab variant CH67:1203D4 chimera
Analyse Crystal structure of an influenza a hemagglutinin antibody Fab variant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DL8
- Type
- protein
- Length
- 835 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CH67:1203D4 Fab light chain; CH67:1203D4 Fab heavy chain
- Pockets
- 15 · best druggability 0.57
Structure
x-ray diffraction · 4 distinct chains · 4% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | CH67:1203D4 Fab light chain | protein | 204 | 7% helix, 49% strand | — |
| H | CH67:1203D4 Fab heavy chain | protein | 216 | 3% helix, 39% strand | — |
| B | CH67:1203D4 Fab light chain | protein | 197 | 6% helix, 50% strand | — |
| A | CH67:1203D4 Fab heavy chain | protein | 218 | 1% helix, 46% strand | — |
Pockets
15 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 163 | 0.57 | 0.82 | 31 | empty |
| 2 | 352 | 0.55 | 0.75 | 59 | empty |
| 3 | 194 | 0.53 | 0.78 | 28 | empty |
| 4 | 65 | 0.52 | 0.87 | 22 | empty |
| 5 | 60 | 0.47 | 0.84 | 21 | empty |
Interfaces
5 interfaces between chains.
- B–A · 1723 Ų buried · 12 hydrogen bonds · protein-protein
- L–H · 1456 Ų buried · 9 hydrogen bonds · protein-protein
- H–A · 360 Ų buried · 1 hydrogen bond · protein-protein
- L–B · 120 Ų buried · 0 hydrogen bonds · protein-protein
- H–B · 40 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6DL8 · Crystal Structure of an influenza A hemagglutinin antibody Fab variant CH67:1203d4 chimera · the same entry in another collection · chain L against L, 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
- Elsewhere: RCSB PDB 6DL8 · PDBe 6DL8
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