Research workbench
Crystal structure of protective human antibody 3A6 Fab against ebola virus
Analyse Crystal structure of protective human antibody 3A6 Fab against ebola virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RPT
- Type
- protein
- Length
- 1,720 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3A6 Fab heavy chain; 3A6 Fab light chain
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | 3A6 Fab heavy chain | protein | 212 | 8% helix, 52% strand | — |
| B, D, F, H | 3A6 Fab light chain | protein | 218 | 6% helix, 51% strand | — |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 968 | 0.78 | 0.81 | 120 | empty |
| 2 | 383 | 0.76 | 0.86 | 48 | empty |
| 3 | 705 | 0.76 | 0.81 | 90 | empty |
| 4 | 357 | 0.70 | 0.82 | 41 | empty |
| 5 | 404 | 0.68 | 0.81 | 52 | empty |
Interfaces
15 interfaces between chains.
- E–F · 1716 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 1707 Ų buried · 9 hydrogen bonds · protein-protein
- G–H · 1706 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1686 Ų buried · 7 hydrogen bonds · protein-protein
- A–E · 1225 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 7RPT · Crystal Structure of Protective Human Antibody 3A6 Fab Against Ebola 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
- Elsewhere: RCSB PDB 7RPT · PDBe 7RPT
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