MolNFT v1 · #167407 · protein
Co-crystals of broadly neutralizing antibody with the linear epitope from hepatitis B surface antigen
6VJT · Heavy chain Fab fragment of monoclonal AB15: “Co-crystals of broadly neutralizing antibody with the linear epitope from hepatitis B surface antigen”. X-ray diffraction, 4 pockets (best druggability 0.58). MolNFT v1 #167407 on…
- PDB
- 6VJT
- Type
- protein
- Length
- 447 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain Fab fragment of monoclonal AB15; Light chain Fab fragment of monoclonal…
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Heavy chain Fab fragment of monoclonal AB15 | protein | 223 | 9% helix, 50% strand | — |
| L | Light chain Fab fragment of monoclonal antibody A15 | protein | 214 | 6% helix, 52% strand | — |
| P | Antigenic region 139-148 of hepatitis B surface antigen protein | protein | 10 | 0% helix, 20% strand | — |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 441 | 0.58 | 0.74 | 63 | empty |
| 2 | 249 | 0.57 | 0.78 | 36 | empty |
| 3 | 124 | 0.39 | 0.74 | 30 | empty |
| 4 | 101 | 0.36 | 0.74 | 21 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1803 Ų buried · 19 hydrogen bonds · protein-protein
- H–P · 388 Ų buried · 9 hydrogen bonds · protein-protein
- L–P · 111 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6VJT · Co-crystals of broadly neutralizing antibody with the linear epitope from Hepatitis B… · the same entry in another collection · chain P against P, 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 6VJT · PDBe 6VJT
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