Research workbench
Fab. abvance: increasing our knowledge of antibody structural space to enable faster and better decision-making in antibody drug discovery.
Analyse Fab. abvance: increasing our knowledge of antibody structural space to enable… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5OBF
- Type
- protein
- Length
- 429 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab heavy chain; Fab light chain
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Fab heavy chain | protein | 212 | 6% helix, 52% strand | — |
| L | Fab light chain | protein | 217 | 6% helix, 49% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 949 | 0.71 | 0.76 | 71 | empty |
| 2 | 50 | 0.50 | 0.88 | 21 | empty |
| 3 | 99 | 0.44 | 0.78 | 20 | empty |
| 4 | 120 | 0.41 | 0.75 | 24 | empty |
| 5 | 94 | 0.40 | 0.77 | 21 | empty |
Interfaces
1 interface between chains.
- H–L · 1599 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5OBF · fAb. AbVance: increasing our knowledge of antibody structural space to enable faster and… · the same entry in another collection · chain H against H, 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 5OBF · PDBe 5OBF
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