Research workbench
Crystal structure of anti-CD19 antibody B43 Fab
Analyse Crystal structure of anti-CD19 antibody B43 Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AL4
- Type
- protein
- Length
- 1,323 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B43 light chain; B43 heavy chain
- UniProt
- Q6P5S8, Q6GMX6
- Pockets
- 19 · best druggability 0.66
Structure
x-ray diffraction · 4 distinct chains · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | B43 light chain | protein | 218 | 6% helix, 50% strand | Q6P5S8 |
| B | B43 heavy chain | protein | 221 | 10% helix, 51% strand | Q6GMX6 |
| C, E | B43 light chain | protein | 217 | 6% helix, 51% strand | Q6P5S8 |
| D, F | B43 heavy chain | protein | 225 | 8% helix, 50% strand | Q6GMX6 |
Pockets
19 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 191 | 0.66 | 0.85 | 33 | empty |
| 2 | 326 | 0.55 | 0.75 | 41 | empty |
| 3 | 320 | 0.54 | 0.75 | 41 | empty |
| 4 | 194 | 0.54 | 0.79 | 37 | empty |
| 5 | 292 | 0.53 | 0.75 | 38 | empty |
Interfaces
9 interfaces between chains.
- E–F · 1978 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 1968 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1926 Ų buried · 19 hydrogen bonds · protein-protein
- B–D · 508 Ų buried · 6 hydrogen bonds · protein-protein
- C–E · 355 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide, 3 modified (disulfide, cyclization).
Compared structures
- 6AL4 · Crystal structure of anti-CD19 antibody B43 Fab · 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 Q6P5S8
- Every structure of UniProt Q6GMX6
- Elsewhere: RCSB PDB 6AL4 · PDBe 6AL4 · UniProt Q6P5S8 · UniProt Q6GMX6
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