Research workbench
Crystal structure of the anti-human P-cadherin Fab CQY684
Analyse Crystal structure of the anti-human P-cadherin Fab CQY684 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZTF
- Type
- protein
- Length
- 879 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CQY684 Fab heavy-chain; CQY684 Fab light-chain
- Pockets
- 9 · best druggability 0.63
Structure
x-ray diffraction · 4 distinct chains · 7% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CQY684 Fab heavy-chain | protein | 233 | 9% helix, 50% strand | — |
| B | CQY684 Fab light-chain | protein | 211 | 6% helix, 52% strand | — |
| H | CQY684 Fab heavy-chain | protein | 225 | 6% helix, 53% strand | — |
| L | CQY684 Fab light-chain | protein | 210 | 6% helix, 52% strand | — |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 643 | 0.63 | 0.74 | 64 | empty |
| 2 | 568 | 0.60 | 0.73 | 65 | empty |
| 3 | 229 | 0.47 | 0.73 | 41 | empty |
| 4 | 64 | 0.46 | 0.83 | 23 | empty |
| 5 | 120 | 0.39 | 0.75 | 22 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1808 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1707 Ų buried · 16 hydrogen bonds · protein-protein
- B–L · 322 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6ZTF · Crystal Structure of the anti-human P-Cadherin Fab CQY684 · 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 6ZTF · PDBe 6ZTF
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