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Crystal structure of the anti-lysozyme antibody hyhel-63 complexed with hen egg white lysozyme
Analyse Crystal structure of the anti-lysozyme antibody hyhel-63 complexed with hen egg… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1DQJ
- Type
- protein
- Length
- 553 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anti-lysozyme antibody hyhel-63 (light chain); Anti-lysozyme antibody hyhel-63 (heavy…
- EC
- 3.2.1.17
- UniProt
- P00698
- Pockets
- 5 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 13% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Anti-lysozyme antibody hyhel-63 (light chain) | protein | 214 | 7% helix, 51% strand | — |
| B | Anti-lysozyme antibody hyhel-63 (heavy chain) | protein | 210 | 4% helix, 51% strand | — |
| C | Lysozyme (EC 3.2.1.17) | protein | 129 | 39% helix, 11% strand | P00698 |
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 | 176 | 0.64 | 0.84 | 36 | empty |
| 2 | 393 | 0.56 | 0.74 | 54 | empty |
| 3 | 163 | 0.48 | 0.77 | 16 | empty |
| 4 | 75 | 0.33 | 0.75 | 19 | empty |
| 5 | 74 | 0.31 | 0.74 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1865 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 587 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 431 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 1DQJ · Crystal structure of the anti-lysozyme antibody hyhel-63 complexed with hen egg white… · 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 P00698
- Elsewhere: RCSB PDB 1DQJ · PDBe 1DQJ · UniProt P00698
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