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Crystal structure of hen egg white lysozyme (hel) complexed with the mutant anti-hel monoclonal antibody D1.3 (VLW92H)
Analyse Crystal structure of hen egg white lysozyme (hel) complexed with the mutant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1G7J
- Type
- protein
- Length
- 348 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anti-hen egg white lysozyme monoclonal antibody D1.3; Lysozyme C
- EC
- 3.2.1.17
- UniProt
- P01820, P00698
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Anti-hen egg white lysozyme monoclonal antibody D1.3 | protein | 107 | 3% helix, 50% strand | — |
| B | Anti-hen egg white lysozyme monoclonal antibody D1.3 | protein | 112 | 8% helix, 52% strand | P01820 |
| C | Lysozyme C (EC 3.2.1.17) | protein | 129 | 40% helix, 11% strand | P00698 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 93 | 0.72 | 0.95 | 21 | empty |
| 2 | 60 | 0.45 | 0.83 | 17 | empty |
| 3 | 98 | 0.34 | 0.74 | 14 | empty |
| 4 | 57 | 0.26 | 0.73 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 846 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 435 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 357 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1G7J · Crystal structure of hen egg white lysozyme (hel) complexed with the mutant anti-hel… · the same entry in another collection · chain A against A, TM-score 1.00
- P01820 · AlphaFold monomer V2.0 prediction for ig heavy chain V region PJ14 (P01820) · a predicted model of the same protein · chain B against A, TM-score 0.81
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 P01820
- Every structure of UniProt P00698
- Elsewhere: RCSB PDB 1G7J · PDBe 1G7J · UniProt P01820 · UniProt P00698
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