MolNFT v1 · #106892 · protein
Structure of a lysozyme antibody complex
4TTD · Lysozyme C: “Structure of a lysozyme antibody complex”. X-ray diffraction, 14 pockets (best druggability 0.60). MolNFT v1 #106892 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4TTD
- Type
- protein
- Length
- 1,110 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysozyme C; Fab heavy chain; Fab light chain
- EC
- 3.2.1.17
- UniProt
- P00698
- Pockets
- 14 · best druggability 0.60
Structure
x-ray diffraction · 4 distinct chains · 12% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Lysozyme C (EC 3.2.1.17) | protein | 127 | 40% helix, 11% strand | P00698 |
| C | Fab heavy chain | protein | 212 | 7% helix, 51% strand | — |
| D, L | Fab light chain | protein | 214 | 7% helix, 50% strand | — |
| H | Fab heavy chain | protein | 216 | 7% helix, 50% strand | — |
Pockets
14 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 312 | 0.60 | 0.78 | 30 | empty |
| 2 | 301 | 0.59 | 0.78 | 30 | empty |
| 3 | 371 | 0.54 | 0.74 | 45 | empty |
| 4 | 408 | 0.54 | 0.73 | 43 | empty |
| 5 | 146 | 0.48 | 0.78 | 22 | empty |
Interfaces
8 interfaces between chains.
- H–L · 1604 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 1553 Ų buried · 14 hydrogen bonds · protein-protein
- A–H · 441 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 427 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 417 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 4TTD · Structure of a lysozyme antibody complex · 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 4TTD · PDBe 4TTD · UniProt P00698
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