MolNFT v1 · #122204 · protein
Monoclinic crystal structure of red abalone lysin at 2.11 a resolution
5II9 · Egg-lysin: “Monoclinic crystal structure of red abalone lysin at 2.11 a resolution”. X-ray diffraction, 4 pockets (best druggability 0.72). MolNFT v1 #122204 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5II9
- Type
- protein
- Length
- 784 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Egg-lysin
- UniProt
- P04552
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F | Egg-lysin | protein | 131 | 73% helix, 0% strand | P04552 |
| C, D | Egg-lysin | protein | 130 | 71% helix, 0% strand | P04552 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 585 | 0.72 | 0.80 | 59 | empty |
| 2 | 737 | 0.71 | 0.77 | 47 | empty |
| 3 | 246 | 0.65 | 0.82 | 31 | empty |
| 4 | 167 | 0.39 | 0.72 | 22 | empty |
Interfaces
4 interfaces between chains.
- A–E · 801 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 797 Ų buried · 9 hydrogen bonds · protein-protein
- D–E · 205 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 48 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
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 P04552
- Elsewhere: RCSB PDB 5II9 · PDBe 5II9 · UniProt P04552
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