MolNFT v1 · #76588 · protein
Probing oxygen channels in melanocarpus albomyces laccase
3QPK · Laccase-1: “Probing oxygen channels in melanocarpus albomyces laccase”. X-ray diffraction, 5 ligands (NAG, CU, XE), 14 pockets (best druggability 0.85). MolNFT v1 #76588 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3QPK
- Type
- protein
- Length
- 1,118 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Laccase-1
- EC
- 1.10.3.2
- UniProt
- Q70KY3
- Ligands
- NAG, CU, XE, CL, SO4
- Pockets
- 14 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 12% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Laccase-1 (EC 1.10.3.2) | protein | 559 | 12% helix, 38% strand | Q70KY3 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 19 copies · chains A, B
- CU · Copper (II) ion · metal · 8 copies · chains A, B
- XE · Xenon · ion · 6 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 548 | 0.85 | 0.90 | 73 | empty |
| 2 | 96 | 0.76 | 0.97 | 24 | empty |
| 3 | 97 | 0.76 | 0.96 | 23 | empty |
| 4 | 766 | 0.68 | 0.76 | 83 | NAG |
| 5 | 98 | 0.57 | 0.86 | 31 | empty |
Interfaces
1 interface between chains.
- A–B · 702 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 glycan, 6 disulfide (N-glycosylation, disulfide).
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 Q70KY3
- Elsewhere: RCSB PDB 3QPK · PDBe 3QPK · UniProt Q70KY3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.