MolNFT v1 · #432 · protein
Type-2 cu-depleted laccase from coprinus cinereus
1A65: “Type-2 cu-depleted laccase from coprinus cinereus”. X-ray diffraction, 4 ligands (PYE, NAG, CU), 5 pockets (best druggability 0.53). MolNFT v1 #432 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1A65
- Type
- protein
- Length
- 504 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Laccase
- EC
- 1.10.3.2
- UniProt
- Q9Y780
- Ligands
- PYE, NAG, CU, O
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 13% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Laccase (EC 1.10.3.2) | protein | 504 | 13% helix, 38% strand | Q9Y780 |
Ligands and binding sites
- PYE · Tetrahydropyran · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- CU · Copper (II) ion · metal · 3 copies · chains A
- O · Oxygen atom · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 193 | 0.53 | 0.78 | 26 | empty |
| 2 | 225 | 0.52 | 0.77 | 34 | empty |
| 3 | 101 | 0.47 | 0.80 | 18 | empty |
| 4 | 112 | 0.44 | 0.78 | 15 | empty |
| 5 | 69 | 0.31 | 0.74 | 23 | empty |
Modifications
Observed in the structure: 2 disulfide, 1 covalent, 1 glycan (disulfide, covalent ligand, N-glycosylation).
Compared structures
- 1A65 · Type-2 cu-depleted laccase from coprinus cinereus · 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 Q9Y780
- Elsewhere: RCSB PDB 1A65 · PDBe 1A65 · UniProt Q9Y780
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