Research workbench
Two-domain laccase from streptomyces viridochromogenes at 2.4 a resolution AC629
Analyse Two-domain laccase from streptomyces viridochromogenes at 2.4 a resolution AC629 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4N8U
- Type
- protein
- Length
- 826 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multicopper oxidase
- EC
- 1.10.3.2
- UniProt
- J9S5G3
- Ligands
- CU, CL
- Pockets
- 8 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Multicopper oxidase (EC 1.10.3.2) | protein | 275 | 5% helix, 42% strand | J9S5G3 |
| B | Multicopper oxidase (EC 1.10.3.2) | protein | 276 | 5% helix, 42% strand | J9S5G3 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 9 copies · chains A, B, C
- CL · Chloride ion · ion · 6 copies · chains A, B, C
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 366 | 0.84 | 0.93 | 44 | empty |
| 2 | 67 | 0.72 | 0.98 | 20 | empty |
| 3 | 275 | 0.69 | 0.84 | 53 | empty |
| 4 | 273 | 0.66 | 0.83 | 51 | empty |
| 5 | 216 | 0.58 | 0.80 | 37 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1889 Ų buried · 33 hydrogen bonds · protein-protein
- A–B · 1823 Ų buried · 30 hydrogen bonds · protein-protein
- A–C · 1806 Ų buried · 34 hydrogen bonds · protein-protein
Compared structures
- 4N8U · Two-Domain Laccase from Streptomyces viridochromogenes at 2.4 A resolution AC629 · 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 J9S5G3
- Elsewhere: RCSB PDB 4N8U · PDBe 4N8U · UniProt J9S5G3
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