Research workbench
Crystal structure of multi-copper oxidase from pediococcus pentosaceus
Analyse Crystal structure of multi-copper oxidase from pediococcus pentosaceus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XJ0
- Type
- protein
- Length
- 508 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multicopper oxidase mco
- EC
- 1.-.-.-
- UniProt
- A0A379CCN4
- Ligands
- C2O, CU, CL
- Pockets
- 5 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Multicopper oxidase mco (EC 1.-.-.-) | protein | 508 | 11% helix, 39% strand | A0A379CCN4 |
Ligands and binding sites
- C2O · Cu-O-Cu linkage · ligand · chains A
- CU · Copper (II) ion · metal · 2 copies · chains A
- CL · Chloride ion · ion · 2 copies · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 56 | 0.50 | 0.87 | 15 | empty |
| 2 | 126 | 0.47 | 0.78 | 21 | empty |
| 3 | 111 | 0.40 | 0.76 | 25 | empty |
| 4 | 62 | 0.34 | 0.77 | 14 | empty |
| 5 | 83 | 0.33 | 0.74 | 14 | CL |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6XJ0 · Crystal structure of multi-copper oxidase from Pediococcus pentosaceus · 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 A0A379CCN4
- Elsewhere: RCSB PDB 6XJ0 · PDBe 6XJ0 · UniProt A0A379CCN4
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