MolNFT v1 · #84127 · protein
Crystal structure of copper amine oxidase from arthrobacter globiformis in the presence of sodium bromide
3X42 · Phenylethylamine oxidase: “Crystal structure of copper amine oxidase from arthrobacter globiformis in the presence of sodium bromide”. X-ray diffraction, 4 ligands (CU, NA, K), 17 pockets (best druggability 0.89). MolNFT v1 #84127…
- PDB
- 3X42
- Type
- protein
- Length
- 1,242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phenylethylamine oxidase
- EC
- 1.4.3.21
- UniProt
- P46881
- Ligands
- CU, NA, K, BR
- Pockets
- 17 · best druggability 0.89
Structure
x-ray diffraction · 1 distinct chain · 13% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Phenylethylamine oxidase (EC 1.4.3.21) | protein | 621 | 13% helix, 43% strand | P46881 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 2 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- K · Potassium ion · metal · 2 copies · chains A, B
- BR · Bromide ion · ion · 8 copies · chains A, B
- GOL · Glycerol · additive · 13 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1027 | 0.89 | 0.91 | 132 | BR, GOL |
| 2 | 345 | 0.73 | 0.85 | 57 | empty |
| 3 | 363 | 0.70 | 0.83 | 57 | GOL |
| 4 | 324 | 0.66 | 0.81 | 39 | empty |
| 5 | 290 | 0.64 | 0.81 | 37 | empty |
Interfaces
1 interface between chains.
- A–B · 6854 Ų buried · 106 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide, 2 modified (disulfide, nonstandard).
Compared structures
- 3X42 · Crystal structure of copper amine oxidase from Arthrobacter globiformis in the presence… · 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 P46881
- Elsewhere: RCSB PDB 3X42 · PDBe 3X42 · UniProt P46881
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