MolNFT v1 · #23236 · protein
Crystal structure of bovine plasma copper-containing amine oxidase
1TU5 · Copper amine oxidase, liver isozyme: “Crystal structure of bovine plasma copper-containing amine oxidase”. X-ray diffraction, 4 ligands (NAG, CA, CU), 13 pockets (best druggability 0.87). MolNFT v1 #23236 on GenesisL1: 3D structure…
- PDB
- 1TU5
- Type
- protein
- Length
- 1,266 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Copper amine oxidase, liver isozyme
- EC
- 1.4.3.6
- UniProt
- Q29437
- Ligands
- NAG, CA, CU, CL
- Pockets
- 13 · best druggability 0.87
Structure
x-ray diffraction · 1 distinct chain · 17% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Copper amine oxidase, liver isozyme (EC 1.4.3.6) | protein | 633 | 17% helix, 44% strand | Q29437 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 9 copies · chains A, B
- CA · Calcium ion · metal · 4 copies · chains A, B
- CU · Copper (II) ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1185 | 0.87 | 0.88 | 112 | CL |
| 2 | 208 | 0.82 | 0.96 | 34 | empty |
| 3 | 409 | 0.78 | 0.87 | 47 | empty |
| 4 | 401 | 0.77 | 0.87 | 48 | empty |
| 5 | 85 | 0.76 | 0.98 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 5598 Ų buried · 108 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 glycan, 4 disulfide, 2 modified (N-glycosylation, disulfide, nonstandard).
Compared structures
- 1TU5 · Crystal structure of bovine plasma copper-containing amine oxidase · the same entry in another collection · chain A against A, TM-score 1.00
- Q29437 · AlphaFold monomer V2.0 prediction for primary amine oxidase, liver isozyme (Q29437) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q29437
- Elsewhere: RCSB PDB 1TU5 · PDBe 1TU5 · UniProt Q29437
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