Research workbench
Crystal structure of gcoa F169S bound to O-vanillin
Analyse Crystal structure of gcoa F169S bound to O-vanillin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YCO
- Type
- protein
- Length
- 403 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aromatic O-demethylase, cytochrome P450 subunit
- EC
- 1.14.14.-
- UniProt
- P0DPQ7
- Ligands
- HEM, OKE
- Pockets
- 4 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 56% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Aromatic O-demethylase, cytochrome P450 subunit (EC 1.14.14.-) | protein | 403 | 56% helix, 11% strand | P0DPQ7 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- OKE · 2-(hydroxymethyl)-6-methoxy-phenol · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 404 | 0.86 | 0.94 | 56 | HEM, OKE |
| 2 | 93 | 0.39 | 0.77 | 16 | empty |
| 3 | 75 | 0.34 | 0.75 | 17 | empty |
| 4 | 93 | 0.33 | 0.73 | 16 | empty |
Compared structures
- 6YCO · Crystal structure of GcoA F169S bound to o-vanillin · the same entry in another collection · chain A against A, TM-score 1.00
- P0DPQ7 · AlphaFold monomer V2.0 prediction for aromatic O-demethylase, cytochrome P450 subunit… · a predicted model of the same protein · 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 P0DPQ7
- Elsewhere: RCSB PDB 6YCO · PDBe 6YCO · UniProt P0DPQ7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.