MolNFT v1 · #20453 · protein
Crystal structure of cytochrome P450-cam with a fluorescent probe D-4- ad (adamantane-1-carboxylic acid-5-dimethylamino-naphthalene-1- sulfonylamino-butyl-amide)
1RF9: “Crystal structure of cytochrome P450-cam with a fluorescent probe D-4- ad (adamantane-1-carboxylic…”. X-ray diffraction, 2 ligands (HEM, DBR), 2 pockets (best druggability 0.84). MolNFT v1 #20453 on GenesisL1: 3D structure, binding…
- PDB
- 1RF9
- Type
- protein
- Length
- 404 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome P450-cam
- EC
- 1.14.15.1
- UniProt
- P00183
- Ligands
- HEM, DBR
- Pockets
- 2 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytochrome P450-cam (EC 1.14.15.1) | protein | 404 | 50% helix, 11% strand | P00183 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- DBR · Adamantane-1-carboxylic acid-5-dimethylamino-naphthalene-1-sulfonylamino-butyl-amide · ligand · chains A
- EDO · 1,2-ethanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 831 | 0.84 | 0.86 | 83 | HEM, DBR |
| 2 | 79 | 0.35 | 0.76 | 19 | empty |
Compared structures
- 1RF9 · Crystal structure of cytochrome P450-cam with a fluorescent probe D-4-AD… · the same entry in another collection · chain A against A, TM-score 1.00
- P00183 · AlphaFold monomer V2.0 prediction for camphor 5-monooxygenase (P00183) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P00183
- Elsewhere: RCSB PDB 1RF9 · PDBe 1RF9 · UniProt P00183
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