MolNFT v1 · #4810 · protein
Putative oxo complex of P450CAM from pseudomonas putida
1DZ9 · Cytochrome P450-cam: “Putative oxo complex of P450CAM from pseudomonas putida”. X-ray diffraction, 4 ligands (HEM, CAM, K), 4 pockets (best druggability 0.87). MolNFT v1 #4810 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 1DZ9
- Type
- protein
- Length
- 809 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome P450-cam
- UniProt
- P00183
- Ligands
- HEM, CAM, K, O
- Pockets
- 4 · best druggability 0.87
Structure
x-ray diffraction · 2 distinct chains · 52% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytochrome P450-cam | protein | 404 | 52% helix, 11% strand | P00183 |
| B | Cytochrome P450-cam | protein | 405 | 53% helix, 11% strand | P00183 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- CAM · Camphor · ligand · 2 copies · chains A, B
- K · Potassium ion · metal · 3 copies · chains A, B
- O · Oxygen atom · ion · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 435 | 0.87 | 0.94 | 47 | HEM, O, CAM |
| 2 | 427 | 0.86 | 0.94 | 48 | HEM, CAM |
| 3 | 783 | 0.71 | 0.77 | 65 | TRS |
| 4 | 68 | 0.32 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 335 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
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 1DZ9 · PDBe 1DZ9 · UniProt P00183
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