MolNFT v1 · #114128 · protein
Crystal structure of P450BM3 mutant with N-perfluoroheptanoyl-L- tryptophan
5B2X · Bifunctional cytochrome P450/NADPH--P450 reductase: “Crystal structure of P450BM3 mutant with N-perfluoroheptanoyl-L- tryptophan”. X-ray diffraction, 2 ligands (HEM, W0T), 10 pockets (best druggability 0.86). MolNFT v1 #114128 on…
- PDB
- 5B2X
- Type
- protein
- Length
- 906 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bifunctional cytochrome P450/NADPH--P450 reductase
- EC
- 1.14.14.1, 1.6.2.4
- UniProt
- P14779
- Ligands
- HEM, W0T
- Pockets
- 10 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 55% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bifunctional cytochrome P450/NADPH--P450 reductase (EC 1.14.14.1, 1.6.2.4) | protein | 453 | 55% helix, 11% strand | P14779 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- W0T · (2~{S})-3-(1~{H}-indol-3-yl)-2-[2,2,3,3,4,4,5,5,6,6,7,7,7-tridecakis(fluoranyl)heptanoylamino]propanoic acid · ligand · chains A
- DMS · Dimethyl sulfoxide · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1109 | 0.86 | 0.87 | 112 | HEM, DMS |
| 2 | 1095 | 0.86 | 0.86 | 113 | HEM, W0T, DMS |
| 3 | 286 | 0.57 | 0.77 | 32 | empty |
| 4 | 285 | 0.54 | 0.76 | 32 | empty |
| 5 | 140 | 0.51 | 0.80 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 876 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5B2X · Crystal Structure of P450BM3 mutant with N-perfluoroheptanoyl-L-tryptophan · the same entry in another collection · chain A against A, TM-score 1.00
- P14779 · AlphaFold monomer V2.0 prediction for bifunctional cytochrome P450/NADPH--P450 reductase… · a predicted model of the same protein · chain B 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 P14779
- Elsewhere: RCSB PDB 5B2X · PDBe 5B2X · UniProt P14779
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