Research workbench
Structure of reaction intermediate of cytochrome P450 no reductase (P450NOR) determined by xfel
Analyse Structure of reaction intermediate of cytochrome P450 no reductase (P450NOR)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7DVO
- Type
- protein
- Length
- 798 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NADP nitrous oxide-forming nitric oxide reductase
- EC
- 1.7.1.14
- UniProt
- P23295
- Ligands
- HEM, NO
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | NADP nitrous oxide-forming nitric oxide reductase (EC 1.7.1.14) | protein | 399 | 53% helix, 10% strand | P23295 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- NO · Nitric oxide · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1072 | 0.83 | 0.84 | 92 | HEM, NO, GOL |
| 2 | 1074 | 0.80 | 0.82 | 87 | HEM, NO, GOL |
| 3 | 278 | 0.55 | 0.77 | 35 | empty |
| 4 | 51 | 0.39 | 0.81 | 14 | empty |
| 5 | 74 | 0.37 | 0.77 | 12 | GOL |
Interfaces
1 interface between chains.
- A–B · 444 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7DVO · Structure of Reaction Intermediate of Cytochrome P450 NO Reductase (P450nor) Determined… · the same entry in another collection · chain A against A, TM-score 1.00
- P23295 · AlphaFold monomer V2.0 prediction for NADP nitrous oxide-forming nitric oxide reductase… · 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 P23295
- Elsewhere: RCSB PDB 7DVO · PDBe 7DVO · UniProt P23295
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