Research workbench
Structure of bovine endothelial nitric oxide synthase heme domain in complex with 6-(2-(5-(3-(DIMETHYLAMINO)PROPYL) pyridin-3-YL)ETHYL)-4-methylpyridin-2-amine
Analyse Structure of bovine endothelial nitric oxide synthase heme domain in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5FVZ
- Type
- protein
- Length
- 808 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endothelial nitric oxide synthase
- EC
- 1.14.13.39
- UniProt
- P29473
- Ligands
- HEM, H4B, W67, ZN, CL
- Pockets
- 9 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endothelial nitric oxide synthase (EC 1.14.13.39) | protein | 405 | 40% helix, 16% strand | P29473 |
| B | Endothelial nitric oxide synthase (EC 1.14.13.39) | protein | 403 | 40% helix, 15% strand | P29473 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- H4B · 5,6,7,8-tetrahydrobiopterin · ligand · 2 copies · chains A, B
- W67 · 6-(2-(5-(3-(dimethylamino)propyl)pyridin-3-yl)ethyl)-4-methylpyridin-2-amine · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1103 | 0.85 | 0.86 | 95 | HEM, H4B, W67, GOL, CL |
| 2 | 1176 | 0.83 | 0.84 | 86 | HEM, H4B, W67, GOL, CL |
| 3 | 98 | 0.55 | 0.84 | 19 | empty |
| 4 | 98 | 0.55 | 0.85 | 19 | empty |
| 5 | 107 | 0.45 | 0.79 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 2928 Ų buried · 41 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 5FVZ · Structure of bovine endothelial nitric oxide synthase heme domain in complex with… · the same entry in another collection · 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 P29473
- Elsewhere: RCSB PDB 5FVZ · PDBe 5FVZ · UniProt P29473
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.