MolNFT v1 · #113376 · protein
Structure of bovine endothelial nitric oxide synthase heme domain in complex with 7-((3-(METHYLAMINO)METHYL)PHENOXY) METHYL)QUINOLIN-2-amine
5ADL: “Structure of bovine endothelial nitric oxide synthase heme domain in complex with…”. X-ray diffraction, 4 ligands (HEM, H4B, M85), 11 pockets (best druggability 0.84). MolNFT v1 #113376 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5ADL
- Type
- protein
- Length
- 810 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, M85, ZN
- Pockets
- 11 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endothelial nitric oxide synthase (EC 1.14.13.39) | protein | 406 | 40% helix, 15% strand | P29473 |
| B | Endothelial nitric oxide synthase (EC 1.14.13.39) | protein | 404 | 41% 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
- M85 · 7-[[3-(methylaminomethyl)phenoxy]methyl]quinolin-2-amine · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · chains A, B
- ACT · Acetate ion · additive · 4 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
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1119 | 0.84 | 0.85 | 103 | HEM, H4B, M85, ACT, GOL |
| 2 | 1173 | 0.83 | 0.84 | 82 | HEM, H4B, M85, ACT, GOL |
| 3 | 85 | 0.71 | 0.95 | 22 | empty |
| 4 | 97 | 0.54 | 0.84 | 19 | empty |
| 5 | 93 | 0.53 | 0.84 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 2882 Ų buried · 41 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 5ADL · Structure of bovine endothelial nitric oxide synthase heme domain in complex with… · the same entry in another collection · chain B against B, 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 5ADL · PDBe 5ADL · UniProt P29473
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