MolNFT v1 · #3744 · protein
Bovine endothelial nitric oxide synthase heme domain complexed with S- ethyl-N-phenyl-isothiourea (H4B bound)
1D1V: “Bovine endothelial nitric oxide synthase heme domain complexed with S- ethyl-N-phenyl-isothiourea (H4B bound)”. X-ray diffraction, 5 ligands (HEM, H4B, PTU), 12 pockets (best druggability 0.85). MolNFT v1 #3744 on GenesisL1: 3D…
- PDB
- 1D1V
- Type
- protein
- Length
- 830 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bovine endothelial nitric oxide synthase heme
- EC
- 1.14.13.39
- UniProt
- P29473
- Ligands
- HEM, H4B, PTU, CAD, ZN
- Pockets
- 12 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bovine endothelial nitric oxide synthase heme (EC 1.14.13.39) | protein | 416 | 39% helix, 15% strand | P29473 |
| B | Bovine endothelial nitric oxide synthase heme (EC 1.14.13.39) | protein | 414 | 39% 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
- PTU · 2-ethyl-1-phenyl-isothiourea · ligand · 2 copies · chains A, B
- CAD · Cacodylic acid · 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
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1149 | 0.85 | 0.86 | 102 | ACT, HEM, H4B, PTU, GOL |
| 2 | 1198 | 0.84 | 0.85 | 94 | ACT, HEM, H4B, PTU, GOL |
| 3 | 94 | 0.73 | 0.95 | 21 | empty |
| 4 | 302 | 0.61 | 0.79 | 48 | empty |
| 5 | 321 | 0.59 | 0.77 | 42 | empty |
Interfaces
1 interface between chains.
- A–B · 2875 Ų buried · 38 hydrogen bonds · protein-protein
Compared structures
- 1D1V · Bovine endothelial nitric oxide synthase heme domain complexed 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 1D1V · PDBe 1D1V · UniProt P29473
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