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Structure of rat neuronal nitric oxide synthase D597N mutant heme domain in complex with N1-{(3'S,4'S)-4'-[(6"-amino-4"-methylpyridin- 2"-YL)METHYL]PYRROLIDIN-3'-yl}-N2-(3'-FLUOROPHENETHYL)ETHANE-1,2- diamine

Analyse Structure of rat neuronal nitric oxide synthase D597N mutant heme domain in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
3JX0
Type
protein
Length
817 residues
Chains
2
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Nitric oxide synthase, brain
EC
1.14.13.39
UniProt
P29476
Ligands
HEM, H4B, JI4, ZN
Pockets
10 · best druggability 0.84

Structure

x-ray diffraction · 2 distinct chains · 41% helix, 15% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
ANitric oxide synthase, brain (EC 1.14.13.39)protein40741% helix, 15% strandP29476
BNitric oxide synthase, brain (EC 1.14.13.39)protein41041% helix, 16% strandP29476

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
  • JI4 · N-{(3S,4S)-4-[(6-amino-4-methylpyridin-2-yl)methyl]pyrrolidin-3-yl}-N'-[2-(3-fluorophenyl)ethyl]ethane-1,2-diamine · ligand · 2 copies · chains A, B
  • ZN · Zinc ion · metal · chains A, B
  • ACT · Acetate ion · additive · 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

10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
111920.840.85101HEM, H4B, JI4, ACT, GOL
211870.840.8488HEM, H4B, JI4, ACT, GOL
31010.440.7826empty
4840.390.7714empty
5790.380.7718empty

Interfaces

1 interface between chains.

  • A–B · 2738 Ų buried · 45 hydrogen bonds · protein-protein

Compared structures

  • 3JX0 · Structure of rat neuronal nitric oxide synthase D597N mutant heme domain in complex with… · the same entry in another collection · chain A against A, TM-score 1.00

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