Fluorine in PDB 7vsl: Crystal Structure of PDE8A Catalytic Domain in Complex with 10

All present enzymatic activity of Crystal Structure of PDE8A Catalytic Domain in Complex with 10:
3.1.4.53;

The structure of Crystal Structure of PDE8A Catalytic Domain in Complex with 10, PDB code: 7vsl was solved by X.-N.Wu, Q.Zhou, Y.-D.Huang, Z.Li, Y.Wu, H.-B.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.19 / 2.50
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	76.089, 131.662, 101.507, 90, 90, 90
R / Rfree (%)	22.5 / 25.9

The structure of Crystal Structure of PDE8A Catalytic Domain in Complex with 10 also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	1 atom
Zinc	(Zn)	1 atom

The binding sites of Fluorine atom in the Crystal Structure of PDE8A Catalytic Domain in Complex with 10 (pdb code 7vsl). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Crystal Structure of PDE8A Catalytic Domain in Complex with 10, PDB code: 7vsl:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in the Crystal Structure of PDE8A Catalytic Domain in Complex with 10


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of PDE8A Catalytic Domain in Complex with 10 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:48.1 occ:1.00 F22 A:7XI903 0.0 48.1 1.0 C21 A:7XI903 1.4 47.6 1.0 F23 A:7XI903 2.2 49.1 1.0 C20 A:7XI903 2.4 47.1 1.0 O19 A:7XI903 2.6 45.7 1.0 ND1 A:HIS673 3.4 40.7 1.0 CB A:HIS673 3.4 41.1 1.0 CG A:HIS673 3.6 40.6 1.0 NZ A:LYS723 3.7 28.5 1.0 CA A:MET670 3.7 42.4 1.0 C17 A:7XI903 3.9 43.7 1.0 O A:MET670 4.0 42.0 1.0 CG A:MET670 4.1 46.2 1.0 CD1 A:PHE785 4.2 41.6 1.0 O A:HOH1011 4.2 37.5 1.0 O A:HOH1002 4.2 30.8 1.0 CA A:HIS673 4.3 41.3 1.0 CB A:MET670 4.3 44.5 1.0 O A:HOH1030 4.4 32.2 1.0 C A:MET670 4.4 42.3 1.0 CE1 A:PHE785 4.4 41.8 1.0 CE1 A:HIS673 4.4 40.7 1.0 C16 A:7XI903 4.5 43.3 1.0 O A:GLU669 4.5 38.5 1.0 N A:MET670 4.6 40.4 1.0 O A:THR668 4.6 33.9 1.0 CD2 A:HIS673 4.8 40.5 1.0 C A:GLU669 4.8 39.1 1.0 N A:HIS673 4.9 42.0 1.0 C18 A:7XI903 5.0 42.8 1.0

Fluorine binding site 2 out of 2 in the Crystal Structure of PDE8A Catalytic Domain in Complex with 10


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of PDE8A Catalytic Domain in Complex with 10 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:49.1 occ:1.00 F23 A:7XI903 0.0 49.1 1.0 C21 A:7XI903 1.4 47.6 1.0 F22 A:7XI903 2.2 48.1 1.0 C20 A:7XI903 2.4 47.1 1.0 O19 A:7XI903 2.8 45.7 1.0 O A:THR668 2.9 33.9 1.0 CA A:MET670 3.3 42.4 1.0 O A:HOH1030 3.3 32.2 1.0 N A:MET670 3.5 40.4 1.0 C17 A:7XI903 3.7 43.7 1.0 CB A:MET670 3.8 44.5 1.0 C A:GLU669 3.9 39.1 1.0 C A:THR668 4.0 34.3 1.0 O A:GLU669 4.1 38.5 1.0 CG A:MET670 4.2 46.2 1.0 C18 A:7XI903 4.3 42.8 1.0 O A:HOH1002 4.5 30.8 1.0 O A:HOH1011 4.5 37.5 1.0 C16 A:7XI903 4.5 43.3 1.0 C A:MET670 4.5 42.3 1.0 CA A:GLU669 4.7 38.2 1.0 NZ A:LYS723 4.7 28.5 1.0 N A:GLU669 4.8 36.3 1.0 O A:HOH1052 4.8 31.7 1.0 O A:MET670 4.8 42.0 1.0 CA A:THR668 4.9 33.0 1.0

X.-N.Wu, Q.Zhou, Y.-D.Huang, Z.Li, Y.Wu, H.-B.Luo. Structure-Based Discovery of Orally Efficient PDE8 Inhibitors For the Treatment of Vascular Dementia To Be Published.