Magnesium in PDB 7cwg: Crystal Structure of PDE8A Catalytic Domain in Complex with 3A

Enzymatic activity of Crystal Structure of PDE8A Catalytic Domain in Complex with 3A

All present enzymatic activity of Crystal Structure of PDE8A Catalytic Domain in Complex with 3A:
3.1.4.53;

Protein crystallography data

The structure of Crystal Structure of PDE8A Catalytic Domain in Complex with 3A, PDB code: 7cwg was solved by Y.Huang, X.-N.Wu, Q.Zhou, Y.Wu, H.-B.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.35 / 2.80
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 75.797, 131.832, 101.335, 90, 90, 90
R / Rfree (%) 27.5 / 31.7

Other elements in 7cwg:

The structure of Crystal Structure of PDE8A Catalytic Domain in Complex with 3A also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Chlorine (Cl) 1 atom
Fluorine (F) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of PDE8A Catalytic Domain in Complex with 3A (pdb code 7cwg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of PDE8A Catalytic Domain in Complex with 3A, PDB code: 7cwg:

Magnesium binding site 1 out of 1 in 7cwg

Go back to Magnesium Binding Sites List in 7cwg
Magnesium binding site 1 out of 1 in the Crystal Structure of PDE8A Catalytic Domain in Complex with 3A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of PDE8A Catalytic Domain in Complex with 3A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:36.1
occ:1.00
O A:HOH1025 2.0 14.8 1.0
OD1 A:ASP597 2.4 28.0 1.0
O A:HOH1040 2.5 8.3 1.0
O A:HOH1001 2.8 22.8 1.0
O A:HOH1006 3.1 17.7 1.0
CG A:ASP597 3.4 28.4 1.0
ZN A:ZN901 3.5 35.5 1.0
OD2 A:ASP597 3.8 28.9 1.0
OE2 A:GLU626 3.9 31.0 1.0
NE2 A:HIS600 4.0 27.5 1.0
CD2 A:HIS600 4.3 27.4 1.0
OG1 A:THR668 4.4 38.2 1.0
O A:HIS596 4.4 29.3 1.0
NE2 A:HIS556 4.4 32.7 1.0
NE2 A:HIS629 4.5 28.9 1.0
CB A:THR668 4.7 39.1 1.0
OD2 A:ASP726 4.7 31.0 1.0
CD2 A:HIS629 4.7 28.7 1.0
CB A:ASP597 4.7 28.6 1.0
CD A:GLU626 4.8 30.8 1.0
O A:THR668 4.9 40.1 1.0
CD2 A:HIS556 5.0 32.4 1.0
CD2 A:HIS596 5.0 29.0 1.0

Reference:

Y.Huang, X.-N.Wu, Q.Zhou, Y.Wu, H.-B.Luo. Discovery of Highly Selective and Orally Bioavailable Phosphodiesterase-8A Inhibitors. Structure-Activity Relationship, Crystal Structures, and in Vivo Studies To Be Published.
Page generated: Fri Sep 24 15:12:51 2021

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