Zinc in PDB 4g2y: Crystal Structure of PDE5A Complexed with Its Inhibitor

The structure of Crystal Structure of PDE5A Complexed with Its Inhibitor, PDB code: 4g2y was solved by J.Ren, T.T.Chen, Y.C.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.38 / 2.40
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	74.790, 74.790, 132.890, 90.00, 90.00, 120.00
R / Rfree (%)	18.2 / 21.4

The structure of Crystal Structure of PDE5A Complexed with Its Inhibitor also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Crystal Structure of PDE5A Complexed with Its Inhibitor (pdb code 4g2y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of PDE5A Complexed with Its Inhibitor, PDB code: 4g2y:

Zinc binding site 1 out of 1 in the Crystal Structure of PDE5A Complexed with Its Inhibitor


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of PDE5A Complexed with Its Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:41.6 occ:1.00 NE2 A:HIS617 2.2 27.4 1.0 OD2 A:ASP654 2.2 24.0 1.0 O A:HOH1009 2.2 29.4 1.0 OD1 A:ASP764 2.2 24.8 1.0 NE2 A:HIS653 2.3 27.7 1.0 O A:HOH1065 2.4 30.8 1.0 CE1 A:HIS617 3.1 24.5 1.0 CD2 A:HIS653 3.1 22.3 1.0 CG A:ASP764 3.2 29.7 1.0 CG A:ASP654 3.2 26.4 1.0 CD2 A:HIS617 3.3 24.9 1.0 CE1 A:HIS653 3.4 26.4 1.0 OD2 A:ASP764 3.5 32.7 1.0 MG A:MG903 3.6 35.2 1.0 OD1 A:ASP654 3.7 26.2 1.0 O A:HOH1004 3.7 27.9 1.0 O A:HOH1017 4.0 32.5 1.0 CD2 A:HIS613 4.2 28.6 1.0 ND1 A:HIS617 4.2 30.0 1.0 NE2 A:HIS613 4.3 27.7 1.0 CG A:HIS653 4.3 25.7 1.0 CG A:HIS617 4.4 28.6 1.0 CB A:ASP654 4.4 25.4 1.0 ND1 A:HIS653 4.4 22.2 1.0 CB A:ASP764 4.6 27.4 1.0 O A:ASP764 4.7 28.5 1.0 O A:HOH1001 4.9 25.7 1.0 CA A:ASP764 4.9 28.3 1.0

G.Wang, Z.Liu, T.T.Chen, Z.Wang, H.Yang, M.Zheng, J.Ren, G.Tian, X.Yang, L.Li, J.Li, J.Suo, R.Zhang, X.Jiang, N.K.Terrett, J.Shen, Y.C.Xu, H.Jiang. Design, Synthesis, and Pharmacological Evaluation of Monocyclic Pyrimidinones As Novel Inhibitors of PDE5. J.Med.Chem. V. 55 10540 2012.
ISSN: ISSN 0022-2623
PubMed: 23137303
DOI: 10.1021/JM301159Y