Zinc in PDB 9cxg: Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp

All present enzymatic activity of Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp:
3.1.4.35;

The structure of Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp (pdb code 9cxg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp, PDB code: 9cxg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:81.6 occ:1.00 OD2 A:ASP603 2.0 32.1 1.0 OD1 A:ASP723 2.0 58.9 1.0 O3P A:5GP904 2.0 53.2 1.0 NE2 A:HIS602 2.0 33.3 1.0 NE2 A:HIS566 2.0 30.0 1.0 CD2 A:HIS602 2.8 32.3 1.0 CE1 A:HIS566 3.0 25.2 1.0 CG A:ASP723 3.0 46.4 1.0 CD2 A:HIS566 3.0 32.1 1.0 CG A:ASP603 3.1 40.9 1.0 CE1 A:HIS602 3.1 24.4 1.0 P A:5GP904 3.2 62.0 1.0 OD2 A:ASP723 3.4 39.6 1.0 O2P A:5GP904 3.5 58.6 1.0 OD1 A:ASP603 3.6 55.0 1.0 CG A:HIS602 4.0 21.9 1.0 ND1 A:HIS566 4.1 26.1 1.0 ND1 A:HIS602 4.1 17.5 1.0 CG A:HIS566 4.2 21.6 1.0 O1P A:5GP904 4.2 61.3 1.0 CB A:ASP603 4.3 30.2 1.0 CG2 A:VAL570 4.3 23.3 1.0 O5' A:5GP904 4.3 51.2 1.0 CB A:ASP723 4.4 34.8 1.0 CA A:ASP723 4.7 30.6 1.0 C5' A:5GP904 4.7 48.9 1.0 CG2 A:THR672 4.7 36.3 1.0 MG A:MG903 4.9 30.5 1.0 O A:ASP723 4.9 47.5 1.0

Zinc binding site 2 out of 2 in the Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of PDE6C in Complex with Inhibitory Cone P Gamma in the Presence of Cgmp within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn902 b:80.0 occ:1.00 OD2 B:ASP603 2.0 37.7 1.0 OD2 B:ASP723 2.0 58.4 1.0 NE2 B:HIS566 2.1 29.1 1.0 NE2 B:HIS602 2.1 39.5 1.0 O3P B:5GP904 2.3 51.1 1.0 CD2 B:HIS602 2.8 32.8 1.0 CD2 B:HIS566 2.9 32.2 1.0 O2P B:5GP904 3.0 55.5 1.0 CG B:ASP723 3.0 58.3 1.0 P B:5GP904 3.1 61.1 1.0 CE1 B:HIS566 3.1 32.8 1.0 CG B:ASP603 3.2 40.1 1.0 CE1 B:HIS602 3.2 30.2 1.0 OD1 B:ASP723 3.6 63.7 1.0 OD1 B:ASP603 3.8 38.3 1.0 CG B:HIS602 4.0 20.8 1.0 CG B:HIS566 4.1 30.2 1.0 CB B:ASP723 4.2 45.1 1.0 ND1 B:HIS566 4.2 34.2 1.0 ND1 B:HIS602 4.2 22.2 1.0 O1P B:5GP904 4.2 58.0 1.0 O5' B:5GP904 4.3 49.0 1.0 CB B:ASP603 4.3 33.4 1.0 CG2 B:VAL570 4.4 21.6 1.0 C5' B:5GP904 4.4 40.8 1.0 MG B:MG903 4.7 31.2 1.0 CG2 B:THR672 4.7 41.8 1.0 CA B:ASP723 4.7 40.8 1.0 CD2 B:HIS562 4.9 38.8 1.0

S.Singh, D.Srivastava, K.Boyd, N.Artemyev. Structural and Functional Dynamics of Human Cone Cgmp-Phosphodiesterase Important For Photopic Vision Proc.Natl.Acad.Sci.Usa 2025.
ISSN: ESSN 1091-6490