Zinc in PDB 9cxh: Structure of PDE6C in Complex with the Rod Inhibitory P Gamma Subunit in the Presence of Cgmp

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

The structure of Structure of PDE6C in Complex with the Rod Inhibitory P Gamma Subunit 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 the Rod Inhibitory P Gamma Subunit in the Presence of Cgmp (pdb code 9cxh). 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 the Rod Inhibitory P Gamma Subunit in the Presence of Cgmp, PDB code: 9cxh:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of PDE6C in Complex with the Rod Inhibitory P Gamma Subunit 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 the Rod Inhibitory P Gamma Subunit in the Presence of Cgmp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:119.9 occ:1.00 O3P A:5GP904 1.9 103.4 1.0 OD2 A:ASP603 1.9 74.5 1.0 OD1 A:ASP723 2.1 96.6 1.0 NE2 A:HIS602 2.3 75.2 1.0 NE2 A:HIS566 2.3 82.3 1.0 P A:5GP904 3.0 111.0 1.0 CD2 A:HIS602 3.0 72.9 1.0 CG A:ASP603 3.0 80.6 1.0 CG A:ASP723 3.1 90.2 1.0 CD2 A:HIS566 3.2 78.8 1.0 O2P A:5GP904 3.3 95.9 1.0 CE1 A:HIS566 3.3 80.9 1.0 CE1 A:HIS602 3.3 78.6 1.0 OD2 A:ASP723 3.4 86.6 1.0 OD1 A:ASP603 3.7 82.0 1.0 O1P A:5GP904 4.0 116.4 1.0 CB A:ASP603 4.0 75.1 1.0 O5' A:5GP904 4.2 104.5 1.0 CG A:HIS602 4.2 65.7 1.0 ND1 A:HIS602 4.3 80.3 1.0 ND1 A:HIS566 4.3 79.2 1.0 CG A:HIS566 4.3 75.8 1.0 CB A:ASP723 4.5 81.5 1.0 CG2 A:VAL570 4.5 76.8 1.0 C5' A:5GP904 4.6 98.4 1.0 CG2 A:THR672 4.7 80.6 1.0 O A:ASP723 4.8 87.7 1.0 MG A:MG903 4.8 62.1 1.0 CA A:ASP723 4.8 78.4 1.0 CD2 A:HIS562 4.9 84.8 1.0

Zinc binding site 2 out of 2 in the Structure of PDE6C in Complex with the Rod Inhibitory P Gamma Subunit 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 the Rod Inhibitory P Gamma Subunit in the Presence of Cgmp within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn902 b:134.4 occ:1.00 O3P B:5GP904 2.0 96.1 1.0 OD2 B:ASP603 2.0 70.1 1.0 OD2 B:ASP723 2.3 100.7 1.0 NE2 B:HIS602 2.3 80.8 1.0 NE2 B:HIS566 2.3 81.9 1.0 CG B:ASP723 2.8 93.3 1.0 OD1 B:ASP723 2.8 99.0 1.0 P B:5GP904 3.0 118.4 1.0 CD2 B:HIS602 3.0 77.9 1.0 CG B:ASP603 3.1 80.2 1.0 CE1 B:HIS566 3.1 80.5 1.0 O2P B:5GP904 3.2 105.2 1.0 CD2 B:HIS566 3.4 76.8 1.0 CE1 B:HIS602 3.4 82.0 1.0 OD1 B:ASP603 3.7 83.2 1.0 O1P B:5GP904 3.9 112.0 1.0 CB B:ASP723 4.1 82.2 1.0 O5' B:5GP904 4.2 111.9 1.0 CG B:HIS602 4.2 70.9 1.0 CB B:ASP603 4.3 71.0 1.0 ND1 B:HIS566 4.3 73.4 1.0 C5' B:5GP904 4.4 96.0 1.0 ND1 B:HIS602 4.4 77.3 1.0 CG B:HIS566 4.5 72.1 1.0 MG B:MG903 4.5 54.0 1.0 CG2 B:VAL570 4.5 74.8 1.0 CA B:ASP723 4.6 78.3 1.0 CD2 B:HIS562 4.9 83.2 1.0 O B:ASP723 4.9 85.8 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