Zinc in PDB 5jo3: PDE5A For NAV1.7

All present enzymatic activity of PDE5A For NAV1.7:
3.1.4.35;

The structure of PDE5A For NAV1.7, PDB code: 5jo3 was solved by I.Storer, J.Chrencik, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.00 / 1.49
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	55.840, 76.100, 80.920, 90.00, 102.56, 90.00
R / Rfree (%)	18 / 20.1

The structure of PDE5A For NAV1.7 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Zinc atom in the PDE5A For NAV1.7 (pdb code 5jo3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the PDE5A For NAV1.7, PDB code: 5jo3:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the PDE5A For NAV1.7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of PDE5A For NAV1.7 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn901 b:11.2 occ:1.00 NE2 B:HIS617 2.1 11.5 1.0 OD2 B:ASP654 2.1 9.8 1.0 OD2 B:ASP764 2.1 10.9 1.0 NE2 B:HIS653 2.1 9.8 1.0 O B:HOH1086 2.2 15.2 1.0 O B:HOH1041 2.4 21.9 1.0 CD2 B:HIS653 3.0 9.8 1.0 CG B:ASP764 3.0 11.2 1.0 CD2 B:HIS617 3.1 10.5 1.0 CE1 B:HIS617 3.1 9.3 1.0 CG B:ASP654 3.2 9.0 1.0 CE1 B:HIS653 3.2 8.8 1.0 OD1 B:ASP764 3.4 15.9 1.0 OD1 B:ASP654 3.6 9.8 1.0 ZN B:ZN902 3.8 21.8 1.0 CD2 B:HIS613 4.0 10.6 1.0 O B:HOH1172 4.1 18.3 1.0 CG B:HIS653 4.2 8.8 1.0 ND1 B:HIS617 4.2 11.1 1.0 CG B:HIS617 4.2 8.1 1.0 ND1 B:HIS653 4.2 8.6 1.0 NE2 B:HIS613 4.2 13.1 1.0 CB B:ASP654 4.4 7.1 1.0 CB B:ASP764 4.4 8.4 1.0 O B:HOH1100 4.4 17.4 1.0 OG1 B:THR621 4.7 8.1 1.0 O B:HOH1027 4.7 12.6 1.0 CA B:ASP764 4.8 8.2 1.0 O B:ASP764 4.9 9.4 1.0

Zinc binding site 2 out of 2 in the PDE5A For NAV1.7


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of PDE5A For NAV1.7 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn902 b:21.8 occ:1.00 O B:HOH1086 2.0 15.2 1.0 O B:HOH1172 2.0 18.3 1.0 O B:HOH1029 2.2 14.2 1.0 O B:HOH1027 2.2 12.6 1.0 OD1 B:ASP654 2.2 9.8 1.0 O B:HOH1120 2.2 11.8 1.0 CG B:ASP654 3.2 9.0 1.0 OD2 B:ASP654 3.5 9.8 1.0 ZN B:ZN901 3.8 11.2 1.0 O B:HOH1041 4.0 21.9 1.0 OE2 B:GLU682 4.1 11.9 1.0 O B:HOH1244 4.1 15.7 1.0 NE2 B:HIS685 4.1 8.8 1.0 OG1 B:THR723 4.2 9.6 1.0 O B:THR723 4.2 10.3 1.0 CD2 B:HIS653 4.2 9.8 1.0 O B:HIS653 4.4 8.2 1.0 CD2 B:HIS657 4.4 7.6 1.0 CD2 B:HIS685 4.4 7.3 1.0 NE2 B:HIS613 4.5 13.1 1.0 OD1 B:ASP764 4.5 15.9 1.0 CB B:ASP654 4.6 7.1 1.0 O B:HOH1025 4.6 25.6 1.0 CD2 B:HIS613 4.6 10.6 1.0 NE2 B:HIS657 4.6 7.2 1.0 CB B:THR723 4.6 9.4 1.0 NE2 B:HIS653 4.7 9.8 1.0 CG B:GLU682 4.8 9.1 1.0 C B:THR723 4.9 9.0 1.0 CD B:GLU682 4.9 10.1 1.0 CA B:ASP654 4.9 7.6 1.0 O B:HOH1236 5.0 14.0 1.0

A.Bell, A.Bent, P.Bradley, P.Erdman, M.De Groot, R.Lewthwaite, I.Marsh, S.Ransley, N.Sciammetta, R.Smith, N.Swain, R.Torella, I.Storer. PDE5A For NAV1.7 To Be Published.