Sodium in PDB 2c9v: Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase

All present enzymatic activity of Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase:
1.15.1.1;

The structure of Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase, PDB code: 2c9v was solved by R.W.Strange, S.V.Antonyuk, M.A.Hough, P.A.Doucette, J.S.Valentine, S.S.Hasnain, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.00 / 1.07
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	38.605, 67.368, 52.532, 90.00, 106.54, 90.00
R / Rfree (%)	13.1 / 15.8

The structure of Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase also contains other interesting chemical elements:

Copper	(Cu)	4 atoms
Zinc	(Zn)	2 atoms

The binding sites of Sodium atom in the Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase (pdb code 2c9v). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase, PDB code: 2c9v:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na158 b:9.7 occ:1.00 O A:HOH2163 3.1 10.7 1.0 O A:HOH2144 3.2 11.5 1.0 O A:HOH2164 3.3 12.1 1.0 CD1 A:LEU126 3.7 12.9 1.0 CD A:PRO74 4.1 10.2 1.0 CG A:PRO74 4.2 11.6 1.0 CE A:LYS75 4.2 21.1 1.0 CD2 A:LEU126 4.5 10.9 1.0 O A:HOH2058 4.7 22.2 1.0 CG A:LEU126 4.7 10.4 1.0 NZ A:LYS75 4.9 22.3 1.0 O A:HOH2147 4.9 16.2 0.5

Sodium binding site 2 out of 2 in the Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Atomic Resolution Structure of Cu-Zn Human Superoxide Dismutase within 5.0Å range: probe atom residue distance (Å) B Occ F:Na159 b:8.7 occ:1.00 O F:HOH2071 3.1 16.3 1.0 O F:HOH2169 3.1 10.5 1.0 O F:HOH2148 3.2 11.1 1.0 O F:HOH2168 3.3 11.1 1.0 CD1 F:LEU126 3.7 12.3 1.0 CD F:PRO74 4.1 9.3 1.0 CG F:PRO74 4.2 10.8 1.0 CD2 F:LEU126 4.5 10.6 1.0 CE F:LYS75 4.6 13.4 0.7 O F:HOH2063 4.7 17.8 1.0 CG F:LEU126 4.7 9.7 1.0 CD F:LYS75 4.8 12.4 0.7 NZ F:LYS75 4.9 14.6 0.7

R.W.Strange, S.V.Antonyuk, M.A.Hough, P.A.Doucette, J.S.Valentine, S.S.Hasnain. Variable Metallation of Human Superoxide Dismutase: Atomic Resolution Crystal Structures of Cu-Zn, Zn-Zn and As-Isolated Wild-Type Enzymes. J.Mol.Biol. V. 356 1152 2006.
ISSN: ISSN 0022-2836
PubMed: 16406071
DOI: 10.1016/J.JMB.2005.11.081