Sodium in the structure of Human Glucokinase in Complex With 2-Amino Benzamide Activator (pdb 3fr0)

The binding sites of Sodium atom in the structure of Human Glucokinase in Complex With 2-Amino Benzamide Activator (pdb code 3fr0). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3fr0 structure was solved by K.KAMATA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 40.1-2.7 Space group P6522 a (A) 80.147 b (A) 80.147 c (A) 323.170 alpha (°) 90.00 beta (°) 90.00 gamma (°) 120.00 Rfactor (%) 22.2 Rfree (%) 28.2 Sodium Binding Sites: Sodium binding site 1 out of 1 in 3fr0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3fr0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Met238, A: Gln239, A: Asn240, A: Val241, A: Glu242, A: Val244, A: Glu245, A: Gly246, A: Asp247, conact list: Atom Atom Distance (A) Na O A:Met238 2.61 Na CB A:Met238 4.77 Na CE A:Met238 3.99 Na C A:Met238 3.57 Na CA A:Met238 4.61 Na O A:Gln239 4.53 Na N A:Gln239 4.19 Na C A:Gln239 4.35 Na CA A:Gln239 4.02 Na N A:Asn240 5.00 Na O A:Val241 2.78 Na N A:Val241 4.52 Na CB A:Val241 4.62 Na C A:Val241 3.67 Na CA A:Val241 4.50 Na N A:Glu242 4.42 Na C A:Glu242 4.88 Na CA A:Glu242 4.41 Na O A:Val244 2.57 Na N A:Val244 4.88 Na C A:Val244 3.72 Na CA A:Val244 4.80 Na O A:Glu245 4.64 Na N A:Glu245 4.42 Na C A:Glu245 3.95 Na CA A:Glu245 4.20 Na O A:Gly246 2.67 Na N A:Gly246 3.55 Na C A:Gly246 3.38 Na CA A:Gly246 4.02 Na N A:Asp247 4.21 Na OD2 A:Asp247 3.85 Na CG A:Asp247 4.98 Na CA A:Asp247 4.45 interactive model: