Sodium in the structure of Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal Structure of Galactose Oxidase (pdb 1gof)

The binding sites of Sodium atom in the structure of Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal Structure of Galactose Oxidase (pdb code 1gof). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1gof structure was solved by N.ITO, S.E.V.PHILLIPS, P.F.KNOWLES, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-1.7 Space group C121 a (A) 98.000 b (A) 89.400 c (A) 86.700 alpha (°) 90.00 beta (°) 117.80 gamma (°) 90.00 Rfactor (%) n/a Rfree (%) n/a Sodium Binding Sites: Sodium binding site 1 out of 1 in 1gof Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1gof. 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: Lys29, A: Ala30, A: Ile31, A: Asp32, A: Gly33, A: Asn34, A: Lys35, A: Thr37, A: Phe38, A: Ala141, A: Glu142, conact list: Atom Atom Distance (A) Na O A:Lys29 2.14 Na CB A:Lys29 4.39 Na C A:Lys29 3.32 Na CA A:Lys29 4.26 Na O A:Ala30 4.74 Na N A:Ala30 4.25 Na C A:Ala30 4.43 Na CA A:Ala30 4.28 Na N A:Ile31 4.88 Na N A:Asp32 4.37 Na CB A:Asp32 4.62 Na OD2 A:Asp32 3.71 Na OD1 A:Asp32 2.28 Na CG A:Asp32 3.35 Na CA A:Asp32 4.88 Na N A:Gly33 4.62 Na O A:Asn34 2.22 Na N A:Asn34 4.02 Na CB A:Asn34 4.66 Na C A:Asn34 3.38 Na CA A:Asn34 4.19 Na N A:Lys35 4.46 Na C A:Lys35 4.96 Na CA A:Lys35 4.72 Na O A:Thr37 2.01 Na N A:Thr37 4.08 Na CB A:Thr37 3.74 Na OG1 A:Thr37 2.61 Na C A:Thr37 3.09 Na CA A:Thr37 3.85 Na N A:Phe38 4.14 Na CA A:Phe38 4.52 Na O A:Ala141 2.36 Na C A:Ala141 3.49 Na CB A:Ala141 4.91 Na CA A:Ala141 4.26 Na N A:Glu142 4.49 Na OE1 A:Glu142 4.66 Na CB A:Glu142 4.94 Na OE2 A:Glu142 2.62 Na CD A:Glu142 3.62 Na CG A:Glu142 4.16 Na CA A:Glu142 4.73 interactive model: