Sodium in the structure of The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50 (pdb 2qmw)

The binding sites of Sodium atom in the structure of The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50 (pdb code 2qmw). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2qmw structure was solved by K.TAN, R.ZHANG, H.LI, M.GU, A.JOACHIMIAK, MIDWEST CENTER FOR STRUCTURALGENOMICS (MCSG), with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 45.9-2.3 Space group P21212 a (A) 60.859 b (A) 87.406 c (A) 107.744 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 22.5 Rfree (%) 27.6 Sodium Binding Sites: Sodium binding site 1 out of 1 in 2qmw Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2qmw. 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: Asp82, A: Ile83, A: Asn84, A: Glu161, A: Tyr163, A: Pro164, A: His165, A: Asn166, A: Hoh353, A: Hoh363, A: Hoh383, A: Hoh389, conact list: Atom Atom Distance (A) Na CB A:Asp82 4.30 Na OD2 A:Asp82 4.89 Na C A:Asp82 4.99 Na OD1 A:Asp82 4.87 Na CG A:Asp82 4.51 Na CA A:Asp82 4.89 Na O A:Ile83 4.05 Na N A:Ile83 4.60 Na C A:Ile83 4.46 Na N A:Asn84 4.92 Na CB A:Asn84 4.56 Na ND2 A:Asn84 3.55 Na OD1 A:Asn84 2.16 Na CG A:Asn84 3.18 Na CA A:Asn84 4.90 Na OE1 A:Glu161 4.14 Na CD A:Glu161 4.84 Na CG A:Glu161 4.79 Na O A:Tyr163 4.38 Na O A:Pro164 2.60 Na C A:Pro164 3.46 Na CA A:Pro164 4.09 Na N A:His165 4.34 Na C A:His165 4.92 Na CA A:His165 4.49 Na O A:Asn166 4.41 Na N A:Asn166 4.34 Na O A:Hoh353 4.37 Na O A:Hoh363 2.83 Na O A:Hoh383 2.38 Na O A:Hoh389 2.34 interactive model: