Sodium in the structure of 2.9 A Resolution Structure of Malate Dehydrogenase From Archaeoglobus Fulgidus in Complex With Nadh (pdb 2x0i)

The binding sites of Sodium atom in the structure of 2.9 A Resolution Structure of Malate Dehydrogenase From Archaeoglobus Fulgidus in Complex With Nadh (pdb code 2x0i). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2x0i structure was solved by A.IRIMIA, D.MADERN, G.ZACCAI, F.M.D.VELLIEUX, A.KARSHIKOFF, G.TIBBELIN, R.LADENSTEIN, T.LIEN, N.-K.BIRKELAND, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 56.5-2.9 Space group P41212 a (A) 112.964 b (A) 112.964 c (A) 71.294 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 15.19 Rfree (%) 21.86 Sodium Binding Sites: Sodium binding site 1 out of 1 in 2x0i Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2x0i. 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: Asp264, A: Lys292, A: Leu293, A: Gly294, A: Lys295, A: Asn296, A: Gly297, A: Glu301, conact list: Atom Atom Distance (A) Na OD1 A:Asp264 4.98 Na O A:Lys292 4.11 Na CD A:Lys292 4.69 Na C A:Lys292 4.75 Na O A:Leu293 4.56 Na C A:Leu293 4.15 Na CA A:Leu293 4.82 Na O A:Gly294 4.52 Na N A:Gly294 3.67 Na C A:Gly294 4.06 Na CA A:Gly294 3.63 Na N A:Lys295 4.50 Na N A:Asn296 4.18 Na CB A:Asn296 4.11 Na C A:Asn296 4.63 Na OD1 A:Asn296 4.88 Na CA A:Asn296 4.50 Na O A:Gly297 3.99 Na N A:Gly297 4.61 Na C A:Gly297 4.68 Na OE1 A:Glu301 4.60 Na OE2 A:Glu301 3.79 Na CD A:Glu301 4.15 Na CG A:Glu301 4.71 interactive model: