Sodium in the structure of The Crystal Structure Of A Binary Complex Of Two Pseudopilins: Epsi and Epsj From the Type 2 Secretion System of Vibrio Vulnificus (pdb 2ret)

The binding sites of Sodium atom in the structure of The Crystal Structure Of A Binary Complex Of Two Pseudopilins: Epsi and Epsj From the Type 2 Secretion System of Vibrio Vulnificus (pdb code 2ret). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2ret structure was solved by M.E.YANEZ, K.V.KOROTKOV, J.ABENDROTH, W.G.J.HOL, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 40.4-2.2 Space group P1 a (A) 63.288 b (A) 79.145 c (A) 82.079 alpha (°) 65.00 beta (°) 69.19 gamma (°) 69.49 Rfactor (%) 18.5 Rfree (%) 24.5 Sodium Binding Sites: Sodium binding site 1 out of 2 in 2ret Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2ret. 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: F: Glu146, F: Thr177, F: Leu178, F: Lys179, conact list: Atom Atom Distance (A) Na OE1 F:Glu146 2.81 Na OE2 F:Glu146 3.01 Na CD F:Glu146 3.28 Na CG F:Glu146 4.78 Na CG2 F:Thr177 4.65 Na O F:Leu178 4.62 Na O F:Lys179 4.52 Na CA F:Lys179 4.74 interactive model: Sodium binding site 2 out of 2 in 2ret Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 2ret. 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: H: Glu146, H: Leu178, H: Lys179, H: Hoh236, H: Hoh268, H: Hoh273, conact list: Atom Atom Distance (A) Na OE1 H:Glu146 2.17 Na OE2 H:Glu146 3.71 Na CD H:Glu146 3.22 Na CG H:Glu146 4.40 Na O H:Leu178 4.57 Na O H:Lys179 4.33 Na C H:Lys179 4.83 Na CA H:Lys179 4.54 Na O H:Hoh236 2.51 Na O H:Hoh268 2.12 Na O H:Hoh273 2.19 interactive model: