Sodium in the structure of Crystal Structure Of the N-Terminal Domain of E.Coli Ybgf (pdb 2xdj)

The binding sites of Sodium atom in the structure of Crystal Structure Of the N-Terminal Domain of E.Coli Ybgf (pdb code 2xdj). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2xdj structure was solved by A.M.KRACHLER, A.SHARMA, C.KLEANTHOUS, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 39.4-1.8 Space group P212121 a (A) 39.409 b (A) 40.870 c (A) 237.867 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 22.524 Rfree (%) 27.447 Sodium Binding Sites: Sodium binding site 1 out of 1 in 2xdj Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2xdj. 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: C: Gln57, C: Ile60, D: Gln57, D: Ile60, E: Gln57, E: Ile60, conact list: Atom Atom Distance (A) Na NE2 C:Gln57 3.24 Na CB C:Gln57 4.44 Na CD C:Gln57 3.83 Na CG C:Gln57 3.41 Na CA C:Gln57 4.68 Na CD1 C:Ile60 4.02 Na N D:Gln57 4.95 Na OE1 D:Gln57 3.33 Na CB D:Gln57 4.00 Na CD D:Gln57 3.95 Na CG D:Gln57 3.74 Na CA D:Gln57 4.22 Na CB D:Ile60 4.84 Na CD1 D:Ile60 3.99 Na CG2 D:Ile60 4.73 Na OE1 E:Gln57 3.32 Na CB E:Gln57 4.41 Na CD E:Gln57 3.77 Na CG E:Gln57 3.35 Na CA E:Gln57 4.65 Na CD1 E:Ile60 4.01 interactive model: