Sodium in the structure of Crystal Structure Of Conserved Protein of Unknown Function From Streptococcus Pneumoniae (pdb 2idl)

The binding sites of Sodium atom in the structure of Crystal Structure Of Conserved Protein of Unknown Function From Streptococcus Pneumoniae (pdb code 2idl). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2idl structure was solved by B.NOCEK, R.WU, J.ABDULLAH, A.JOACHIMIAK, MIDWEST CENTER FOR STRUCTURALGENOMICS (MCSG), with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 40.0-1.7 Space group C121 a (A) 52.665 b (A) 62.359 c (A) 63.415 alpha (°) 90.00 beta (°) 100.92 gamma (°) 90.00 Rfactor (%) 16.8 Rfree (%) 22.6 Sodium Binding Sites: Sodium binding site 1 out of 1 in 2idl Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2idl. 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: B: Asp11, B: Glu13, B: Arg81, B: Hoh117, B: Hoh131, B: Hoh163, B: Hoh173, B: Hoh180, B: Hoh221, conact list: Atom Atom Distance (A) Na CB B:Asp11 4.68 Na OD2 B:Asp11 2.35 Na OD1 B:Asp11 3.59 Na CG B:Asp11 3.33 Na OE1 B:Glu13 4.24 Na CB B:Glu13 4.32 Na OE2 B:Glu13 2.33 Na CD B:Glu13 3.51 Na CG B:Glu13 4.51 Na CZ B:Arg81 4.99 Na NH1 B:Arg81 3.86 Na O B:Hoh117 3.95 Na O B:Hoh131 2.34 Na O B:Hoh163 2.69 Na O B:Hoh173 4.73 Na O B:Hoh180 2.32 Na O B:Hoh221 4.63 interactive model: