Sodium in the structure of Crystal Structure of Putative Haloacid Dehalogenase-Like Hydrolase (YP_001086940.1) From Clostridium Difficile 630 At 2.10 A Resolution (pdb 3fzq)

The binding sites of Sodium atom in the structure of Crystal Structure of Putative Haloacid Dehalogenase-Like Hydrolase (YP_001086940.1) From Clostridium Difficile 630 At 2.10 A Resolution (pdb code 3fzq). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3fzq structure was solved by JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG), with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 29.8-2.1 Space group P1211 a (A) 49.232 b (A) 55.737 c (A) 116.778 alpha (°) 90.00 beta (°) 96.97 gamma (°) 90.00 Rfactor (%) 18.8 Rfree (%) 23 Sodium Binding Sites: Sodium binding site 1 out of 1 in 3fzq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3fzq. 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: Asp10, B: Asp12, B: Gly13, B: Thr14, B: Asp223, B: Gly224, B: Asn226, B: Asp227, B: Po4275, B: Hoh295, B: Hoh335, B: Hoh498, conact list: Atom Atom Distance (A) Na CB B:Asp10 4.75 Na OD2 B:Asp10 2.47 Na OD1 B:Asp10 3.60 Na CG B:Asp10 3.39 Na O B:Asp12 2.34 Na N B:Asp12 4.26 Na CB B:Asp12 4.12 Na C B:Asp12 3.52 Na CA B:Asp12 4.16 Na N B:Gly13 4.62 Na CA B:Gly13 4.96 Na OG1 B:Thr14 4.60 Na N B:Asp223 4.80 Na CB B:Asp223 4.14 Na OD2 B:Asp223 4.35 Na C B:Asp223 4.75 Na CG B:Asp223 4.78 Na CA B:Asp223 4.80 Na N B:Gly224 4.08 Na CA B:Gly224 4.62 Na OD1 B:Asn226 4.66 Na OD2 B:Asp227 4.11 Na O1 B:Po4275 2.13 Na O2 B:Po4275 4.20 Na P B:Po4275 3.61 Na O4 B:Po4275 4.44 Na O3 B:Po4275 4.35 Na O B:Hoh295 2.35 Na O B:Hoh335 2.31 Na O B:Hoh498 3.90 interactive model: