Sodium in the structure of Crystal Structure of Putative Conjugative Transposon Recombinase From Clostridium Difficile (pdb 3g13)

The binding sites of Sodium atom in the structure of Crystal Structure of Putative Conjugative Transposon Recombinase From Clostridium Difficile (pdb code 3g13). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3g13 structure was solved by A.BAGARIA, S.K.BURLEY, S.SWAMINATHAN, NEW YORK SGX RESEARCH CENTER FORSTRUCTURAL GENOMICS (NYSGXRC), with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 47.8-2.0 Space group P212121 a (A) 64.470 b (A) 71.318 c (A) 94.176 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 19.9 Rfree (%) 23.9 Sodium Binding Sites: Sodium binding site 1 out of 1 in 3g13 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3g13. 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: Arg5, B: Ile36, B: Lys37, B: Asn39, B: Lys40, B: Glu41, B: Trp42, B: Val43, B: Hoh186, B: Hoh246, conact list: Atom Atom Distance (A) Na NH1 B:Arg5 4.94 Na O B:Ile36 2.55 Na CB B:Ile36 4.81 Na CG2 B:Ile36 3.74 Na C B:Ile36 3.54 Na CA B:Ile36 4.63 Na O B:Lys37 4.39 Na N B:Lys37 4.16 Na C B:Lys37 4.44 Na CA B:Lys37 4.07 Na O B:Asn39 2.57 Na N B:Asn39 4.53 Na C B:Asn39 3.51 Na CA B:Asn39 4.56 Na O B:Lys40 4.46 Na N B:Lys40 4.13 Na C B:Lys40 4.26 Na CA B:Lys40 3.96 Na N B:Glu41 4.90 Na N B:Trp42 4.32 Na CB B:Trp42 4.58 Na C B:Trp42 3.78 Na CA B:Trp42 4.46 Na O B:Trp42 2.75 Na N B:Val43 4.75 Na CA B:Val43 4.99 Na O B:Hoh186 4.89 Na O B:Hoh246 3.12 interactive model: