Sodium in the structure of Carbohydrate Binding Module CBM6 From Xylanase U Clostridium Thermocellum (pdb 1gmm)

The binding sites of Sodium atom in the structure of Carbohydrate Binding Module CBM6 From Xylanase U Clostridium Thermocellum (pdb code 1gmm). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1gmm structure was solved by M.CZJZEK, A.MOSBAH, D.BOLAM, J.ALLOUCH, V.ZAMBONI, B.HENRISSAT, H.J.GILBERT, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 39.0-2.0 Space group P6522 a (A) 59.650 b (A) 59.650 c (A) 157.450 alpha (°) 90.00 beta (°) 90.00 gamma (°) 120.00 Rfactor (%) 20.77 Rfree (%) 21.59 Sodium Binding Sites: Sodium binding site 1 out of 1 in 1gmm Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1gmm. 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: A: Gly33, A: Tyr34, A: Ile35, A: Trp92, A: Pro118, A: Val119, A: Asn120, A: Hoh2174, conact list: Atom Atom Distance (A) Na O A:Gly33 4.76 Na C A:Gly33 3.92 Na CA A:Gly33 4.22 Na O A:Tyr34 4.95 Na N A:Tyr34 3.22 Na C A:Tyr34 3.77 Na CA A:Tyr34 3.65 Na O A:Ile35 3.66 Na N A:Ile35 2.91 Na CB A:Ile35 3.69 Na CD1 A:Ile35 4.72 Na CG2 A:Ile35 4.99 Na C A:Ile35 4.17 Na CG1 A:Ile35 4.16 Na CA A:Ile35 3.75 Na CE3 A:Trp92 4.96 Na CZ3 A:Trp92 4.36 Na CH2 A:Trp92 4.96 Na O A:Pro118 4.83 Na N A:Pro118 4.91 Na CB A:Pro118 3.65 Na C A:Pro118 3.68 Na CA A:Pro118 3.54 Na O A:Val119 2.89 Na N A:Val119 2.96 Na C A:Val119 3.48 Na CA A:Val119 3.83 Na N A:Asn120 4.40 Na OD1 A:Asn120 3.68 Na CG A:Asn120 4.72 Na CA A:Asn120 4.90 Na O A:Hoh2174 3.30 interactive model: