Sodium in the structure of Thrombin With 3-Cycle No F (pdb 2v3h)

The binding sites of Sodium atom in the structure of Thrombin With 3-Cycle No F (pdb code 2v3h). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2v3h structure was solved by D.W.BANNER, U.OBST, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 71.2-1.8 Space group C121 a (A) 70.440 b (A) 71.780 c (A) 72.410 alpha (°) 90.00 beta (°) 100.40 gamma (°) 90.00 Rfactor (%) 17.3 Rfree (%) 20.7 Sodium Binding Sites: Sodium binding site 1 out of 1 in 2v3h Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2v3h. 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: H: Tyr184A, H: Asp221, H: Arg221A, H: Asp222, H: Gly223, H: Lys224, H: Tyr225, H: Hoh2260, H: Hoh2261, H: Hoh2272, H: Hoh2273, H: Hoh2274, H: Hoh2293, H: Hoh2298, H: Hoh2302, H: Hoh2306, conact list: Atom Atom Distance (A) Na O H:Tyr184A 4.11 Na O H:Asp221 4.63 Na C H:Asp221 4.11 Na OD1 H:Asp221 4.75 Na CA H:Asp221 4.39 Na O H:Arg221A 2.26 Na N H:Arg221A 3.90 Na C H:Arg221A 3.35 Na CA H:Arg221A 4.25 Na N H:Asp222 4.23 Na C H:Asp222 4.53 Na CA H:Asp222 4.34 Na N H:Gly223 4.25 Na C H:Gly223 4.84 Na O H:Lys224 2.27 Na N H:Lys224 3.81 Na CB H:Lys224 4.44 Na C H:Lys224 3.38 Na CA H:Lys224 4.08 Na N H:Tyr225 4.43 Na CA H:Tyr225 4.76 Na O H:Hoh2260 2.63 Na O H:Hoh2261 2.74 Na O H:Hoh2272 4.38 Na O H:Hoh2273 3.95 Na O H:Hoh2274 4.57 Na O H:Hoh2293 4.99 Na O H:Hoh2298 2.66 Na O H:Hoh2302 4.15 Na O H:Hoh2306 2.25 interactive model: