Sodium in the structure of Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group R32) (pdb 3vbh)

The binding sites of Sodium atom in the structure of Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group R32) (pdb code 3vbh). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3vbh structure was solved by X.WANG, W.PENG, J.REN, Z.HU, J.XU, Z.LOU, X.LI, W.YIN, X.SHEN, C.PORTA, T.S.WALTER, G.EVANS, D.AXFORD, R.OWEN, D.J.ROWLANDS, J.WANG, D.I.STUART, E.E.FRY, Z.RAO, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 49.5-2.3 Space group H32 a (A) 330.000 b (A) 330.000 c (A) 748.400 alpha (°) 90.00 beta (°) 90.00 gamma (°) 120.00 Rfactor (%) 21.7 Rfree (%) 22.6 Sodium Binding Sites: Sodium binding site 1 out of 1 in 3vbh Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3vbh. 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: Val44, A: Pro45, A: Ala46, A: Leu47, A: Gln48, A: Asn57, D: Thr62, D: Glu63, D: Met64, D: Ala65, D: Ala66, D: Pro67, conact list: Atom Atom Distance (A) Na O A:Val44 3.05 Na C A:Val44 3.93 Na CG1 A:Val44 5.00 Na O A:Pro45 3.51 Na N A:Pro45 4.19 Na CB A:Pro45 4.87 Na C A:Pro45 3.76 Na CA A:Pro45 3.61 Na N A:Ala46 4.75 Na O A:Leu47 2.75 Na N A:Leu47 4.56 Na C A:Leu47 3.95 Na CA A:Leu47 4.75 Na NE2 A:Gln48 3.65 Na N A:Gln48 4.93 Na OE1 A:Gln48 4.53 Na CD A:Gln48 4.26 Na OD1 A:Asn57 4.14 Na O D:Thr62 4.42 Na O D:Glu63 2.84 Na C D:Glu63 3.87 Na CA D:Glu63 4.56 Na O D:Met64 4.70 Na N D:Met64 4.83 Na C D:Met64 4.62 Na O D:Ala65 2.87 Na N D:Ala65 4.76 Na C D:Ala65 4.11 Na N D:Ala66 4.98 Na CA D:Ala66 4.92 Na N D:Pro67 4.83 Na CD D:Pro67 3.80 Na CG D:Pro67 4.07 interactive model: