Sodium in the structure of Structural Comparison of Anticancer Drug-Dna Complexes. Adriamycin and Daunomycin (pdb 1d12)

The binding sites of Sodium atom in the structure of Structural Comparison of Anticancer Drug-Dna Complexes. Adriamycin and Daunomycin (pdb code 1d12). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1d12 structure was solved by C.A.FREDERICK, L.D.WILLIAMS, G.UGHETTO, G.A.VAN DER MAREL, J.H.VAN BOOM, A.RICH, A.H.-J.WANG, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-1.7 Space group P41212 a (A) 28.210 b (A) 28.210 c (A) 53.190 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) n/a Rfree (%) n/a Sodium Binding Sites: Sodium binding site 1 out of 1 in 1d12 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1d12. 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: Dc5, A: Dg6, A: Dm27, A: Hoh10, A: Hoh11, A: Hoh12, A: Hoh45, A: Hoh49, A: Hoh60, conact list: Atom Atom Distance (A) Na O3' A:Dc5 4.77 Na C2' A:Dc5 4.29 Na N9 A:Dg6 4.88 Na C8 A:Dg6 3.69 Na C6 A:Dg6 4.16 Na C5 A:Dg6 3.75 Na N7 A:Dg6 2.78 Na C4 A:Dg6 4.90 Na OP2 A:Dg6 4.90 Na O6 A:Dg6 3.79 Na O8 A:Dm27 4.69 Na C6 A:Dm27 3.91 Na C5 A:Dm27 4.21 Na C4 A:Dm27 3.89 Na O4 A:Dm27 3.05 Na C7 A:Dm27 4.90 Na C3 A:Dm27 4.94 Na C21 A:Dm27 3.53 Na O6 A:Dm27 3.01 Na O A:Hoh10 3.08 Na O A:Hoh11 2.82 Na O A:Hoh12 3.09 Na O A:Hoh45 4.47 Na O A:Hoh49 4.84 Na O A:Hoh60 4.62 interactive model: