Magnesium in the structure of 1.5 A X-Ray Crystal Structure of Apramycin Complex With Rna Fragment Ggcgucgcuaguaccg/Gguacuaaaagucgccc Containing the Human Ribosomal Decoding A Site: Rna Construct With 3'-Overhang (pdb 2oe5)

The binding sites of Magnesium atom in the structure of 1.5 A X-Ray Crystal Structure of Apramycin Complex With Rna Fragment Ggcgucgcuaguaccg/Gguacuaaaagucgccc Containing the Human Ribosomal Decoding A Site: Rna Construct With 3'-Overhang (pdb code 2oe5). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 2oe5 structure was solved by T.HERMANN, V.TERESHKO, E.SKRIPKIN, D.J.PATEL, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 19.9-1.5 Space group P212121 a (A) 28.310 b (A) 36.693 c (A) 86.679 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 19.9 Rfree (%) 22.7 Magnesium Binding Sites: Magnesium binding site 1 out of 2 in 2oe5 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 2oe5. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Magnesium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: G2, A: Hoh111, A: Hoh112, A: Hoh113, A: Hoh114, A: Hoh115, A: Hoh116, A: Hoh226, A: Hoh258, conact list: Atom Atom Distance (A) Mg N7 A:G2 4.40 Mg O6 A:G2 4.33 Mg O A:Hoh111 2.16 Mg O A:Hoh112 2.21 Mg O A:Hoh113 1.92 Mg O A:Hoh114 2.18 Mg O A:Hoh115 2.16 Mg O A:Hoh116 1.93 Mg O A:Hoh226 3.91 Mg O A:Hoh258 3.61 interactive model: Magnesium binding site 2 out of 2 in 2oe5 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Magnesium in the PDB 2oe5. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Magnesium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: U1489, B: A1490, B: Am2101, A: Hoh109, A: Hoh142, A: Hoh180, A: Hoh196, A: Hoh213, B: Hoh105, B: Hoh106, B: Hoh107, B: Hoh108, B: Hoh110, B: Hoh118, B: Hoh120, B: Hoh134, B: Hoh145, B: Hoh204, B: Hoh228, conact list: Atom Atom Distance (A) Mg C5 B:U1489 4.77 Mg C4 B:U1489 4.99 Mg O4 B:U1489 4.62 Mg N6 B:A1490 4.65 Mg N7 B:A1490 4.94 Mg OB3 B:Am2101 4.50 Mg CB4 B:Am2101 4.96 Mg O A:Hoh109 2.00 Mg O A:Hoh142 4.08 Mg O A:Hoh180 4.60 Mg O A:Hoh196 4.99 Mg O A:Hoh213 4.30 Mg O B:Hoh105 2.24 Mg O B:Hoh106 2.01 Mg O B:Hoh107 2.12 Mg O B:Hoh108 2.00 Mg O B:Hoh110 2.17 Mg O B:Hoh118 3.97 Mg O B:Hoh120 4.25 Mg O B:Hoh134 4.45 Mg O B:Hoh145 3.78 Mg O B:Hoh204 3.94 Mg O B:Hoh228 4.55 interactive model: