Magnesium in the structure of E. Coli Cysteinyl-Trna and T. Aquaticus Elongation Factor Ef-Tu:Gtp Ternary Complex (pdb 1b23)

The binding sites of Magnesium atom in the structure of E. Coli Cysteinyl-Trna and T. Aquaticus Elongation Factor Ef-Tu:Gtp Ternary Complex (pdb code 1b23). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 1b23 structure was solved by P.NISSEN, M.KJELDGAARD, S.THIRUP, J.NYBORG, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-2.6 Space group F222 a (A) 126.750 b (A) 132.980 c (A) 154.880 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 20.6 Rfree (%) 26.3 Magnesium Binding Sites: Magnesium binding site 1 out of 3 in 1b23 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 1b23. 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: R: C75, R: A76, P: Ile231, P: Arg274, R: Hoh983, conact list: Atom Atom Distance (A) Mg O2 R:C75 4.95 Mg O3' R:C75 3.90 Mg C2' R:C75 4.69 Mg O2' R:C75 3.48 Mg N9 R:A76 4.11 Mg OP1 R:A76 3.92 Mg C8 R:A76 3.01 Mg C5 R:A76 4.90 Mg C1' R:A76 4.60 Mg P R:A76 2.85 Mg N7 R:A76 3.62 Mg O4' R:A76 4.49 Mg OP2 R:A76 1.63 Mg C5' R:A76 4.34 Mg C2' R:A76 4.47 Mg C4' R:A76 4.88 Mg O5' R:A76 3.08 Mg CD1 P:Ile231 4.48 Mg CD P:Arg274 4.66 Mg CG P:Arg274 4.32 Mg O R:Hoh983 3.79 interactive model: Magnesium binding site 2 out of 3 in 1b23 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Magnesium in the PDB 1b23. 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: R: G4, R: G70, R: Hoh1034, conact list: Atom Atom Distance (A) Mg N2 R:G4 4.04 Mg N9 R:G70 4.89 Mg N3 R:G70 4.61 Mg C1' R:G70 3.91 Mg O4' R:G70 4.66 Mg C2' R:G70 4.22 Mg O2' R:G70 3.42 Mg O R:Hoh1034 4.27 interactive model: Magnesium binding site 3 out of 3 in 1b23 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Magnesium in the PDB 1b23. 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: P: Lys24, P: Thr25, P: Asp51, P: Thr62, P: Asp81, P: Cys82, P: Gnp406, P: Hoh410, P: Hoh419, conact list: Atom Atom Distance (A) Mg CB P:Lys24 4.24 Mg CE P:Lys24 4.21 Mg C P:Lys24 4.61 Mg CA P:Lys24 4.87 Mg NZ P:Lys24 4.94 Mg N P:Thr25 3.71 Mg CB P:Thr25 3.43 Mg CG2 P:Thr25 4.52 Mg OG1 P:Thr25 2.13 Mg CA P:Thr25 4.09 Mg OD2 P:Asp51 4.49 Mg OD1 P:Asp51 4.73 Mg N P:Thr62 4.29 Mg CB P:Thr62 3.05 Mg CG2 P:Thr62 3.93 Mg OG1 P:Thr62 2.25 Mg CA P:Thr62 4.27 Mg OD2 P:Asp81 3.84 Mg OD1 P:Asp81 4.52 Mg CG P:Asp81 4.57 Mg O P:Cys82 4.23 Mg PG P:Gnp406 3.19 Mg O2G P:Gnp406 4.16 Mg PA P:Gnp406 4.82 Mg O2B P:Gnp406 1.96 Mg O3A P:Gnp406 4.93 Mg N3B P:Gnp406 3.15 Mg O3G P:Gnp406 2.08 Mg O2A P:Gnp406 4.22 Mg O1B P:Gnp406 3.98 Mg PB P:Gnp406 3.07 Mg O1G P:Gnp406 4.25 Mg O1A P:Gnp406 4.70 Mg O P:Hoh410 1.94 Mg O P:Hoh419 2.60 interactive model: