Magnesium in the structure of Crystal Structure Analysis Of A Ternary S-Domain Complex of Human Signal Recognition Particle (pdb 1mfq)

The binding sites of Magnesium atom in the structure of Crystal Structure Analysis Of A Ternary S-Domain Complex of Human Signal Recognition Particle (pdb code 1mfq). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom. The 1mfq structure was solved by A.KUGLSTATTER, C.OUBRIDGE, K.NAGAI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 49.6-3.1 Space group P6522 a (A) 131.180 b (A) 131.180 c (A) 204.051 alpha (°) 90.00 beta (°) 90.00 gamma (°) 120.00 Rfactor (%) 22.9 Rfree (%) 26.7 Magnesium Binding Sites: Magnesium binding site 1 out of 5 in 1mfq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 1mfq. 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: A192, A: G193, A: G194, A: U195, conact list: Atom Atom Distance (A) Mg OP1 A:A192 3.14 Mg C3' A:A192 4.96 Mg P A:A192 4.00 Mg O3' A:A192 4.85 Mg OP2 A:A192 4.20 Mg O5' A:A192 4.34 Mg OP1 A:G193 4.76 Mg C8 A:G193 4.47 Mg P A:G193 3.82 Mg N7 A:G193 4.39 Mg OP2 A:G193 2.52 Mg O5' A:G193 4.10 Mg C8 A:G194 4.61 Mg C6 A:G194 4.32 Mg C5 A:G194 4.28 Mg N7 A:G194 3.52 Mg O6 A:G194 3.65 Mg C4 A:U195 4.77 Mg O4 A:U195 3.84 interactive model: Magnesium binding site 2 out of 5 in 1mfq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Magnesium in the PDB 1mfq. 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: G182, A: A183, A: A184, A: C185, A: C186, A: A208, conact list: Atom Atom Distance (A) Mg O3' A:G182 3.98 Mg OP1 A:A183 4.59 Mg C8 A:A183 4.88 Mg P A:A183 3.59 Mg OP2 A:A183 2.20 Mg C5' A:A183 4.52 Mg O5' A:A183 4.55 Mg O3' A:A184 4.25 Mg OP1 A:C185 1.83 Mg P A:C185 3.29 Mg OP2 A:C185 4.14 Mg C5' A:C185 4.16 Mg O5' A:C185 4.04 Mg OP2 A:C186 4.10 Mg OP2 A:A208 4.82 interactive model: Magnesium binding site 3 out of 5 in 1mfq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Magnesium in the PDB 1mfq. 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: G204, A: A205, A: G206, conact list: Atom Atom Distance (A) Mg C3' A:G204 4.48 Mg O3' A:G204 4.54 Mg O5' A:G204 4.97 Mg OP1 A:A205 4.57 Mg C8 A:A205 4.26 Mg P A:A205 3.55 Mg N7 A:A205 4.00 Mg OP2 A:A205 2.19 Mg O5' A:A205 3.94 Mg C8 A:G206 4.55 Mg C5 A:G206 4.75 Mg N7 A:G206 3.76 Mg O6 A:G206 4.71 interactive model: Magnesium binding site 4 out of 5 in 1mfq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Magnesium in the PDB 1mfq. 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: G182, A: A183, A: U211, conact list: Atom Atom Distance (A) Mg OP1 A:G182 3.89 Mg C3' A:G182 4.45 Mg P A:G182 4.09 Mg O3' A:G182 4.38 Mg OP2 A:G182 3.96 Mg C5' A:G182 4.53 Mg O5' A:G182 3.94 Mg OP1 A:A183 1.86 Mg P A:A183 3.23 Mg OP2 A:A183 4.01 Mg O5' A:A183 3.80 Mg O4 A:U211 4.95 interactive model: Magnesium binding site 5 out of 5 in 1mfq Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Magnesium in the PDB 1mfq. 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: C116, A: U117, conact list: Atom Atom Distance (A) Mg OP1 A:C116 3.95 Mg C3' A:C116 3.58 Mg P A:C116 4.27 Mg O3' A:C116 3.06 Mg OP2 A:C116 4.82 Mg C5' A:C116 3.54 Mg C4' A:C116 4.04 Mg O5' A:C116 3.56 Mg OP1 A:U117 2.93 Mg P A:U117 2.79 Mg OP2 A:U117 2.37 Mg O5' A:U117 4.35 interactive model: