Bromine in the structure of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (Br-Derivative) (pdb 3bno)

The binding sites of Bromine atom in the structure of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (Br-Derivative) (pdb code 3bno). This binding sites where shown with 5.0 Angstroms radius around Bromine atom. The 3bno structure was solved by J.KONDO, E.WESTHOF, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 36.9-2.4 Space group P1 a (A) 35.140 b (A) 45.460 c (A) 52.130 alpha (°) 71.43 beta (°) 73.42 gamma (°) 74.05 Rfactor (%) 22.6 Rfree (%) 25.5 Bromine Binding Sites: Bromine binding site 1 out of 4 in 3bno Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Bromine in the PDB 3bno. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Bromine atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: C8, A: 5bu9, A: C10, conact list: Atom Atom Distance (A) Br N3 A:C8 3.98 Br C3' A:C8 4.27 Br C2 A:C8 4.21 Br C6 A:C8 3.71 Br N1 A:C8 4.06 Br C5 A:C8 3.46 Br C1' A:C8 4.92 Br O3' A:C8 4.96 Br C4 A:C8 3.59 Br OP2 A:C8 4.37 Br C2' A:C8 4.65 Br O5' A:C8 4.34 Br N4 A:C8 4.04 Br N3 A:5bu9 4.13 Br C2 A:5bu9 4.70 Br C6 A:5bu9 2.84 Br N1 A:5bu9 4.14 Br C5 A:5bu9 1.93 Br P A:5bu9 4.57 Br C4 A:5bu9 2.90 Br OP2 A:5bu9 3.59 Br BR A:5bu9 0.00 Br O5' A:5bu9 4.40 Br O4 A:5bu9 3.18 Br C5 A:C10 4.80 Br N4 A:C10 4.36 interactive model: Bromine binding site 2 out of 4 in 3bno Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Bromine in the PDB 3bno. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Bromine atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: C8, B: 5bu9, conact list: Atom Atom Distance (A) Br C3' B:C8 4.30 Br C6 B:C8 3.51 Br N1 B:C8 4.37 Br C5 B:C8 3.54 Br P B:C8 4.38 Br C4 B:C8 4.47 Br OP2 B:C8 3.60 Br C2' B:C8 4.73 Br O5' B:C8 3.88 Br N3 B:5bu9 4.16 Br C2 B:5bu9 4.74 Br C6 B:5bu9 2.86 Br N1 B:5bu9 4.17 Br C5 B:5bu9 1.93 Br P B:5bu9 4.78 Br C4 B:5bu9 2.91 Br OP2 B:5bu9 3.94 Br BR B:5bu9 0.00 Br O5' B:5bu9 4.46 Br O4 B:5bu9 3.17 interactive model: Bromine binding site 3 out of 4 in 3bno Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Bromine in the PDB 3bno. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Bromine atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: C8, C: 5bu9, C: C10, conact list: Atom Atom Distance (A) Br N3 C:C8 4.11 Br C3' C:C8 4.14 Br C2 C:C8 4.22 Br C6 C:C8 3.53 Br N1 C:C8 3.92 Br C5 C:C8 3.42 Br C1' C:C8 4.70 Br O3' C:C8 4.90 Br C4 C:C8 3.73 Br OP2 C:C8 4.72 Br C2' C:C8 4.31 Br O5' C:C8 4.53 Br N4 C:C8 4.32 Br N3 C:5bu9 4.16 Br C2 C:5bu9 4.74 Br C6 C:5bu9 2.85 Br N1 C:5bu9 4.17 Br C5 C:5bu9 1.93 Br P C:5bu9 4.61 Br C4 C:5bu9 2.92 Br OP2 C:5bu9 3.67 Br BR C:5bu9 0.00 Br O5' C:5bu9 4.43 Br O4 C:5bu9 3.19 Br C5 C:C10 4.84 Br N4 C:C10 4.82 interactive model: Bromine binding site 4 out of 4 in 3bno Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Bromine in the PDB 3bno. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Bromine atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: C8, D: 5bu9, conact list: Atom Atom Distance (A) Br N3 D:C8 4.87 Br C3' D:C8 4.15 Br C2 D:C8 4.89 Br C6 D:C8 3.43 Br N1 D:C8 4.22 Br C5 D:C8 3.40 Br C1' D:C8 4.93 Br P D:C8 4.35 Br O3' D:C8 4.87 Br C4 D:C8 4.22 Br OP2 D:C8 3.77 Br C5' D:C8 4.93 Br C2' D:C8 4.71 Br O5' D:C8 3.80 Br N4 D:C8 4.84 Br N3 D:5bu9 4.16 Br C2 D:5bu9 4.72 Br C6 D:5bu9 2.83 Br N1 D:5bu9 4.14 Br C5 D:5bu9 1.92 Br P D:5bu9 4.53 Br C4 D:5bu9 2.91 Br OP2 D:5bu9 3.62 Br BR D:5bu9 0.00 Br O5' D:5bu9 4.33 Br O4 D:5bu9 3.17 interactive model: