Copper in the structure of X-Ray Structure of A Cu-Zn Superoxide Dismutase From Haemophilus Ducreyi With Haem Bound At the Dimer Interface (pdb 1z9n)

The binding sites of Copper atom in the structure of X-Ray Structure of A Cu-Zn Superoxide Dismutase From Haemophilus Ducreyi With Haem Bound At the Dimer Interface (pdb code 1z9n). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 1z9n structure was solved by K.DJINOVIC CARUGO, I.TOEROE, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 19.5-1.5 Space group P1 a (A) 37.320 b (A) 65.900 c (A) 69.540 alpha (°) 66.59 beta (°) 89.87 gamma (°) 76.03 Rfactor (%) 15.7 Rfree (%) 19.3 Copper Binding Sites: Copper binding site 1 out of 4 in 1z9n Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 1z9n. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: His70, A: His72, A: His95, A: Met149, A: His151, A: Hoh1037, A: Hoh1122, conact list: Atom Atom Distance (A) Cu O A:His70 4.60 Cu NE2 A:His70 4.07 Cu N A:His70 4.36 Cu CB A:His70 3.41 Cu ND1 A:His70 2.00 Cu CD2 A:His70 4.14 Cu C A:His70 4.74 Cu CE1 A:His70 2.95 Cu CG A:His70 3.03 Cu CA A:His70 4.36 Cu NE2 A:His72 1.97 Cu ND1 A:His72 4.05 Cu CD2 A:His72 3.02 Cu CE1 A:His72 2.91 Cu CG A:His72 4.13 Cu NE2 A:His95 3.23 Cu ND1 A:His95 4.68 Cu CD2 A:His95 3.64 Cu CE1 A:His95 3.96 Cu CG A:His95 4.56 Cu O A:Met149 4.82 Cu CB A:Met149 3.91 Cu CG A:Met149 3.95 Cu NE2 A:His151 1.99 Cu ND1 A:His151 4.09 Cu CD2 A:His151 2.95 Cu CE1 A:His151 3.00 Cu CG A:His151 4.10 Cu O A:Hoh1037 4.22 Cu O A:Hoh1122 3.30 interactive model: Copper binding site 2 out of 4 in 1z9n Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 1z9n. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: His70, B: His72, B: His95, B: Met149, B: His151, B: Hoh223, B: Hoh240, conact list: Atom Atom Distance (A) Cu O B:His70 4.60 Cu NE2 B:His70 4.07 Cu N B:His70 4.39 Cu CB B:His70 3.34 Cu ND1 B:His70 1.99 Cu CD2 B:His70 4.11 Cu C B:His70 4.75 Cu CE1 B:His70 2.94 Cu CG B:His70 3.00 Cu CA B:His70 4.36 Cu NE2 B:His72 1.99 Cu ND1 B:His72 4.08 Cu CD2 B:His72 3.00 Cu CE1 B:His72 2.96 Cu CG B:His72 4.13 Cu NE2 B:His95 3.18 Cu ND1 B:His95 4.68 Cu CD2 B:His95 3.59 Cu CE1 B:His95 3.96 Cu CG B:His95 4.52 Cu O B:Met149 4.84 Cu CB B:Met149 3.86 Cu CG B:Met149 3.94 Cu NE2 B:His151 2.04 Cu ND1 B:His151 4.16 Cu CD2 B:His151 2.96 Cu CE1 B:His151 3.08 Cu CG B:His151 4.13 Cu O B:Hoh223 4.26 Cu O B:Hoh240 3.47 interactive model: Copper binding site 3 out of 4 in 1z9n Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Copper in the PDB 1z9n. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: His70, C: His72, C: His95, C: Met149, C: His151, C: Hoh2034, C: Hoh2038, conact list: Atom Atom Distance (A) Cu O C:His70 4.61 Cu NE2 C:His70 4.09 Cu N C:His70 4.44 Cu CB C:His70 3.35 Cu ND1 C:His70 2.01 Cu CD2 C:His70 4.13 Cu C C:His70 4.76 Cu CE1 C:His70 2.97 Cu CG C:His70 3.01 Cu CA C:His70 4.38 Cu NE2 C:His72 1.98 Cu ND1 C:His72 4.06 Cu CD2 C:His72 3.00 Cu CE1 C:His72 2.93 Cu CG C:His72 4.12 Cu NE2 C:His95 3.18 Cu ND1 C:His95 4.70 Cu CD2 C:His95 3.62 Cu CE1 C:His95 3.98 Cu CG C:His95 4.54 Cu O C:Met149 4.89 Cu CB C:Met149 3.91 Cu CG C:Met149 3.94 Cu NE2 C:His151 2.02 Cu ND1 C:His151 4.14 Cu CD2 C:His151 2.97 Cu CE1 C:His151 3.05 Cu CG C:His151 4.13 Cu O C:Hoh2034 4.30 Cu O C:Hoh2038 3.30 interactive model: Copper binding site 4 out of 4 in 1z9n Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Copper in the PDB 1z9n. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Copper atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: His70, D: His72, D: His95, D: Met149, D: His151, D: Hoh251, D: Hoh309, D: Hoh319, conact list: Atom Atom Distance (A) Cu O D:His70 4.67 Cu NE2 D:His70 4.07 Cu N D:His70 4.39 Cu CB D:His70 3.42 Cu ND1 D:His70 2.01 Cu CD2 D:His70 4.15 Cu C D:His70 4.81 Cu CE1 D:His70 2.93 Cu CG D:His70 3.04 Cu CA D:His70 4.42 Cu NE2 D:His72 1.99 Cu ND1 D:His72 4.05 Cu CD2 D:His72 3.03 Cu CE1 D:His72 2.91 Cu CG D:His72 4.13 Cu NE2 D:His95 3.23 Cu ND1 D:His95 4.79 Cu CD2 D:His95 3.68 Cu CE1 D:His95 4.02 Cu CG D:His95 4.64 Cu O D:Met149 4.79 Cu CB D:Met149 3.88 Cu CG D:Met149 3.93 Cu NE2 D:His151 2.03 Cu ND1 D:His151 4.16 Cu CD2 D:His151 2.90 Cu CE1 D:His151 3.11 Cu CG D:His151 4.10 Cu O D:Hoh251 4.44 Cu O D:Hoh309 4.86 Cu O D:Hoh319 3.03 interactive model: