Copper in the structure of High Resolution Structure of Plastocyanin From Phormidium Laminosum (pdb 2q5b)

The binding sites of Copper atom in the structure of High Resolution Structure of Plastocyanin From Phormidium Laminosum (pdb code 2q5b). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 2q5b structure was solved by R.FROMME, Y.S.BUKHMAN-DERUYTER, I.GROTJOHANN, H.MI, P.FROMME, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 10.0-1.4 Space group P43212 a (A) 84.329 b (A) 84.329 c (A) 90.536 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 19 Rfree (%) 21 Copper Binding Sites: Copper binding site 1 out of 3 in 2q5b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 2q5b. 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: Pro38, A: His39, A: Asn40, A: Cys89, A: Pro91, A: His92, A: Met97, conact list: Atom Atom Distance (A) Cu O A:Pro38 3.68 Cu C A:Pro38 4.47 Cu NE2 A:His39 4.09 Cu N A:His39 4.53 Cu CB A:His39 3.59 Cu ND1 A:His39 2.05 Cu CD2 A:His39 4.22 Cu C A:His39 4.90 Cu CE1 A:His39 2.92 Cu CG A:His39 3.15 Cu CA A:His39 3.74 Cu N A:Asn40 4.89 Cu CB A:Cys89 3.23 Cu SG A:Cys89 2.25 Cu CA A:Cys89 4.65 Cu CB A:Pro91 4.68 Cu NE2 A:His92 4.16 Cu N A:His92 4.23 Cu CB A:His92 3.43 Cu ND1 A:His92 2.08 Cu CD2 A:His92 4.21 Cu CE1 A:His92 3.03 Cu CG A:His92 3.09 Cu CA A:His92 4.43 Cu CB A:Met97 4.49 Cu CE A:Met97 3.44 Cu CG A:Met97 3.95 Cu SD A:Met97 2.61 interactive model: Copper binding site 2 out of 3 in 2q5b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 2q5b. 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: Pro38, B: His39, B: Asn40, B: Cys89, B: Pro91, B: His92, B: Met97, conact list: Atom Atom Distance (A) Cu O B:Pro38 3.89 Cu C B:Pro38 4.65 Cu NE2 B:His39 4.08 Cu N B:His39 4.63 Cu CB B:His39 3.54 Cu ND1 B:His39 2.03 Cu CD2 B:His39 4.20 Cu C B:His39 4.90 Cu CE1 B:His39 2.91 Cu CG B:His39 3.13 Cu CA B:His39 3.77 Cu N B:Asn40 4.87 Cu CB B:Cys89 3.21 Cu SG B:Cys89 2.25 Cu CA B:Cys89 4.64 Cu CG B:Pro91 4.65 Cu NE2 B:His92 4.14 Cu N B:His92 4.41 Cu CB B:His92 3.41 Cu ND1 B:His92 2.05 Cu CD2 B:His92 4.18 Cu CE1 B:His92 3.01 Cu CG B:His92 3.07 Cu CA B:His92 4.53 Cu CB B:Met97 4.44 Cu CE B:Met97 3.42 Cu CG B:Met97 3.89 Cu SD B:Met97 2.57 interactive model: Copper binding site 3 out of 3 in 2q5b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Copper in the PDB 2q5b. 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: Pro38, C: His39, C: Asn40, C: Cys89, C: Pro91, C: His92, C: Met97, conact list: Atom Atom Distance (A) Cu O C:Pro38 3.76 Cu C C:Pro38 4.57 Cu NE2 C:His39 4.08 Cu N C:His39 4.61 Cu CB C:His39 3.56 Cu ND1 C:His39 2.04 Cu CD2 C:His39 4.20 Cu C C:His39 4.93 Cu CE1 C:His39 2.92 Cu CG C:His39 3.13 Cu CA C:His39 3.79 Cu N C:Asn40 4.92 Cu CB C:Cys89 3.24 Cu SG C:Cys89 2.25 Cu CA C:Cys89 4.67 Cu CB C:Pro91 4.88 Cu NE2 C:His92 4.16 Cu N C:His92 4.22 Cu CB C:His92 3.40 Cu ND1 C:His92 2.09 Cu CD2 C:His92 4.21 Cu CE1 C:His92 3.05 Cu CG C:His92 3.09 Cu CA C:His92 4.43 Cu CB C:Met97 4.41 Cu CE C:Met97 3.35 Cu CG C:Met97 3.91 Cu SD C:Met97 2.57 interactive model: