The binding sites of Copper atom in the structure of X-Ray Crystal Structure of An Alvinella Pompejana Cu,Zn Superoxide Dismutase- Hydrogen Peroxide Complex (pdb code 3f7k). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 3f7k structure was solved by D.S.SHIN, M.DIDONATO, D.P.BARONDEAU, E.D.GETZOFF, J.A.TAINER, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A) | 45.0-1.4 | Space group | P6122 | a (A) | 62.563 | b (A) | 62.563 | c (A) | 163.745 | alpha (°) | 90.00 | beta (°) | 90.00 | gamma (°) | 120.00 | Rfactor (%) | 12.8 | Rfree (%) | 17.6 |
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Copper binding site 1 out of 2 in 3f7k
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 3f7k. 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: Phe43, A: His44, A: His46, A: His61, A: Val116, A: His118, A: Cu202, A: Peo209, A: Hoh301, | conact list:
Atom | Atom | Distance (A) | Cu | C A:Phe43 | 4.93 | Cu | O A:His44 | 4.56 | Cu | NE2 A:His44 | 4.12 | Cu | N A:His44 | 4.11 | Cu | CB A:His44 | 3.40 | Cu | ND1 A:His44 | 2.02 | Cu | CD2 A:His44 | 4.18 | Cu | C A:His44 | 4.69 | Cu | CE1 A:His44 | 2.99 | Cu | CG A:His44 | 3.04 | Cu | CA A:His44 | 4.23 | Cu | NE2 A:His46 | 1.94 | Cu | ND1 A:His46 | 4.07 | Cu | CD2 A:His46 | 2.99 | Cu | CE1 A:His46 | 2.90 | Cu | CG A:His46 | 4.12 | Cu | NE2 A:His61 | 3.35 | Cu | ND1 A:His61 | 4.99 | Cu | CD2 A:His61 | 3.66 | Cu | CE1 A:His61 | 4.26 | Cu | CG A:His61 | 4.69 | Cu | O A:Val116 | 4.24 | Cu | CB A:Val116 | 3.88 | Cu | CG2 A:Val116 | 4.65 | Cu | C A:Val116 | 4.77 | Cu | CG1 A:Val116 | 4.11 | Cu | CA A:Val116 | 4.89 | Cu | NE2 A:His118 | 2.01 | Cu | ND1 A:His118 | 4.16 | Cu | CD2 A:His118 | 2.95 | Cu | CE1 A:His118 | 3.08 | Cu | CG A:His118 | 4.12 | Cu | CU A:Cu202 | 0.98 | Cu | O1 A:Peo209 | 4.61 | Cu | O2 A:Peo209 | 3.47 | Cu | O A:Hoh301 | 3.78 |
| interactive model:
| Copper binding site 2 out of 2 in 3f7k
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 3f7k. 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: His44, A: His46, A: His61, A: Val116, A: His118, A: Cu1201, A: Peo209, A: Hoh301, A: Hoh302, A: Hoh303, | conact list:
Atom | Atom | Distance (A) | Cu | NE2 A:His44 | 3.77 | Cu | N A:His44 | 4.68 | Cu | CB A:His44 | 3.56 | Cu | ND1 A:His44 | 1.90 | Cu | CD2 A:His44 | 3.95 | Cu | CE1 A:His44 | 2.65 | Cu | CG A:His44 | 2.97 | Cu | CA A:His44 | 4.66 | Cu | NE2 A:His46 | 2.33 | Cu | ND1 A:His46 | 4.22 | Cu | CD2 A:His46 | 3.48 | Cu | CE1 A:His46 | 2.99 | Cu | CG A:His46 | 4.46 | Cu | NE2 A:His61 | 2.43 | Cu | ND1 A:His61 | 4.21 | Cu | CD2 A:His61 | 2.94 | Cu | CE1 A:His61 | 3.37 | Cu | CG A:His61 | 4.01 | Cu | CB A:Val116 | 4.81 | Cu | CG1 A:Val116 | 4.94 | Cu | NE2 A:His118 | 2.28 | Cu | ND1 A:His118 | 4.24 | Cu | CD2 A:His118 | 3.28 | Cu | CE1 A:His118 | 3.13 | Cu | CG A:His118 | 4.33 | Cu | CU A:Cu1201 | 0.98 | Cu | O1 A:Peo209 | 4.04 | Cu | O2 A:Peo209 | 2.75 | Cu | O A:Hoh301 | 3.01 | Cu | O A:Hoh302 | 4.89 | Cu | O A:Hoh303 | 4.96 |
| interactive model:
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