The binding sites of Copper atom in the structure of Ribonuclease A Copper Complex (pdb code 1aqp). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 1aqp structure was solved by N.RAMASUBBU, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A) | 8.0-2.0 | Space group | C121 | a (A) | 58.180 | b (A) | 53.800 | c (A) | 42.900 | alpha (°) | 90.00 | beta (°) | 118.90 | gamma (°) | 90.00 | Rfactor (%) | 20 | Rfree (%) | n/a |
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Copper binding site 1 out of 2 in 1aqp
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 1aqp. 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: Ser75, A: Tyr76, A: Ser77, A: Thr78, A: His105, | conact list:
Atom | Atom | Distance (A) | Cu | O A:Ser75 | 4.91 | Cu | C A:Tyr76 | 3.49 | Cu | CA A:Tyr76 | 4.66 | Cu | O A:Tyr76 | 2.32 | Cu | N A:Ser77 | 4.17 | Cu | C A:Ser77 | 4.52 | Cu | CA A:Ser77 | 3.98 | Cu | N A:Thr78 | 4.85 | Cu | H A:Thr78 | 4.72 | Cu | NE2 A:His105 | 2.02 | Cu | ND1 A:His105 | 4.06 | Cu | CD2 A:His105 | 3.07 | Cu | CE1 A:His105 | 2.92 | Cu | HD1 A:His105 | 4.92 | Cu | HE2 A:His105 | 1.08 | Cu | CG A:His105 | 4.17 |
| interactive model:
| Copper binding site 2 out of 2 in 1aqp
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 1aqp. 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: Glu111, A: Val118, A: His119, A: Hoh128, A: Hoh144, A: Hoh146, A: Hoh180, A: Hoh202, A: Hoh203, | conact list:
Atom | Atom | Distance (A) | Cu | OE1 A:Glu111 | 3.22 | Cu | OE2 A:Glu111 | 2.12 | Cu | CD A:Glu111 | 3.01 | Cu | CG A:Glu111 | 4.41 | Cu | CG1 A:Val118 | 4.24 | Cu | NE2 A:His119 | 2.11 | Cu | ND1 A:His119 | 4.23 | Cu | CD2 A:His119 | 3.04 | Cu | CE1 A:His119 | 3.14 | Cu | HE2 A:His119 | 1.16 | Cu | CG A:His119 | 4.21 | Cu | O A:Hoh128 | 2.61 | Cu | H1 A:Hoh128 | 3.30 | Cu | H2 A:Hoh128 | 3.20 | Cu | H1 A:Hoh144 | 4.96 | Cu | O A:Hoh146 | 2.36 | Cu | H1 A:Hoh146 | 3.07 | Cu | H2 A:Hoh146 | 3.03 | Cu | O A:Hoh180 | 2.13 | Cu | H1 A:Hoh180 | 3.03 | Cu | H2 A:Hoh180 | 2.46 | Cu | O A:Hoh202 | 4.73 | Cu | O A:Hoh203 | 4.72 | Cu | H1 A:Hoh203 | 4.89 |
| interactive model:
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