Platinum in the structure of Crystal Structure of Human Apo Cu,Zn Superoxide Dismutase (SOD1) Complexed With Cisplatin (pdb 3re0)

The binding sites of Platinum atom in the structure of Crystal Structure of Human Apo Cu,Zn Superoxide Dismutase (SOD1) Complexed With Cisplatin (pdb code 3re0). This binding sites where shown with 5.0 Angstroms radius around Platinum atom. The 3re0 structure was solved by I.BERTINI, O.BLAZEVITS, V.CALDERONE, M JAIFEI, M.VIERU, I.AMORI, M.COZZOLINO, M.T.CARRI, L.BANCI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 39.3-2.3 Space group C121 a (A) 157.412 b (A) 34.805 c (A) 115.225 alpha (°) 90.00 beta (°) 112.28 gamma (°) 90.00 Rfactor (%) 20.9 Rfree (%) 29 Platinum Binding Sites: Platinum binding site 1 out of 5 in 3re0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Platinum in the PDB 3re0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Leu106, A: Cys111, A: Ile113, B: Cpt201, conact list: Atom Atom Distance (A) Pt O A:Leu106 4.64 Pt CB A:Cys111 3.16 Pt SG A:Cys111 2.25 Pt C A:Cys111 4.95 Pt CA A:Cys111 4.60 Pt O A:Ile113 4.57 Pt N A:Ile113 4.84 Pt CB A:Ile113 4.23 Pt CG2 A:Ile113 4.99 Pt CG1 A:Ile113 4.68 Pt N1 B:Cpt201 2.03 Pt CL2 B:Cpt201 2.40 Pt CL2 B:Cpt201 4.30 Pt N2 B:Cpt201 2.03 Pt N2 B:Cpt201 2.84 Pt PT1 B:Cpt201 0.00 Pt PT1 B:Cpt201 4.53 interactive model: Platinum binding site 2 out of 5 in 3re0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Platinum in the PDB 3re0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Leu106, B: Gly108, B: Cys111, B: Ile113, B: Cpt201, conact list: Atom Atom Distance (A) Pt O B:Leu106 4.97 Pt O B:Gly108 4.60 Pt O B:Cys111 4.87 Pt CB B:Cys111 2.98 Pt SG B:Cys111 2.21 Pt C B:Cys111 4.69 Pt CA B:Cys111 4.39 Pt O B:Ile113 4.32 Pt N B:Ile113 4.91 Pt CB B:Ile113 4.52 Pt CG2 B:Ile113 4.99 Pt N1 B:Cpt201 4.61 Pt N1 B:Cpt201 2.04 Pt CL2 B:Cpt201 2.41 Pt N2 B:Cpt201 2.78 Pt N2 B:Cpt201 2.04 Pt PT1 B:Cpt201 4.53 Pt PT1 B:Cpt201 0.00 interactive model: Platinum binding site 3 out of 5 in 3re0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Platinum in the PDB 3re0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Asp109, B: Cpt202, conact list: Atom Atom Distance (A) Pt CB B:Asp109 3.75 Pt OD2 B:Asp109 3.47 Pt OD1 B:Asp109 2.93 Pt CG B:Asp109 3.10 Pt CA B:Asp109 4.82 Pt N1 B:Cpt202 2.03 Pt CL2 B:Cpt202 2.43 Pt N2 B:Cpt202 2.05 Pt PT1 B:Cpt202 0.00 interactive model: Platinum binding site 4 out of 5 in 3re0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Platinum in the PDB 3re0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: Ser107, C: Gly108, C: Cys111, C: Ile113, C: Cpt201, conact list: Atom Atom Distance (A) Pt CA C:Ser107 4.88 Pt O C:Gly108 4.65 Pt O C:Cys111 4.72 Pt CB C:Cys111 2.88 Pt SG C:Cys111 2.18 Pt C C:Cys111 4.53 Pt CA C:Cys111 4.26 Pt O C:Ile113 4.35 Pt N C:Ile113 4.68 Pt CB C:Ile113 4.25 Pt CD1 C:Ile113 4.81 Pt CA C:Ile113 4.88 Pt N1 C:Cpt201 4.57 Pt N1 C:Cpt201 2.04 Pt CL2 C:Cpt201 2.40 Pt N2 C:Cpt201 3.40 Pt N2 C:Cpt201 2.04 Pt PT1 C:Cpt201 4.73 Pt PT1 C:Cpt201 0.00 interactive model: Platinum binding site 5 out of 5 in 3re0 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Platinum in the PDB 3re0. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: Leu106, D: Ser107, D: Cys111, D: Ile113, C: Cpt201, conact list: Atom Atom Distance (A) Pt O D:Leu106 4.89 Pt CA D:Ser107 4.57 Pt CB D:Cys111 3.29 Pt SG D:Cys111 2.37 Pt CA D:Cys111 4.67 Pt O D:Ile113 4.51 Pt N D:Ile113 4.96 Pt CB D:Ile113 4.27 Pt CG1 D:Ile113 4.44 Pt N1 C:Cpt201 2.04 Pt CL2 C:Cpt201 2.43 Pt CL2 C:Cpt201 4.58 Pt N2 C:Cpt201 2.04 Pt N2 C:Cpt201 3.10 Pt PT1 C:Cpt201 0.00 Pt PT1 C:Cpt201 4.73 interactive model: