Copper in the structure of Crystal Structure of the Cu,Mo-Co Dehydrogenase (Codh); Oxidized Form (pdb 1n5w)

The binding sites of Copper atom in the structure of Crystal Structure of the Cu,Mo-Co Dehydrogenase (Codh); Oxidized Form (pdb code 1n5w). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 1n5w structure was solved by H.DOBBEK, L.GREMER, R.KIEFERSAUER, R.HUBER, O.MEYER, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 18.0-1.5 Space group P212121 a (A) 119.295 b (A) 132.088 c (A) 159.825 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 13.5 Rfree (%) 17.1 Copper Binding Sites: Copper binding site 1 out of 2 in 1n5w Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 1n5w. 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: Val384, B: Ala385, B: Tyr386, B: Arg387, B: Cys388, B: Ser389, B: Phe390, B: Glu763, B: Cum3921, B: Hoh4334, B: Hoh4547, conact list: Atom Atom Distance (A) Cu O B:Val384 4.77 Cu CB B:Val384 4.78 Cu C B:Val384 4.05 Cu CG1 B:Val384 3.83 Cu CA B:Val384 4.60 Cu O B:Ala385 3.75 Cu N B:Ala385 3.44 Cu C B:Ala385 3.60 Cu CA B:Ala385 3.63 Cu N B:Tyr386 4.22 Cu C B:Tyr386 4.78 Cu N B:Arg387 4.18 Cu C B:Arg387 4.23 Cu CA B:Arg387 4.49 Cu O B:Cys388 4.91 Cu N B:Cys388 3.15 Cu CB B:Cys388 3.29 Cu SG B:Cys388 2.22 Cu C B:Cys388 3.88 Cu CA B:Cys388 3.54 Cu N B:Ser389 3.52 Cu C B:Ser389 4.91 Cu CA B:Ser389 4.53 Cu N B:Phe390 4.19 Cu OE2 B:Glu763 3.67 Cu CD B:Glu763 4.92 Cu S B:Cum3921 2.21 Cu OM1 B:Cum3921 4.87 Cu MO B:Cum3921 3.75 Cu OM2 B:Cum3921 3.37 Cu CU B:Cum3921 0.00 Cu O B:Hoh4334 2.42 Cu O B:Hoh4547 4.56 interactive model: Copper binding site 2 out of 2 in 1n5w Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 1n5w. 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: E: Val384, E: Ala385, E: Tyr386, E: Arg387, E: Cys388, E: Ser389, E: Phe390, E: Glu763, E: Cum4921, E: Hoh5313, conact list: Atom Atom Distance (A) Cu O E:Val384 4.74 Cu CB E:Val384 4.77 Cu C E:Val384 4.08 Cu CG1 E:Val384 3.81 Cu CA E:Val384 4.59 Cu O E:Ala385 3.73 Cu N E:Ala385 3.41 Cu C E:Ala385 3.63 Cu CA E:Ala385 3.62 Cu N E:Tyr386 4.19 Cu C E:Tyr386 4.84 Cu N E:Arg387 4.23 Cu C E:Arg387 4.25 Cu CA E:Arg387 4.51 Cu O E:Cys388 4.92 Cu N E:Cys388 3.14 Cu CB E:Cys388 3.32 Cu SG E:Cys388 2.22 Cu C E:Cys388 3.92 Cu CA E:Cys388 3.56 Cu N E:Ser389 3.55 Cu C E:Ser389 4.89 Cu CA E:Ser389 4.54 Cu N E:Phe390 4.16 Cu OE2 E:Glu763 3.70 Cu CD E:Glu763 4.93 Cu S E:Cum4921 2.21 Cu OM1 E:Cum4921 4.91 Cu MO E:Cum4921 3.74 Cu OM2 E:Cum4921 3.36 Cu CU E:Cum4921 0.00 Cu O E:Hoh5313 2.49 interactive model: