Copper in the structure of Substrate Schiff-Base Intermediate With Tyramine in Copper Amine Oxidase From Arthrobacter Globiformis (pdb 2d1w)

The binding sites of Copper atom in the structure of Substrate Schiff-Base Intermediate With Tyramine in Copper Amine Oxidase From Arthrobacter Globiformis (pdb code 2d1w). This binding sites where shown with 5.0 Angstroms radius around Copper atom. The 2d1w structure was solved by T.MURAKAWA, T.OKAJIMA, S.KURODA, T.NAKAMOTO, M.TAKI, Y.YAMAMOTO, H.HAYASHI, K.TANIZAWA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 26.4-1.7 Space group I121 a (A) 157.570 b (A) 63.351 c (A) 183.651 alpha (°) 90.00 beta (°) 112.29 gamma (°) 90.00 Rfactor (%) 19 Rfree (%) 21.7 Copper Binding Sites: Copper binding site 1 out of 2 in 2d1w Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Copper in the PDB 2d1w. 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: Tts382, A: His431, A: His433, A: His592, A: Met602, A: Hoh1081, A: Hoh1125, A: Hoh1127, A: Hoh1298, A: Hoh1361, conact list: Atom Atom Distance (A) Cu OD1 A:Tts382 4.60 Cu OD1 A:Tts382 4.53 Cu NE2 A:His431 2.06 Cu ND1 A:His431 4.14 Cu CD2 A:His431 3.04 Cu CE1 A:His431 3.03 Cu CG A:His431 4.17 Cu NE2 A:His433 2.10 Cu ND1 A:His433 4.23 Cu CD2 A:His433 2.96 Cu CE1 A:His433 3.18 Cu CG A:His433 4.16 Cu NE2 A:His592 4.35 Cu CB A:His592 3.34 Cu ND1 A:His592 2.24 Cu CD2 A:His592 4.32 Cu CE1 A:His592 3.27 Cu CG A:His592 3.15 Cu CA A:His592 4.88 Cu SD A:Met602 4.92 Cu O A:Hoh1081 4.30 Cu O A:Hoh1125 2.51 Cu O A:Hoh1127 4.53 Cu O A:Hoh1298 3.72 Cu O A:Hoh1361 2.34 interactive model: Copper binding site 2 out of 2 in 2d1w Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Copper in the PDB 2d1w. 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: Tts382, B: His431, B: His433, B: His592, B: Met602, B: Hoh1154, B: Hoh1285, B: Hoh1296, B: Hoh1547, conact list: Atom Atom Distance (A) Cu OD1 B:Tts382 4.57 Cu OD1 B:Tts382 4.47 Cu NE2 B:His431 2.11 Cu ND1 B:His431 4.18 Cu CD2 B:His431 3.09 Cu CE1 B:His431 3.08 Cu CG B:His431 4.22 Cu NE2 B:His433 2.15 Cu ND1 B:His433 4.28 Cu CD2 B:His433 2.91 Cu CE1 B:His433 3.28 Cu CG B:His433 4.15 Cu NE2 B:His592 4.34 Cu CB B:His592 3.36 Cu ND1 B:His592 2.23 Cu CD2 B:His592 4.31 Cu CE1 B:His592 3.25 Cu CG B:His592 3.15 Cu CA B:His592 4.89 Cu SD B:Met602 4.77 Cu O B:Hoh1154 4.42 Cu O B:Hoh1285 2.47 Cu O B:Hoh1296 4.23 Cu O B:Hoh1547 3.57 interactive model: