Copper in PDB 2w8c: Plastocyanin Variant with N-Terminal Methionine - Closed Structure

The structure of Plastocyanin Variant with N-Terminal Methionine - Closed Structure, PDB code: 2w8c was solved by P.B.Crowley, P.M.Matias, A.R.Khan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	65.94 / 1.80
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	55.740, 55.740, 197.850, 90.00, 90.00, 120.00
R / Rfree (%)	17.3 / 22.4

The structure of Plastocyanin Variant with N-Terminal Methionine - Closed Structure also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Copper atom in the Plastocyanin Variant with N-Terminal Methionine - Closed Structure (pdb code 2w8c). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Plastocyanin Variant with N-Terminal Methionine - Closed Structure, PDB code: 2w8c:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in the Plastocyanin Variant with N-Terminal Methionine - Closed Structure


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Plastocyanin Variant with N-Terminal Methionine - Closed Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu106 b:21.3 occ:1.00 ND1 A:HIS92 2.1 19.8 1.0 ND1 A:HIS39 2.1 15.1 1.0 SG A:CYS89 2.3 17.0 1.0 SD A:MET97 2.4 18.7 1.0 CE1 A:HIS39 3.0 14.3 1.0 CE1 A:HIS92 3.0 16.8 1.0 CG A:HIS92 3.1 16.4 1.0 CG A:HIS39 3.2 15.8 1.0 CB A:CYS89 3.3 18.9 1.0 CE A:MET97 3.3 17.0 1.0 CB A:HIS92 3.5 18.4 1.0 CB A:HIS39 3.6 15.2 1.0 CG A:MET97 3.7 15.6 1.0 CA A:HIS39 3.9 16.1 1.0 O A:PRO38 4.0 16.3 1.0 NE2 A:HIS39 4.1 14.6 1.0 NE2 A:HIS92 4.1 18.7 1.0 CD2 A:HIS92 4.2 18.7 1.0 CD2 A:HIS39 4.2 14.7 1.0 CB A:MET97 4.3 19.2 1.0 N A:HIS92 4.4 19.2 1.0 CA A:HIS92 4.6 19.3 1.0 CA A:CYS89 4.7 18.2 1.0 N A:HIS39 4.7 16.1 1.0 C A:PRO38 4.7 16.3 1.0 CB A:PRO91 4.7 20.8 1.0 N A:ASN40 5.0 13.0 1.0

Copper binding site 2 out of 2 in the Plastocyanin Variant with N-Terminal Methionine - Closed Structure


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Plastocyanin Variant with N-Terminal Methionine - Closed Structure within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu106 b:18.3 occ:1.00 ND1 B:HIS39 2.0 10.5 1.0 ND1 B:HIS92 2.1 15.4 1.0 SG B:CYS89 2.3 15.7 1.0 SD B:MET97 2.5 15.8 1.0 CE1 B:HIS39 3.0 16.4 1.0 CE1 B:HIS92 3.0 12.1 1.0 CG B:HIS92 3.1 8.0 1.0 CG B:HIS39 3.1 18.8 1.0 CE B:MET97 3.2 15.8 1.0 CB B:CYS89 3.3 10.0 1.0 CB B:HIS92 3.4 14.8 1.0 CB B:HIS39 3.5 16.4 1.0 CG B:MET97 3.8 7.8 1.0 CA B:HIS39 3.8 21.9 1.0 O B:PRO38 4.0 13.0 1.0 NE2 B:HIS39 4.1 12.7 1.0 NE2 B:HIS92 4.2 21.0 1.0 CD2 B:HIS39 4.2 11.4 1.0 CD2 B:HIS92 4.2 6.8 1.0 CB B:MET97 4.4 15.5 1.0 N B:HIS92 4.4 14.1 1.0 CA B:HIS92 4.6 19.1 1.0 CA B:CYS89 4.7 17.1 1.0 N B:HIS39 4.7 12.6 1.0 C B:PRO38 4.8 15.3 1.0 N B:ASN40 4.9 16.3 1.0 CG B:PRO91 5.0 20.8 1.0 C B:HIS39 5.0 20.9 1.0

P.B.Crowley, P.M.Matias, A.R.Khan, M.Roessle, D.I.Svergun. Metal-Mediated Self-Assembly of A Beta-Sandwich Protein. Chemistry V. 15 12672 2009.
ISSN: ISSN 0947-6539
PubMed: 19834935
DOI: 10.1002/CHEM.200901410