Copper in PDB 1byo: Wild-Type Plastocyanin From Silene

The structure of Wild-Type Plastocyanin From Silene, PDB code: 1byo was solved by H.Sugawara, T.Inoue, C.Li, M.Gotowda, T.Hibino, T.Takabe, Y.Kai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	76.600, 76.600, 65.500, 90.00, 90.00, 120.00
R / Rfree (%)	19.7 / 22.5

The binding sites of Copper atom in the Wild-Type Plastocyanin From Silene (pdb code 1byo). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Wild-Type Plastocyanin From Silene, PDB code: 1byo:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in the Wild-Type Plastocyanin From Silene


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Wild-Type Plastocyanin From Silene within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu100 b:25.5 occ:1.00 ND1 A:HIS37 2.0 23.5 1.0 ND1 A:HIS87 2.1 21.5 1.0 SG A:CYS84 2.2 17.7 1.0 SD A:MET92 2.7 18.6 1.0 CE1 A:HIS37 2.9 23.5 1.0 CE1 A:HIS87 3.0 19.8 1.0 CG A:HIS87 3.0 20.3 1.0 CG A:HIS37 3.1 23.8 1.0 CB A:CYS84 3.4 18.6 1.0 O A:PRO36 3.4 21.7 1.0 CB A:HIS87 3.4 21.6 1.0 CB A:HIS37 3.5 20.1 1.0 CE A:MET92 3.5 17.7 1.0 CA A:HIS37 3.6 20.5 1.0 NE2 A:HIS37 4.1 23.0 1.0 NE2 A:HIS87 4.1 20.2 1.0 CG A:MET92 4.1 17.4 1.0 CD2 A:HIS87 4.2 19.9 1.0 CD2 A:HIS37 4.2 22.6 1.0 C A:PRO36 4.3 22.6 1.0 N A:HIS37 4.4 21.0 1.0 N A:HIS87 4.4 21.9 1.0 CA A:HIS87 4.6 22.4 1.0 CB A:MET92 4.6 21.9 1.0 N A:ASN38 4.7 18.6 1.0 C A:HIS37 4.7 21.1 1.0 CA A:CYS84 4.7 21.1 1.0 CB A:PRO86 4.9 21.7 1.0 O A:GLY34 5.0 22.8 1.0

Copper binding site 2 out of 2 in the Wild-Type Plastocyanin From Silene


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Wild-Type Plastocyanin From Silene within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu100 b:25.6 occ:1.00 ND1 B:HIS37 1.9 22.2 1.0 SG B:CYS84 2.1 16.4 1.0 ND1 B:HIS87 2.3 20.1 1.0 SD B:MET92 2.8 19.3 1.0 CE1 B:HIS37 2.9 23.7 1.0 CG B:HIS37 2.9 23.1 1.0 CG B:HIS87 3.2 20.3 1.0 CB B:CYS84 3.3 15.1 1.0 CE1 B:HIS87 3.3 21.5 1.0 CB B:HIS37 3.4 22.6 1.0 CB B:HIS87 3.5 18.6 1.0 O B:PRO36 3.6 22.3 1.0 CA B:HIS37 3.6 24.8 1.0 CE B:MET92 3.6 21.9 1.0 NE2 B:HIS37 4.0 23.1 1.0 CD2 B:HIS37 4.1 23.4 1.0 CG B:MET92 4.2 20.1 1.0 C B:PRO36 4.4 25.7 1.0 CD2 B:HIS87 4.4 20.4 1.0 NE2 B:HIS87 4.4 21.4 1.0 N B:HIS37 4.4 25.7 1.0 N B:HIS87 4.5 20.8 1.0 CG B:PRO86 4.5 21.4 1.0 N B:ASN38 4.6 22.5 1.0 CB B:MET92 4.6 19.6 1.0 CA B:HIS87 4.6 21.2 1.0 CA B:CYS84 4.7 18.5 1.0 C B:HIS37 4.7 23.9 1.0 C B:CYS84 5.0 19.7 1.0 O B:GLY34 5.0 20.5 1.0 O B:CYS84 5.0 23.4 1.0

H.Sugawara, T.Inoue, C.Li, M.Gotowda, T.Hibino, T.Takabe, Y.Kai. Crystal Structures of Wild-Type and Mutant Plastocyanins From A Higher Plant, Silene. J.Biochem.(Tokyo) V. 125 899 1999.
ISSN: ISSN 0021-924X
PubMed: 10220581