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

Protein crystallography data

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

Other elements in 2w8c:

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

Zinc (Zn) 4 atoms

Copper Binding Sites:

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 2w8c

Go back to Copper Binding Sites List in 2w8c
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 2w8c

Go back to Copper Binding Sites List in 2w8c
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

Reference:

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
Page generated: Sun Dec 13 11:07:21 2020

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