Copper in PDB 1zv2: Cu-Containing Nitrite Reductase

All present enzymatic activity of Cu-Containing Nitrite Reductase:
1.7.2.1;

The structure of Cu-Containing Nitrite Reductase, PDB code: 1zv2 was solved by F.Jacobson, H.Guo, K.Olesen, M.Okvist, R.Neutze, L.Sjolin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.70 / 1.74
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	72.381, 72.381, 147.509, 90.00, 90.00, 120.00
R / Rfree (%)	15.5 / 19.4

The structure of Cu-Containing Nitrite Reductase also contains other interesting chemical elements:

Magnesium

(Mg)

3 atoms

The binding sites of Copper atom in the Cu-Containing Nitrite Reductase (pdb code 1zv2). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Cu-Containing Nitrite Reductase, PDB code: 1zv2:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in the Cu-Containing Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Cu-Containing Nitrite Reductase within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu401 b:14.6 occ:1.00 ND1 A:HIS126 2.0 10.3 1.0 ND1 A:HIS177 2.0 14.6 1.0 SG A:CYS167 2.2 13.9 1.0 SD A:MET182 2.5 15.2 1.0 CE1 A:HIS126 2.9 12.3 1.0 CE1 A:HIS177 3.0 15.2 1.0 CG A:HIS177 3.1 11.5 1.0 CG A:HIS126 3.1 9.8 1.0 CB A:CYS167 3.2 12.4 1.0 CE A:MET182 3.3 14.0 1.0 CB A:HIS177 3.4 11.4 1.0 CB A:HIS126 3.5 12.3 1.0 CA A:HIS126 3.9 12.1 1.0 CG A:MET182 3.9 14.0 1.0 NE2 A:HIS126 4.1 12.6 1.0 NE2 A:HIS177 4.1 13.0 1.0 CD2 A:HIS177 4.2 14.1 1.0 CD2 A:HIS126 4.2 11.1 1.0 O A:PRO125 4.3 13.4 1.0 SD A:MET93 4.3 12.4 0.3 CG A:PRO169 4.3 15.9 1.0 CB A:MET182 4.3 12.1 1.0 N A:ASN127 4.6 12.0 1.0 CA A:CYS167 4.6 12.3 1.0 SD A:MET93 4.7 18.5 0.7 CA A:HIS177 4.7 11.4 1.0 CB A:MET93 4.8 12.9 0.3 CD A:PRO169 4.8 15.1 1.0 C A:HIS126 4.8 12.2 1.0 CB A:MET93 4.9 14.5 0.7 N A:HIS126 4.9 13.1 1.0

Copper binding site 2 out of 2 in the Cu-Containing Nitrite Reductase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Cu-Containing Nitrite Reductase within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu402 b:14.1 occ:1.00 O A:HOH780 2.0 12.3 0.7 NE2 A:HIS131 2.0 10.0 1.0 NE2 A:HIS166 2.1 10.2 1.0 CE1 A:HIS131 2.9 6.9 1.0 CD2 A:HIS166 3.0 12.7 1.0 CE1 A:HIS166 3.1 10.2 1.0 CD2 A:HIS131 3.1 11.0 1.0 OD2 A:ASP129 3.4 20.4 1.0 ND1 A:HIS131 4.0 9.2 1.0 CG A:ASP129 4.1 14.6 1.0 CG A:HIS131 4.1 8.5 1.0 ND1 A:HIS166 4.2 10.8 1.0 CG A:HIS166 4.2 10.4 1.0 O A:HOH772 4.2 32.6 1.0 OD1 A:ASP129 4.5 15.6 1.0 O A:HOH539 4.7 13.2 1.0

F.Jacobson, H.Guo, K.Olesen, M.Okvist, R.Neutze, L.Sjolin. Structures of the Oxidized and Reduced Forms of Nitrite Reductase From Rhodobacter Sphaeroides 2.4.3 at High pH: Changes in the Interactions of the Type 2 Copper. Acta Crystallogr.,Sect.D V. 61 1190 2005.
ISSN: ISSN 0907-4449
PubMed: 16131751
DOI: 10.1107/S0907444905017488