Copper in PDB 9f3z: Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag

The structure of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag, PDB code: 9f3z was solved by F.Paredes, P.Casino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	93.61 / 3.50
Space group	I 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	106.05, 56.69, 182.296, 90, 92.87, 90
R / Rfree (%)	20.8 / 25.7

The binding sites of Copper atom in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag (pdb code 9f3z). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 8 binding sites of Copper where determined in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag, PDB code: 9f3z:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Copper binding site 1 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu501 b:177.8 occ:1.00 SG B:CYS446 2.0 66.4 1.0 ND1 B:HIS451 2.1 67.2 1.0 ND1 B:HIS392 2.4 62.1 1.0 CB B:CYS446 2.9 59.9 1.0 SD B:MET456 3.0 59.8 1.0 CG B:HIS451 3.1 67.8 1.0 CE1 B:HIS392 3.1 63.6 1.0 CE1 B:HIS451 3.1 68.0 1.0 CB B:HIS451 3.3 68.4 1.0 CG B:HIS392 3.6 61.8 1.0 CB B:HIS392 4.1 59.5 1.0 CE B:MET456 4.1 60.8 1.0 NE2 B:HIS451 4.2 66.8 1.0 CD2 B:HIS451 4.2 66.8 1.0 CD1 B:ILE448 4.2 54.0 1.0 CG1 B:VAL352 4.2 80.0 1.0 NE2 B:HIS392 4.3 62.8 1.0 CA B:CYS446 4.3 57.6 1.0 CG B:MET456 4.5 57.0 1.0 CE B:MET345 4.5 78.3 1.0 CD2 B:HIS392 4.5 63.1 1.0 CB B:ILE448 4.6 51.4 1.0 CA B:HIS392 4.7 57.1 1.0 CG1 B:ILE448 4.8 53.2 1.0 CB B:MET456 4.8 54.6 1.0 CA B:HIS451 4.8 67.8 1.0 C B:CYS446 4.9 59.8 1.0

Copper binding site 2 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu502 b:90.7 occ:1.00 NE2 B:HIS395 1.8 52.3 1.0 NE2 B:HIS106 2.0 58.4 1.0 CD2 B:HIS395 2.8 50.9 1.0 CE1 B:HIS106 2.8 58.6 1.0 CE1 B:HIS395 2.9 53.4 1.0 CD2 B:HIS106 3.0 55.7 1.0 CG B:HIS108 3.1 42.5 1.0 ND1 B:HIS108 3.2 42.9 1.0 CB B:HIS108 3.3 42.7 1.0 CA B:HIS108 3.4 42.4 1.0 CD2 B:HIS397 3.5 52.3 1.0 CU B:CU503 3.6 53.5 1.0 NE2 B:HIS397 3.7 54.7 1.0 CD2 B:HIS108 3.7 42.7 1.0 CE1 B:HIS108 3.8 43.6 1.0 CU B:CU504 3.8 71.8 1.0 ND1 B:HIS106 3.9 54.9 1.0 CG B:HIS395 3.9 49.2 1.0 ND1 B:HIS395 3.9 52.0 1.0 CG B:HIS106 4.0 53.9 1.0 NE2 B:HIS108 4.1 43.2 1.0 CG B:HIS397 4.2 51.4 1.0 N B:HIS108 4.3 42.3 1.0 C B:HIS108 4.4 41.9 1.0 N B:GLY109 4.6 44.9 1.0 CE1 B:HIS397 4.6 55.8 1.0 NE2 B:HIS147 4.6 40.5 1.0 O B:TRP107 4.8 38.3 1.0 CA B:HIS397 4.8 52.1 1.0 C B:TRP107 4.8 42.7 1.0 ND1 B:HIS397 4.8 53.8 1.0 CB B:HIS397 5.0 51.2 1.0 NE2 B:HIS445 5.0 69.7 1.0

Copper binding site 3 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu503 b:53.5 occ:1.00 NE2 B:HIS147 1.8 40.5 1.0 ND1 B:HIS108 2.0 42.9 1.0 NE2 B:HIS447 2.1 44.4 1.0 CE1 B:HIS147 2.6 41.1 1.0 CE1 B:HIS108 2.8 43.6 1.0 CD2 B:HIS447 2.9 45.0 1.0 CD2 B:HIS147 3.0 38.8 1.0 CG B:HIS108 3.2 42.5 1.0 CE1 B:HIS447 3.2 45.4 1.0 CU B:CU502 3.6 90.7 1.0 CB B:HIS108 3.6 42.7 1.0 CD2 B:HIS395 3.7 50.9 1.0 ND1 B:HIS147 3.8 40.5 1.0 CD2 B:HIS106 3.9 55.7 1.0 CU B:CU504 3.9 71.8 1.0 NE2 B:HIS395 3.9 52.3 1.0 CG B:HIS147 4.0 38.3 1.0 NE2 B:HIS108 4.0 43.2 1.0 CG B:HIS447 4.1 46.6 1.0 NE2 B:HIS106 4.1 58.4 1.0 CD2 B:HIS108 4.2 42.7 1.0 CZ2 B:TRP145 4.2 45.5 1.0 ND1 B:HIS447 4.2 45.0 1.0 CE2 B:TRP145 4.6 44.4 1.0 NE1 B:TRP145 4.6 44.3 1.0 CG B:HIS395 4.7 49.2 1.0 CE1 B:HIS445 4.8 67.0 1.0 CB B:ALA281 4.8 44.4 1.0 CA B:HIS108 4.9 42.4 1.0 CE1 B:HIS395 5.0 53.4 1.0 NE2 B:HIS445 5.0 69.7 1.0 CH2 B:TRP145 5.0 45.8 1.0

Copper binding site 4 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu504 b:71.8 occ:1.00 NE2 B:HIS149 2.0 81.4 1.0 NE2 B:HIS445 2.0 69.7 1.0 NE2 B:HIS397 2.2 54.7 1.0 CD2 B:HIS149 2.4 78.4 1.0 CE1 B:HIS445 2.4 67.0 1.0 CE1 B:HIS397 3.1 55.8 1.0 CE1 B:HIS149 3.3 81.2 1.0 CD2 B:HIS106 3.3 55.7 1.0 CD2 B:HIS445 3.3 68.6 1.0 CD2 B:HIS397 3.3 52.3 1.0 NE2 B:HIS106 3.3 58.4 1.0 CG B:HIS149 3.6 70.6 1.0 ND1 B:HIS445 3.7 65.2 1.0 CD2 B:HIS395 3.7 50.9 1.0 CU B:CU502 3.8 90.7 1.0 CU B:CU503 3.9 53.5 1.0 ND1 B:HIS149 4.0 76.2 1.0 CG B:HIS445 4.1 64.5 1.0 ND1 B:HIS397 4.2 53.8 1.0 NE2 B:HIS395 4.2 52.3 1.0 CE1 B:HIS147 4.3 41.1 1.0 CG B:HIS397 4.4 51.4 1.0 CG B:HIS106 4.4 53.9 1.0 CE1 B:HIS106 4.4 58.6 1.0 CD2 B:HIS447 4.7 45.0 1.0 NE2 B:HIS147 4.7 40.5 1.0 NE2 B:HIS447 4.8 44.4 1.0 CB B:HIS149 4.9 58.2 1.0 CG B:HIS395 4.9 49.2 1.0 ND1 B:HIS106 5.0 54.9 1.0

Copper binding site 5 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu501 b:113.8 occ:1.00 ND1 A:HIS451 2.0 62.9 1.0 SG A:CYS446 2.2 86.9 1.0 ND1 A:HIS392 2.3 71.1 1.0 CE1 A:HIS392 2.8 76.5 1.0 CB A:CYS446 2.8 73.1 1.0 CE1 A:HIS451 2.9 60.6 1.0 CG A:HIS451 3.0 63.1 1.0 CB A:HIS451 3.3 64.2 1.0 SD A:MET456 3.4 74.5 1.0 CG A:HIS392 3.6 66.5 1.0 NE2 A:HIS451 4.0 61.7 1.0 NE2 A:HIS392 4.1 76.1 1.0 CD2 A:HIS451 4.1 63.1 1.0 CG1 A:VAL352 4.2 74.3 1.0 CB A:HIS392 4.2 61.4 1.0 CA A:CYS446 4.3 67.6 1.0 CD1 A:ILE448 4.3 69.2 1.0 CE A:MET456 4.4 74.5 1.0 CD2 A:HIS392 4.4 69.0 1.0 CG A:MET456 4.5 75.2 1.0 CB A:ILE448 4.5 65.0 1.0 CB A:MET456 4.7 74.7 1.0 CE A:MET345 4.8 89.4 1.0 CG1 A:ILE448 4.8 68.3 1.0 CA A:HIS392 4.8 59.0 1.0 CA A:HIS451 4.8 66.6 1.0 C A:CYS446 4.8 61.6 1.0 O A:ILE448 4.9 67.9 1.0

Copper binding site 6 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu502 b:109.9 occ:1.00 NE2 A:HIS106 1.9 85.1 1.0 NE2 A:HIS395 1.9 76.4 1.0 CE1 A:HIS106 2.6 87.0 1.0 CD2 A:HIS395 2.8 73.6 1.0 CD2 A:HIS397 2.9 79.5 1.0 CE1 A:HIS395 3.0 76.2 1.0 CD2 A:HIS106 3.0 83.8 1.0 NE2 A:HIS397 3.2 81.4 1.0 CG A:HIS397 3.7 78.2 1.0 CG A:HIS108 3.7 73.3 1.0 CU A:CU504 3.7 78.6 1.0 ND1 A:HIS108 3.7 73.6 1.0 ND1 A:HIS106 3.8 85.2 1.0 CA A:HIS108 3.8 72.0 1.0 CU A:CU503 3.9 58.2 1.0 CB A:HIS108 3.9 71.4 1.0 CG A:HIS395 4.0 71.2 1.0 CG A:HIS106 4.0 81.9 1.0 ND1 A:HIS395 4.0 74.6 1.0 CE1 A:HIS397 4.1 81.6 1.0 CD2 A:HIS108 4.3 75.7 1.0 CE1 A:HIS108 4.3 73.7 1.0 ND1 A:HIS397 4.3 79.4 1.0 CA A:HIS397 4.3 79.1 1.0 CB A:HIS397 4.5 78.0 1.0 NE2 A:HIS108 4.6 74.1 1.0 NE2 A:HIS445 4.6 73.1 1.0 N A:HIS397 4.6 74.3 1.0 N A:HIS108 4.7 73.1 1.0 C A:HIS108 4.8 71.3 1.0 N A:GLY109 4.9 73.3 1.0 O A:MET396 4.9 67.7 1.0 C A:MET396 4.9 72.9 1.0 O A:TRP107 4.9 72.7 1.0 NE2 A:HIS147 5.0 63.8 1.0

Copper binding site 7 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu503 b:58.2 occ:1.00 NE2 A:HIS147 1.9 63.8 1.0 ND1 A:HIS108 2.0 73.6 1.0 NE2 A:HIS447 2.2 64.6 1.0 CE1 A:HIS108 2.8 73.7 1.0 CE1 A:HIS147 2.8 65.0 1.0 CD2 A:HIS447 3.0 64.9 1.0 CD2 A:HIS147 3.0 63.0 1.0 CG A:HIS108 3.1 73.3 1.0 CE1 A:HIS447 3.3 65.4 1.0 CB A:HIS108 3.6 71.4 1.0 CD2 A:HIS395 3.7 73.6 1.0 CU A:CU502 3.9 109.9 1.0 CD2 A:HIS106 3.9 83.8 1.0 NE2 A:HIS395 3.9 76.4 1.0 ND1 A:HIS147 3.9 64.1 1.0 NE2 A:HIS108 3.9 74.1 1.0 CU A:CU504 4.0 78.6 1.0 CG A:HIS147 4.1 63.0 1.0 CD2 A:HIS108 4.1 75.7 1.0 NE2 A:HIS106 4.1 85.1 1.0 CG A:HIS447 4.1 65.2 1.0 CZ2 A:TRP145 4.2 57.7 1.0 ND1 A:HIS447 4.2 66.7 1.0 NE1 A:TRP145 4.5 60.2 1.0 CE2 A:TRP145 4.5 58.8 1.0 CG A:HIS395 4.7 71.2 1.0 CA A:HIS108 4.8 72.0 1.0 CB A:ALA281 4.8 74.0 1.0 CE1 A:HIS445 4.9 71.1 1.0 CE1 A:HIS395 4.9 76.2 1.0 NE2 A:HIS445 5.0 73.1 1.0

Copper binding site 8 out of 8 in the Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Psychrophilic Laccase (Multicopper Oxidase) From Oenococcus Oeni 229 with Histag within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu504 b:78.6 occ:1.00 NE2 A:HIS445 2.0 73.1 1.0 CE1 A:HIS445 2.2 71.1 1.0 NE2 A:HIS149 2.2 91.4 1.0 NE2 A:HIS397 2.3 81.4 1.0 CD2 A:HIS149 2.5 85.8 1.0 CE1 A:HIS397 3.2 81.6 1.0 CD2 A:HIS445 3.3 70.9 1.0 ND1 A:HIS445 3.4 70.5 1.0 CD2 A:HIS397 3.4 79.5 1.0 CE1 A:HIS149 3.4 95.6 1.0 CD2 A:HIS106 3.5 83.8 1.0 NE2 A:HIS106 3.5 85.1 1.0 CU A:CU502 3.7 109.9 1.0 CG A:HIS149 3.7 83.5 1.0 CD2 A:HIS395 3.9 73.6 1.0 CG A:HIS445 4.0 71.2 1.0 CU A:CU503 4.0 58.2 1.0 ND1 A:HIS149 4.2 92.9 1.0 ND1 A:HIS397 4.4 79.4 1.0 NE2 A:HIS395 4.4 76.4 1.0 CE1 A:HIS147 4.4 65.0 1.0 CG A:HIS397 4.5 78.2 1.0 CG A:HIS106 4.6 81.9 1.0 CD2 A:HIS447 4.6 64.9 1.0 CE1 A:HIS106 4.6 87.0 1.0 NE2 A:HIS447 4.7 64.6 1.0 NE2 A:HIS147 4.8 63.8 1.0 CB A:HIS149 4.9 77.8 1.0 CB A:MET443 5.0 93.1 1.0

I.Olmeda, F.Paredes, R.Sendra, P.Casino, I.Pardo, S.Ferrer. Biochemical and Structural Characterization of A Novel Psychrophilic Laccase (Multicopper Oxidase) Discovered From Oenococcus Oeni 229 (Enolab 4002). Int J Mol Sci 2024.
ISSN: ESSN 1422-0067