Copper in PDB 6jud: Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant

All present enzymatic activity of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant:
1.14.18.1;

The structure of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant, PDB code: 6jud was solved by N.Fujieda, K.Umakoshi, Y.Nishikawa, G.Kurisu, S.Itoh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.56
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.413, 118.291, 79.547, 90.00, 91.01, 90.00
R / Rfree (%)	17.3 / 22.9

The binding sites of Copper atom in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant (pdb code 6jud). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant, PDB code: 6jud:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu701 b:25.9 occ:0.54 O A:HOH817 2.1 29.5 1.0 NE2 A:HIS94 2.1 25.5 1.0 NE2 A:HIS67 2.1 16.9 1.0 CE1 A:HIS67 3.0 16.4 1.0 CE1 A:HIS94 3.1 24.8 1.0 CD2 A:HIS94 3.1 27.4 1.0 CZ A:PHE103 3.2 14.4 1.0 CD2 A:HIS67 3.3 16.3 1.0 CE2 A:PHE513 3.5 14.7 1.0 CU A:CU702 3.7 13.9 0.7 CE1 A:PHE103 4.0 14.4 1.0 CE2 A:PHE103 4.0 15.5 1.0 CZ A:PHE513 4.1 13.1 1.0 ND1 A:HIS67 4.1 16.1 1.0 ND1 A:HIS94 4.2 25.9 1.0 CG A:HIS94 4.2 24.0 1.0 CG A:HIS67 4.3 14.8 1.0 NE2 A:HIS328 4.3 11.6 1.0 CE2 A:PHE368 4.4 12.2 1.0 NE2 A:HIS372 4.4 12.6 1.0 CE1 A:HIS328 4.5 13.5 1.0 CD2 A:PHE513 4.5 16.0 1.0 NE2 A:HIS332 4.6 13.7 1.0 CB A:ALA92 4.7 17.3 1.0 CZ A:PHE368 4.7 12.6 1.0 CE1 A:HIS372 4.9 10.9 1.0 CE1 A:HIS332 5.0 13.7 1.0

Copper binding site 2 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu702 b:13.9 occ:0.73 O A:HOH817 1.7 29.5 1.0 NE2 A:HIS332 1.9 13.7 1.0 NE2 A:HIS372 2.0 12.6 1.0 NE2 A:HIS328 2.2 11.6 1.0 CE1 A:HIS332 2.9 13.7 1.0 CE1 A:HIS372 2.9 10.9 1.0 CD2 A:HIS328 2.9 12.4 1.0 CD2 A:HIS372 3.0 12.3 1.0 CD2 A:HIS332 3.0 11.3 1.0 CE1 A:HIS328 3.3 13.5 1.0 CU A:CU701 3.7 25.9 0.5 CE2 A:PHE368 3.8 12.2 1.0 ND1 A:HIS332 4.0 13.0 1.0 ND1 A:HIS372 4.0 11.8 1.0 CG A:HIS372 4.0 12.3 1.0 CG A:HIS332 4.1 11.3 1.0 CD2 A:HIS371 4.1 12.8 1.0 CG A:HIS328 4.2 12.3 1.0 ND1 A:HIS328 4.3 12.7 1.0 CD2 A:PHE368 4.3 10.1 1.0 CE2 A:PHE513 4.3 14.7 1.0 CZ A:PHE368 4.4 12.6 1.0 NE2 A:HIS371 4.5 11.4 1.0 CZ A:PHE513 4.6 13.1 1.0 CE1 A:PHE103 4.7 14.4 1.0 CZ A:PHE103 4.7 14.4 1.0

Copper binding site 3 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu701 b:18.7 occ:0.68 O1 B:PER703 1.8 23.4 0.9 O2 B:PER703 1.8 21.7 0.9 NE2 B:HIS94 1.9 22.7 1.0 NE2 B:HIS67 2.1 16.5 1.0 CE1 B:HIS94 2.7 21.2 1.0 CE1 B:HIS67 2.9 15.7 1.0 CD2 B:HIS94 3.1 23.3 1.0 CD2 B:HIS67 3.2 15.1 1.0 CZ B:PHE103 3.2 15.5 1.0 CU B:CU702 3.5 20.2 0.8 CE2 B:PHE513 3.5 17.0 1.0 ND1 B:HIS94 3.9 22.2 1.0 CE1 B:PHE103 4.0 13.7 1.0 ND1 B:HIS67 4.1 14.8 1.0 CE2 B:PHE103 4.1 15.0 1.0 CG B:HIS94 4.1 22.3 1.0 CZ B:PHE513 4.1 13.1 1.0 CG B:HIS67 4.3 13.3 1.0 NE2 B:HIS328 4.4 16.3 1.0 NE2 B:HIS372 4.5 16.8 1.0 CE2 B:PHE368 4.5 13.1 1.0 CE1 B:HIS328 4.6 18.3 1.0 CD2 B:PHE513 4.6 17.1 1.0 CB B:ALA92 4.6 17.1 1.0 NE2 B:HIS332 4.7 16.0 1.0 CZ B:PHE368 4.7 15.5 1.0 CG1 B:VAL359 4.9 31.6 1.0 CE1 B:HIS372 5.0 13.5 1.0

Copper binding site 4 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A/H103F Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu702 b:20.2 occ:0.84 O2 B:PER703 1.9 21.7 0.9 NE2 B:HIS332 2.0 16.0 1.0 NE2 B:HIS328 2.0 16.3 1.0 NE2 B:HIS372 2.0 16.8 1.0 O1 B:PER703 2.2 23.4 0.9 CD2 B:HIS328 2.9 14.6 1.0 CE1 B:HIS332 2.9 12.7 1.0 CE1 B:HIS372 2.9 13.5 1.0 CD2 B:HIS332 3.0 14.7 1.0 CE1 B:HIS328 3.1 18.3 1.0 CD2 B:HIS372 3.1 15.5 1.0 CU B:CU701 3.5 18.7 0.7 CE2 B:PHE368 3.9 13.1 1.0 ND1 B:HIS332 4.0 13.2 1.0 CG B:HIS328 4.0 14.5 1.0 ND1 B:HIS372 4.1 14.7 1.0 ND1 B:HIS328 4.1 15.5 1.0 CG B:HIS332 4.1 12.1 1.0 CE2 B:PHE513 4.1 17.0 1.0 CG B:HIS372 4.2 14.0 1.0 CD2 B:HIS371 4.4 13.1 1.0 CZ B:PHE513 4.5 13.1 1.0 CZ B:PHE103 4.5 15.5 1.0 CE1 B:PHE103 4.6 13.7 1.0 CZ B:PHE368 4.6 15.5 1.0 CD2 B:PHE368 4.6 11.5 1.0 NE2 B:HIS371 4.7 12.6 1.0 NE2 B:HIS67 4.9 16.5 1.0 NE2 B:HIS94 4.9 22.7 1.0

N.Fujieda, K.Umakoshi, Y.Ochi, Y.Nishikawa, S.Yanagisawa, M.Kubo, G.Kurisu, S.Itoh. Copper-Oxygen Dynamics in Tyrosinase Mechanism. Angew.Chem.Int.Ed.Engl. 2020.
ISSN: ESSN 1521-3773
PubMed: 32356371
DOI: 10.1002/ANIE.202004733