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

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

The structure of Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A Mutant, PDB code: 6jub 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 / 1.54
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.858, 117.941, 78.324, 90.00, 91.35, 90.00
R / Rfree (%)	17.5 / 23.4

The binding sites of Copper atom in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A Mutant (pdb code 6jub). 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 Mutant, PDB code: 6jub:
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 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 Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu701 b:24.9 occ:0.82 NE2 A:HIS67 2.0 20.1 1.0 NE2 A:HIS94 2.1 23.1 1.0 NE2 A:HIS103 2.2 21.5 1.0 O A:HOH981 2.2 31.0 1.0 CD2 A:HIS67 2.9 18.7 1.0 CE1 A:HIS67 3.0 19.6 1.0 CE1 A:HIS94 3.0 24.5 1.0 CE1 A:HIS103 3.0 20.2 1.0 CD2 A:HIS94 3.2 25.7 1.0 CD2 A:HIS103 3.2 19.5 1.0 CU A:CU702 3.8 23.1 0.8 CB A:ALA92 4.1 23.4 1.0 ND1 A:HIS67 4.1 18.7 1.0 CG A:HIS67 4.1 19.7 1.0 NE2 A:HIS372 4.1 20.2 1.0 ND1 A:HIS94 4.2 24.6 1.0 ND1 A:HIS103 4.2 19.4 1.0 CG A:HIS94 4.3 23.8 1.0 CZ A:PHE368 4.3 16.4 1.0 CG A:HIS103 4.3 19.1 1.0 CE1 A:HIS372 4.4 16.2 1.0 CE2 A:PHE368 4.4 17.1 1.0 NE2 A:HIS328 4.7 17.6 1.0 CE2 A:PHE513 4.8 18.9 1.0 CE1 A:PHE99 4.8 17.7 1.0 CZ3 A:TRP102 4.9 19.4 1.0 O A:VAL93 4.9 20.5 1.0

Copper binding site 2 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A 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 Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu702 b:23.1 occ:0.81 O A:HOH981 1.8 31.0 1.0 NE2 A:HIS328 2.0 17.6 1.0 NE2 A:HIS332 2.0 17.3 1.0 NE2 A:HIS372 2.1 20.2 1.0 CD2 A:HIS328 2.9 16.6 1.0 CE1 A:HIS372 2.9 16.2 1.0 CE1 A:HIS328 3.0 21.0 1.0 CD2 A:HIS332 3.0 16.9 1.0 CE1 A:HIS332 3.0 19.8 1.0 CD2 A:HIS372 3.2 18.7 1.0 CU A:CU701 3.8 24.9 0.8 CE2 A:PHE368 3.8 17.1 1.0 CE2 A:PHE513 3.9 18.9 1.0 CG A:HIS328 4.0 19.4 1.0 ND1 A:HIS328 4.0 20.6 1.0 ND1 A:HIS372 4.1 16.0 1.0 ND1 A:HIS332 4.1 18.1 1.0 CG A:HIS332 4.2 16.5 1.0 CG A:HIS372 4.2 16.7 1.0 CZ A:PHE513 4.3 18.4 1.0 CZ A:PHE368 4.5 16.4 1.0 CD2 A:HIS371 4.5 16.4 1.0 CD2 A:PHE368 4.5 14.5 1.0 NE2 A:HIS103 4.6 21.5 1.0 NE2 A:HIS371 4.7 17.3 1.0 NE2 A:HIS67 4.8 20.1 1.0 CD2 A:PHE513 4.8 19.6 1.0 CE1 A:PHE99 4.9 17.7 1.0 CD2 A:HIS103 4.9 19.5 1.0 NE2 A:HIS94 4.9 23.1 1.0

Copper binding site 3 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A 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 Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu701 b:21.5 occ:0.67 O1 B:PER703 1.9 19.4 0.5 NE2 B:HIS67 1.9 20.5 1.0 O2 B:PER703 2.1 19.9 0.5 NE2 B:HIS94 2.2 21.9 1.0 NE2 B:HIS103 2.2 18.7 1.0 CE1 B:HIS67 2.8 19.0 1.0 CD2 B:HIS67 3.0 20.8 1.0 CE1 B:HIS103 3.1 18.2 1.0 CE1 B:HIS94 3.1 26.5 1.0 CD2 B:HIS94 3.2 25.0 1.0 CD2 B:HIS103 3.3 19.3 1.0 CU B:CU702 3.6 19.0 0.7 ND1 B:HIS67 4.0 18.1 1.0 CG B:HIS67 4.1 19.9 1.0 NE2 B:HIS372 4.1 17.0 1.0 ND1 B:HIS103 4.2 17.7 1.0 ND1 B:HIS94 4.2 25.2 1.0 CG B:HIS94 4.3 23.8 1.0 CB B:ALA92 4.3 26.8 1.0 CZ B:PHE368 4.3 18.2 1.0 CE2 B:PHE368 4.4 17.2 1.0 CG B:HIS103 4.4 18.7 1.0 CE1 B:HIS372 4.4 16.8 1.0 CE2 B:PHE513 4.6 19.9 1.0 NE2 B:HIS328 4.7 16.8 1.0 CE1 B:PHE99 4.8 17.5 1.0 CG1 B:VAL359 4.8 27.6 1.0 O B:VAL93 5.0 22.2 1.0

Copper binding site 4 out of 4 in the Radiation Damage in Aspergillus Oryzae Pro-Tyrosinase Oxygen-Bound C92A 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 Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu702 b:19.0 occ:0.72 NE2 B:HIS328 2.0 16.8 1.0 O2 B:PER703 2.0 19.9 0.5 O1 B:PER703 2.0 19.4 0.5 NE2 B:HIS332 2.1 16.8 1.0 NE2 B:HIS372 2.1 17.0 1.0 CD2 B:HIS328 2.9 14.7 1.0 CE1 B:HIS372 3.0 16.8 1.0 CD2 B:HIS332 3.0 14.4 1.0 CE1 B:HIS328 3.0 17.9 1.0 CE1 B:HIS332 3.1 16.9 1.0 CD2 B:HIS372 3.2 18.0 1.0 CU B:CU701 3.6 21.5 0.7 CE2 B:PHE513 3.9 19.9 1.0 CE2 B:PHE368 3.9 17.2 1.0 CG B:HIS328 4.0 16.9 1.0 ND1 B:HIS328 4.1 17.3 1.0 ND1 B:HIS372 4.1 18.9 1.0 ND1 B:HIS332 4.1 16.0 1.0 CG B:HIS332 4.1 15.2 1.0 CZ B:PHE513 4.2 18.4 1.0 CG B:HIS372 4.3 18.2 1.0 CD2 B:HIS371 4.6 17.3 1.0 CZ B:PHE368 4.6 18.2 1.0 CD2 B:PHE368 4.6 15.5 1.0 NE2 B:HIS103 4.6 18.7 1.0 NE2 B:HIS371 4.7 17.8 1.0 CE1 B:PHE99 4.8 17.5 1.0 CD2 B:PHE513 4.8 21.0 1.0 NE2 B:HIS67 4.8 20.5 1.0 CD2 B:HIS103 4.9 19.3 1.0 NE2 B:HIS94 4.9 21.9 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