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Copper in PDB 5m6b: Structure of Recombinant Mushroom Tyrosinase (ABPPO4)

Enzymatic activity of Structure of Recombinant Mushroom Tyrosinase (ABPPO4)

All present enzymatic activity of Structure of Recombinant Mushroom Tyrosinase (ABPPO4):
1.14.18.1;

Protein crystallography data

The structure of Structure of Recombinant Mushroom Tyrosinase (ABPPO4), PDB code: 5m6b was solved by M.Pretzler, A.Bijelic, A.Rompel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.90 / 3.25
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 287.300, 52.090, 152.660, 90.00, 98.03, 90.00
R / Rfree (%) 25.1 / 27.5

Copper Binding Sites:

The binding sites of Copper atom in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4) (pdb code 5m6b). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 8 binding sites of Copper where determined in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4), PDB code: 5m6b:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Copper binding site 1 out of 8 in 5m6b

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Copper binding site 1 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu601

b:0.2
occ:0.80
 NE2 B:HIS57 1.7 0.4 1.0
NE2 B:HIS82 2.2 0.3 1.0
NE2 B:HIS91 2.3 0.1 1.0
CE1 B:HIS57 2.5 0.6 1.0
CU B:CU602 2.9 0.7 0.8
CD2 B:HIS57 2.9 0.7 1.0
CE1 B:HIS82 3.0 0.9 1.0
SG B:CYS80 3.1 0.6 1.0
CD2 B:HIS91 3.2 0.7 1.0
CE1 B:HIS91 3.2 0.1 1.0
CD2 B:HIS82 3.3 1.0 1.0
CE1 B:HIS283 3.5 0.8 1.0
ND1 B:HIS57 3.7 0.5 1.0
NE2 B:HIS283 3.9 0.5 1.0
CG B:HIS57 3.9 0.9 1.0
ND1 B:HIS82 4.1 0.3 1.0
NE2 B:HIS251 4.2 0.8 1.0
CE2 B:PHE454 4.2 0.1 1.0
ND1 B:HIS91 4.2 0.2 1.0
CG B:HIS91 4.2 0.8 1.0
CE1 B:HIS251 4.3 0.2 1.0
CG B:HIS82 4.3 0.0 1.0
CE2 B:PHE279 4.4 0.5 1.0
CZ B:PHE279 4.4 0.5 1.0
CE1 B:PHE87 4.5 0.1 1.0
ND1 B:HIS283 4.6 0.1 1.0
CB B:CYS80 4.6 0.8 1.0
CZ B:PHE454 4.8 0.9 1.0

Copper binding site 2 out of 8 in 5m6b

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Copper binding site 2 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu602

b:0.7
occ:0.76
 NE2 B:HIS251 1.9 0.8 1.0
NE2 B:HIS283 1.9 0.5 1.0
NE2 B:HIS255 2.3 0.3 1.0
CE1 B:HIS283 2.5 0.8 1.0
CE1 B:HIS255 2.7 0.8 1.0
CE1 B:HIS251 2.7 0.2 1.0
CU B:CU601 2.9 0.2 0.8
CD2 B:HIS251 3.1 0.8 1.0
CD2 B:HIS283 3.2 0.9 1.0
CD2 B:HIS255 3.4 0.3 1.0
CE2 B:PHE279 3.6 0.5 1.0
CE2 B:PHE454 3.7 0.1 1.0
ND1 B:HIS283 3.7 0.1 1.0
ND1 B:HIS255 3.8 0.9 1.0
ND1 B:HIS251 3.9 0.3 1.0
NE2 B:HIS57 3.9 0.4 1.0
CG B:HIS251 4.1 0.3 1.0
CG B:HIS283 4.1 0.8 1.0
CZ B:PHE454 4.1 0.9 1.0
CG B:HIS255 4.2 0.2 1.0
CE1 B:HIS57 4.2 0.6 1.0
NE2 B:HIS82 4.3 0.3 1.0
CZ B:PHE279 4.3 0.5 1.0
NE2 B:HIS91 4.4 0.1 1.0
CD2 B:PHE279 4.5 0.2 1.0
CD2 B:PHE454 4.5 0.4 1.0
CD2 B:HIS91 4.6 0.7 1.0
CD2 B:HIS82 5.0 1.0 1.0
CD2 B:HIS282 5.0 0.4 1.0
CD2 B:HIS57 5.0 0.7 1.0

Copper binding site 3 out of 8 in 5m6b

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Copper binding site 3 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu601

b:92.8
occ:0.78
 NE2 A:HIS91 1.6 0.4 1.0
NE2 A:HIS57 1.7 0.5 1.0
O A:O603 2.2 55.8 1.0
CE1 A:HIS91 2.6 0.1 1.0
CD2 A:HIS57 2.6 0.7 1.0
NE2 A:HIS82 2.6 0.7 1.0
CD2 A:HIS91 2.6 0.3 1.0
SG A:CYS80 2.6 0.6 1.0
CE1 A:HIS57 2.8 0.7 1.0
CE1 A:HIS82 3.3 0.1 1.0
CD2 A:HIS82 3.5 0.0 1.0
ND1 A:HIS91 3.6 0.2 1.0
CG A:HIS91 3.7 0.4 1.0
CG A:HIS57 3.7 0.8 1.0
ND1 A:HIS57 3.8 0.3 1.0
CE1 A:HIS283 3.9 0.6 1.0
CB A:CYS80 4.2 0.5 1.0
CU A:CU602 4.3 87.4 0.8
NE2 A:HIS283 4.3 0.6 1.0
ND1 A:HIS82 4.3 0.8 1.0
CZ3 A:TRP90 4.4 0.9 1.0
CG A:HIS82 4.5 0.1 1.0
CZ A:PHE279 4.5 0.7 1.0
CE1 A:PHE87 4.6 0.8 1.0
ND1 A:HIS283 4.8 0.7 1.0
CE2 A:PHE279 4.8 0.4 1.0
CE3 A:TRP90 4.9 0.1 1.0

Copper binding site 4 out of 8 in 5m6b

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Copper binding site 4 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu602

b:87.4
occ:0.77
 NE2 A:HIS283 1.6 0.6 1.0
NE2 A:HIS251 1.6 98.8 1.0
NE2 A:HIS255 2.1 0.5 1.0
CE1 A:HIS283 2.3 0.6 1.0
CE1 A:HIS251 2.6 99.3 1.0
CD2 A:HIS251 2.7 96.2 1.0
CE1 A:HIS255 2.7 0.3 1.0
O A:O603 2.8 55.8 1.0
CD2 A:HIS283 2.8 0.1 1.0
CD2 A:HIS255 3.3 0.0 1.0
ND1 A:HIS283 3.5 0.7 1.0
CE2 A:PHE279 3.7 0.4 1.0
ND1 A:HIS251 3.7 96.8 1.0
CG A:HIS283 3.7 0.6 1.0
CG A:HIS251 3.8 94.7 1.0
ND1 A:HIS255 3.9 0.3 1.0
CG A:HIS255 4.2 0.7 1.0
CU A:CU601 4.3 92.8 0.8
CD2 A:HIS282 4.3 95.1 1.0
CE2 A:PHE454 4.3 0.2 1.0
CZ A:PHE279 4.4 0.7 1.0
CD2 A:PHE279 4.4 0.8 1.0
NE2 A:HIS57 4.6 0.5 1.0
NE2 A:HIS282 4.6 92.8 1.0
CZ A:PHE454 4.8 0.3 1.0
NE2 A:HIS91 4.9 0.4 1.0
CD2 A:PHE454 4.9 0.3 1.0
CD2 A:HIS91 4.9 0.3 1.0
CE1 A:HIS57 4.9 0.7 1.0

Copper binding site 5 out of 8 in 5m6b

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Copper binding site 5 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu601

b:0.7
occ:0.77
 NE2 C:HIS57 1.9 0.0 1.0
NE2 C:HIS91 1.9 0.6 1.0
NE2 C:HIS82 2.0 0.6 1.0
SG C:CYS80 2.3 0.4 1.0
CE1 C:HIS82 2.4 0.0 1.0
CE1 C:HIS91 2.6 0.6 1.0
CE1 C:HIS57 2.8 0.2 1.0
CD2 C:HIS57 2.9 0.3 1.0
CD2 C:HIS82 3.1 0.9 1.0
CD2 C:HIS91 3.2 0.5 1.0
ND1 C:HIS82 3.5 0.6 1.0
ND1 C:HIS91 3.8 0.9 1.0
ND1 C:HIS57 3.9 0.5 1.0
CG C:HIS82 3.9 0.8 1.0
CG C:HIS57 3.9 0.6 1.0
CB C:CYS80 3.9 0.8 1.0
CG C:HIS91 4.1 0.8 1.0
CE1 C:HIS283 4.1 93.5 1.0
NE2 C:HIS283 4.5 94.8 1.0
CE2 C:PHE454 4.6 0.7 1.0
CE1 C:PHE87 4.6 0.1 1.0
CZ3 C:TRP90 4.7 0.2 1.0
CU C:CU602 4.7 0.9 0.8
CZ C:PHE279 4.8 0.0 1.0
CA C:CYS80 4.9 0.7 1.0
CE1 C:HIS251 4.9 0.2 1.0

Copper binding site 6 out of 8 in 5m6b

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Copper binding site 6 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu602

b:0.9
occ:0.81
 NE2 C:HIS283 1.6 94.8 1.0
NE2 C:HIS255 1.6 0.7 1.0
NE2 C:HIS251 2.1 0.2 1.0
CE1 C:HIS255 2.2 0.7 1.0
CD2 C:HIS283 2.6 96.9 1.0
CE1 C:HIS283 2.6 93.5 1.0
CD2 C:HIS255 2.9 0.4 1.0
CE1 C:HIS251 3.1 0.2 1.0
CD2 C:HIS251 3.1 0.3 1.0
CE2 C:PHE279 3.4 0.3 1.0
ND1 C:HIS255 3.4 0.9 1.0
ND1 C:HIS283 3.7 94.5 1.0
CG C:HIS283 3.7 96.8 1.0
CG C:HIS255 3.8 0.3 1.0
CD2 C:PHE279 4.0 0.6 1.0
CZ C:PHE279 4.0 0.0 1.0
CD2 C:HIS282 4.0 97.4 1.0
CE2 C:PHE454 4.1 0.7 1.0
ND1 C:HIS251 4.2 0.2 1.0
CG C:HIS251 4.2 0.1 1.0
CZ C:PHE454 4.5 0.5 1.0
NE2 C:HIS282 4.5 95.3 1.0
NE2 C:HIS57 4.7 0.0 1.0
CU C:CU601 4.7 0.7 0.8
CD2 C:PHE454 4.8 0.7 1.0
CE C:MET267 5.0 0.9 1.0

Copper binding site 7 out of 8 in 5m6b

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Copper binding site 7 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu601

b:0.2
occ:0.74
 NE2 D:HIS57 1.8 0.4 1.0
NE2 D:HIS91 1.9 0.4 1.0
NE2 D:HIS82 2.2 0.1 1.0
SG D:CYS80 2.4 0.2 1.0
CE1 D:HIS57 2.6 0.2 1.0
CE1 D:HIS82 2.7 1.0 1.0
CE1 D:HIS91 2.8 0.2 1.0
CD2 D:HIS57 2.9 0.3 1.0
CD2 D:HIS91 3.0 0.7 1.0
CD2 D:HIS82 3.3 0.9 1.0
ND1 D:HIS57 3.7 0.7 1.0
ND1 D:HIS82 3.8 0.1 1.0
CG D:HIS57 3.9 0.8 1.0
ND1 D:HIS91 3.9 0.9 1.0
CE1 D:HIS283 4.0 0.3 1.0
CB D:CYS80 4.0 1.0 1.0
CG D:HIS91 4.0 0.6 1.0
CG D:HIS82 4.1 0.4 1.0
CU D:CU602 4.2 0.8 0.7
NE2 D:HIS283 4.5 0.1 1.0
CE1 D:PHE87 4.6 0.6 1.0
NE2 D:HIS251 4.7 0.9 1.0
CZ3 D:TRP90 4.7 0.9 1.0
CE1 D:HIS251 4.8 0.4 1.0
CZ D:PHE279 4.8 0.1 1.0
CE2 D:PHE454 4.9 0.6 1.0
ND1 D:HIS283 4.9 0.9 1.0
CA D:CYS80 5.0 0.9 1.0

Copper binding site 8 out of 8 in 5m6b

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Copper binding site 8 out of 8 in the Structure of Recombinant Mushroom Tyrosinase (ABPPO4)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Structure of Recombinant Mushroom Tyrosinase (ABPPO4) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu602

b:0.8
occ:0.71
 NE2 D:HIS283 1.2 0.1 1.0
NE2 D:HIS251 1.9 0.9 1.0
CE1 D:HIS283 1.9 0.3 1.0
NE2 D:HIS255 2.3 0.1 1.0
CD2 D:HIS283 2.4 0.5 1.0
CD2 D:HIS251 2.5 0.3 1.0
ND1 D:HIS283 3.0 0.9 1.0
CE1 D:HIS251 3.1 0.4 1.0
CE1 D:HIS255 3.1 0.9 1.0
CG D:HIS283 3.3 0.1 1.0
CD2 D:HIS255 3.4 0.8 1.0
CE2 D:PHE279 3.7 0.9 1.0
CG D:HIS251 3.8 0.6 1.0
ND1 D:HIS251 4.0 0.1 1.0
CD2 D:HIS282 4.2 0.2 1.0
ND1 D:HIS255 4.2 0.0 1.0
CU D:CU601 4.2 0.2 0.7
CZ D:PHE279 4.3 0.1 1.0
CG D:HIS255 4.5 0.8 1.0
CD2 D:PHE279 4.5 0.2 1.0
NE2 D:HIS282 4.5 0.1 1.0
NE2 D:HIS57 4.6 0.4 1.0
CD2 D:HIS91 4.7 0.7 1.0
CB D:HIS283 4.8 0.8 1.0
CE2 D:PHE454 4.8 0.6 1.0
NE2 D:HIS91 4.8 0.4 1.0
CE1 D:HIS57 4.9 0.2 1.0

Reference:

M.Pretzler, A.Bijelic, A.Rompel. Heterologous Expression and Characterization of Functional Mushroom Tyrosinase (ABPPO4). Sci Rep V. 7 1810 2017.
ISSN: ESSN 2045-2322
PubMed: 28500345
DOI: 10.1038/S41598-017-01813-1
Page generated: Wed Jul 31 04:29:25 2024

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