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Copper in PDB 1gw0: Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form

Enzymatic activity of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form

All present enzymatic activity of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form:
1.10.3.2;

Protein crystallography data

The structure of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form, PDB code: 1gw0 was solved by N.Hakulinen, L.-L.Kiiskinen, K.Kruus, M.Saloheimo, A.Koivula, J.Rouvinen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 100.00 / 2.40
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 62.510, 72.300, 88.940, 110.40, 95.23, 109.74
R / Rfree (%) 18.9 / 24.8

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form (pdb code 1gw0). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 8 binding sites of Copper where determined in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form, PDB code: 1gw0:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Copper binding site 1 out of 8 in 1gw0

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Copper binding site 1 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu602

b:26.9
occ:1.00
ND1 A:HIS431 1.9 18.1 1.0
ND1 A:HIS508 1.9 17.0 1.0
SG A:CYS503 2.2 22.8 1.0
CE1 A:HIS431 2.7 14.3 1.0
CG A:HIS508 2.9 12.9 1.0
CE1 A:HIS508 2.9 13.8 1.0
CG A:HIS431 3.0 15.5 1.0
CB A:HIS508 3.3 13.2 1.0
CB A:CYS503 3.3 20.1 1.0
CB A:HIS431 3.6 13.2 1.0
CD1 A:LEU513 3.7 11.1 1.0
CD1 A:ILE505 3.9 16.4 1.0
NE2 A:HIS431 3.9 16.3 1.0
CA A:HIS431 3.9 14.6 1.0
NE2 A:HIS508 4.0 12.2 1.0
CD2 A:HIS508 4.0 13.3 1.0
CD2 A:HIS431 4.1 14.6 1.0
CB A:ILE505 4.1 16.4 1.0
CG1 A:ILE505 4.3 16.7 1.0
CD A:PRO432 4.4 17.0 1.0
O A:PRO430 4.5 17.1 1.0
CA A:CYS503 4.7 19.8 1.0
CA A:HIS508 4.8 14.0 1.0
C A:HIS431 4.8 16.1 1.0
CG2 A:ILE505 4.9 14.4 1.0
N A:PRO432 4.9 16.5 1.0
CG A:LEU513 4.9 15.7 1.0
N A:ILE505 4.9 19.4 1.0

Copper binding site 2 out of 8 in 1gw0

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Copper binding site 2 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu603

b:23.3
occ:1.00
NE2 A:HIS436 1.9 16.8 1.0
NE2 A:HIS140 2.0 22.4 1.0
NE2 A:HIS502 2.0 22.5 1.0
O2 A:OXY601 2.4 25.8 1.0
O1 A:OXY601 2.6 22.7 1.0
CE1 A:HIS436 2.7 12.3 1.0
CE1 A:HIS140 2.9 19.8 1.0
CE1 A:HIS502 2.9 19.6 1.0
CD2 A:HIS140 3.0 19.1 1.0
CD2 A:HIS502 3.0 17.9 1.0
CD2 A:HIS436 3.1 14.4 1.0
ND1 A:HIS436 3.9 13.1 1.0
CU A:CU605 3.9 26.8 1.0
CD2 A:HIS434 4.0 18.0 1.0
ND1 A:HIS140 4.0 19.8 1.0
ND1 A:HIS502 4.0 19.6 1.0
CD2 A:HIS93 4.0 14.0 1.0
CG A:HIS140 4.1 20.4 1.0
CG A:HIS436 4.1 13.0 1.0
CG A:HIS502 4.1 19.2 1.0
NE2 A:HIS93 4.2 19.0 1.0
NE2 A:HIS434 4.4 22.5 1.0
CG A:HIS93 4.7 15.7 1.0
CD1 A:LEU500 4.7 16.4 1.0
CE1 A:HIS138 4.8 12.9 1.0
CE1 A:HIS93 4.8 16.4 1.0
CB A:LEU500 4.9 13.2 1.0
CU A:CU604 4.9 25.5 1.0

Copper binding site 3 out of 8 in 1gw0

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Copper binding site 3 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu604

b:25.5
occ:1.00
ND1 A:HIS95 1.9 21.9 1.0
NE2 A:HIS138 1.9 16.2 1.0
NE2 A:HIS504 1.9 25.0 1.0
O1 A:OXY601 2.5 22.7 1.0
O2 A:OXY601 2.7 25.8 1.0
CE1 A:HIS95 2.8 21.7 1.0
CE1 A:HIS504 2.8 23.5 1.0
CE1 A:HIS138 2.9 12.9 1.0
CG A:HIS95 2.9 20.3 1.0
CD2 A:HIS138 3.0 13.6 1.0
CD2 A:HIS504 3.0 22.9 1.0
CB A:HIS95 3.4 19.8 1.0
CZ2 A:TRP136 3.5 12.7 1.0
NE2 A:HIS95 3.9 21.3 1.0
ND1 A:HIS504 4.0 22.2 1.0
ND1 A:HIS138 4.0 13.9 1.0
CD2 A:HIS95 4.0 22.4 1.0
CE2 A:TRP136 4.0 12.9 1.0
CH2 A:TRP136 4.1 13.3 1.0
CG A:HIS138 4.1 15.4 1.0
CD2 A:HIS93 4.1 14.0 1.0
CG A:HIS504 4.1 22.6 1.0
CU A:CU605 4.2 26.8 1.0
NE1 A:TRP136 4.4 13.1 1.0
NE2 A:HIS434 4.5 22.5 1.0
NE2 A:HIS93 4.5 19.0 1.0
CD2 A:HIS434 4.5 18.0 1.0
CA A:HIS95 4.6 18.5 1.0
CU A:CU603 4.9 23.3 1.0
CD2 A:TRP136 4.9 13.1 1.0
CZ3 A:TRP136 4.9 12.4 1.0

Copper binding site 4 out of 8 in 1gw0

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Copper binding site 4 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu605

b:26.8
occ:1.00
NE2 A:HIS93 1.9 19.0 1.0
NE2 A:HIS434 1.9 22.5 1.0
CL A:CL606 2.5 32.0 1.0
O1 A:OXY601 2.6 22.7 1.0
CE1 A:HIS93 2.8 16.4 1.0
CE1 A:HIS434 2.9 20.1 1.0
CD2 A:HIS436 2.9 14.4 1.0
CD2 A:HIS93 2.9 14.0 1.0
CD2 A:HIS434 3.0 18.0 1.0
NE2 A:HIS436 3.1 16.8 1.0
ND1 A:HIS95 3.6 21.9 1.0
CG A:HIS436 3.6 13.0 1.0
O2 A:OXY601 3.8 25.8 1.0
CA A:HIS95 3.8 18.5 1.0
CG A:HIS95 3.9 20.3 1.0
CE1 A:HIS436 3.9 12.3 1.0
ND1 A:HIS93 3.9 17.3 1.0
CU A:CU603 3.9 23.3 1.0
ND1 A:HIS434 4.0 20.3 1.0
CG A:HIS93 4.0 15.7 1.0
CG A:HIS434 4.1 18.9 1.0
CE1 A:HIS95 4.1 21.7 1.0
CB A:HIS95 4.1 19.8 1.0
ND1 A:HIS436 4.2 13.1 1.0
CU A:CU604 4.2 25.5 1.0
CA A:HIS436 4.4 11.8 1.0
CD2 A:HIS95 4.5 22.4 1.0
CB A:HIS436 4.6 12.4 1.0
N A:GLY96 4.6 15.3 1.0
N A:HIS95 4.6 19.5 1.0
NE2 A:HIS95 4.7 21.3 1.0
C A:HIS95 4.7 17.5 1.0
N A:HIS436 4.8 12.6 1.0
O A:LEU435 4.8 15.0 1.0
C A:LEU435 5.0 12.7 1.0

Copper binding site 5 out of 8 in 1gw0

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Copper binding site 5 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu602

b:25.5
occ:1.00
ND1 B:HIS508 1.9 21.5 1.0
ND1 B:HIS431 1.9 24.1 1.0
SG B:CYS503 2.2 20.8 1.0
CE1 B:HIS431 2.8 24.1 1.0
CG B:HIS508 2.9 18.6 1.0
CE1 B:HIS508 2.9 21.3 1.0
CG B:HIS431 3.0 20.6 1.0
CB B:HIS508 3.2 15.5 1.0
CB B:CYS503 3.2 17.8 1.0
CB B:HIS431 3.5 17.4 1.0
CD1 B:LEU513 3.6 14.9 1.0
CA B:HIS431 3.9 16.4 1.0
NE2 B:HIS431 4.0 23.5 1.0
CD1 B:ILE505 4.0 11.8 1.0
CD2 B:HIS508 4.0 20.1 1.0
NE2 B:HIS508 4.0 21.1 1.0
CD2 B:HIS431 4.1 21.5 1.0
CB B:ILE505 4.1 12.4 1.0
CG1 B:ILE505 4.4 10.3 1.0
CD B:PRO432 4.5 14.9 1.0
O B:PRO430 4.5 15.7 1.0
CA B:CYS503 4.6 18.9 1.0
CA B:HIS508 4.7 14.7 1.0
C B:HIS431 4.9 16.8 1.0
CG2 B:ILE505 4.9 9.3 1.0
CG B:LEU513 4.9 15.8 1.0
N B:PRO432 4.9 15.9 1.0
N B:ILE505 5.0 14.7 1.0
N B:HIS431 5.0 16.0 1.0

Copper binding site 6 out of 8 in 1gw0

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Copper binding site 6 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu603

b:28.2
occ:1.00
NE2 B:HIS436 1.9 22.3 1.0
NE2 B:HIS140 1.9 24.5 1.0
NE2 B:HIS502 2.0 21.2 1.0
O2 B:OXY601 2.4 23.6 1.0
O1 B:OXY601 2.5 19.3 1.0
CE1 B:HIS436 2.6 17.9 1.0
CE1 B:HIS140 2.8 22.5 1.0
CE1 B:HIS502 2.9 20.1 1.0
CD2 B:HIS502 3.0 19.1 1.0
CD2 B:HIS140 3.0 23.3 1.0
CD2 B:HIS436 3.1 19.8 1.0
ND1 B:HIS436 3.8 16.6 1.0
CU B:CU605 3.9 27.3 1.0
ND1 B:HIS140 4.0 23.2 1.0
ND1 B:HIS502 4.0 20.0 1.0
CG B:HIS436 4.1 18.7 1.0
CD2 B:HIS93 4.1 19.5 1.0
CG B:HIS140 4.1 22.8 1.0
CD2 B:HIS434 4.1 13.8 1.0
CG B:HIS502 4.1 19.3 1.0
NE2 B:HIS93 4.2 21.4 1.0
NE2 B:HIS434 4.6 18.6 1.0
CD1 B:LEU500 4.7 14.5 1.0
CU B:CU604 4.8 23.7 1.0
CG B:HIS93 4.8 21.3 1.0
CE1 B:HIS138 4.8 11.6 1.0
CE1 B:HIS93 4.9 18.7 1.0
CB B:LEU500 4.9 13.1 1.0
NE2 B:HIS504 4.9 24.8 1.0

Copper binding site 7 out of 8 in 1gw0

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Copper binding site 7 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu604

b:23.7
occ:1.00
ND1 B:HIS95 1.9 21.6 1.0
NE2 B:HIS504 2.0 24.8 1.0
NE2 B:HIS138 2.0 15.7 1.0
O1 B:OXY601 2.5 19.3 1.0
O2 B:OXY601 2.5 23.6 1.0
CE1 B:HIS95 2.8 19.1 1.0
CG B:HIS95 2.9 17.1 1.0
CE1 B:HIS504 2.9 22.2 1.0
CE1 B:HIS138 2.9 11.6 1.0
CD2 B:HIS504 3.0 22.4 1.0
CD2 B:HIS138 3.0 10.7 1.0
CB B:HIS95 3.3 16.8 1.0
CZ2 B:TRP136 3.7 16.1 1.0
CU B:CU605 3.9 27.3 1.0
NE2 B:HIS95 3.9 18.8 1.0
CD2 B:HIS93 3.9 19.5 1.0
CD2 B:HIS95 4.0 19.1 1.0
ND1 B:HIS504 4.1 21.1 1.0
ND1 B:HIS138 4.1 8.0 1.0
CG B:HIS504 4.1 22.5 1.0
CG B:HIS138 4.1 11.9 1.0
CE2 B:TRP136 4.2 16.2 1.0
NE2 B:HIS434 4.3 18.6 1.0
CH2 B:TRP136 4.3 15.9 1.0
CD2 B:HIS434 4.3 13.8 1.0
NE2 B:HIS93 4.3 21.4 1.0
NE1 B:TRP136 4.4 17.5 1.0
CA B:HIS95 4.4 16.1 1.0
CU B:CU603 4.8 28.2 1.0

Copper binding site 8 out of 8 in 1gw0

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Copper binding site 8 out of 8 in the Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Crystal Structure of Laccase From Melanocarpus Albomyces in Four Copper Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu605

b:27.3
occ:1.00
NE2 B:HIS93 1.9 21.4 1.0
NE2 B:HIS434 1.9 18.6 1.0
CL B:CL606 2.4 25.8 1.0
O1 B:OXY601 2.4 19.3 1.0
CD2 B:HIS434 2.8 13.8 1.0
CE1 B:HIS93 2.9 18.7 1.0
CD2 B:HIS93 2.9 19.5 1.0
CE1 B:HIS434 3.0 12.5 1.0
CD2 B:HIS436 3.0 19.8 1.0
NE2 B:HIS436 3.2 22.3 1.0
O2 B:OXY601 3.6 23.6 1.0
CG B:HIS436 3.7 18.7 1.0
CA B:HIS95 3.8 16.1 1.0
CU B:CU604 3.9 23.7 1.0
CG B:HIS95 3.9 17.1 1.0
CE1 B:HIS436 3.9 17.9 1.0
CU B:CU603 3.9 28.2 1.0
ND1 B:HIS93 4.0 21.3 1.0
ND1 B:HIS95 4.0 21.6 1.0
CG B:HIS434 4.0 15.1 1.0
CG B:HIS93 4.0 21.3 1.0
ND1 B:HIS434 4.1 15.2 1.0
CB B:HIS95 4.1 16.8 1.0
ND1 B:HIS436 4.2 16.6 1.0
CD2 B:HIS95 4.3 19.1 1.0
CE1 B:HIS95 4.4 19.1 1.0
CA B:HIS436 4.5 15.5 1.0
NE2 B:HIS95 4.5 18.8 1.0
N B:GLY96 4.6 14.8 1.0
N B:HIS95 4.6 16.4 1.0
CB B:HIS436 4.6 16.6 1.0
C B:HIS95 4.7 16.1 1.0
O B:LEU435 4.8 15.5 1.0
N B:HIS436 4.9 13.6 1.0

Reference:

N.Hakulinen, L.-L.Kiiskinen, K.Kruus, M.Saloheimo, A.Paananen, A.Koivula, J.Rouvinen. Crystal Structure of A Laccase From Melanocarpus Albomyces with An Intact Trinuclear Copper Site Nat.Struct.Biol. V. 9 601 2002.
ISSN: ISSN 1072-8368
PubMed: 12118243
DOI: 10.1038/NSB823
Page generated: Thu Sep 3 15:57:12 2020
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