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Copper in PDB 1v10: Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals

Enzymatic activity of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals

All present enzymatic activity of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals:
1.10.3.2;

Protein crystallography data

The structure of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals, PDB code: 1v10 was solved by M.Rizzi, S.Garavaglia, F.Palmieri, A.Cambria, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.0 / 1.7
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 124.914, 124.914, 95.117, 90.00, 90.00, 120.00
R / Rfree (%) 22.6 / 26.6

Copper Binding Sites:

The binding sites of Copper atom in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals (pdb code 1v10). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals, PDB code: 1v10:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 1v10

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Copper binding site 1 out of 4 in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1500

b:14.6
occ:1.00
ND1 A:HIS66 1.8 13.2 1.0
NE2 A:HIS109 2.1 18.4 1.0
NE2 A:HIS453 2.3 9.4 1.0
CE1 A:HIS66 2.7 10.8 1.0
CG A:HIS66 2.9 11.3 1.0
CE1 A:HIS109 3.0 9.8 1.0
CE1 A:HIS453 3.1 10.4 1.0
CD2 A:HIS109 3.2 17.6 1.0
CD2 A:HIS453 3.4 11.7 1.0
CB A:HIS66 3.4 11.3 1.0
O A:HOH2071 3.4 20.3 1.0
CZ2 A:TRP107 3.5 12.0 1.0
CE2 A:TRP107 3.9 15.1 1.0
NE2 A:HIS66 3.9 15.1 1.0
CD2 A:HIS64 3.9 16.2 1.0
NE1 A:TRP107 4.0 8.3 1.0
CD2 A:HIS66 4.0 11.2 1.0
CU A:CU1502 4.0 20.2 1.0
ND1 A:HIS109 4.1 10.6 1.0
CG A:HIS109 4.2 0.8 1.0
ND1 A:HIS453 4.3 9.1 1.0
CD2 A:HIS399 4.3 7.3 1.0
NE2 A:HIS399 4.3 7.6 1.0
CH2 A:TRP107 4.3 6.5 1.0
CG A:HIS453 4.4 2.7 1.0
NE2 A:HIS64 4.4 3.7 1.0
CA A:HIS66 4.6 10.6 1.0
CD2 A:TRP107 4.9 16.6 1.0
CD1 A:TRP107 5.0 9.5 1.0

Copper binding site 2 out of 4 in 1v10

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Copper binding site 2 out of 4 in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1501

b:19.1
occ:1.00
O A:HOH2071 1.7 20.3 1.0
NE2 A:HIS451 1.8 9.1 1.0
NE2 A:HIS401 2.0 11.9 1.0
NE2 A:HIS111 2.2 7.0 1.0
CE1 A:HIS451 2.4 3.8 1.0
CE1 A:HIS111 2.8 2.5 1.0
CE1 A:HIS401 2.9 9.7 1.0
CD2 A:HIS451 3.1 7.6 1.0
CD2 A:HIS401 3.1 12.1 1.0
CD2 A:HIS111 3.4 19.2 1.0
ND1 A:HIS451 3.6 19.5 1.0
CD2 A:HIS399 3.8 7.3 1.0
ND1 A:HIS111 4.0 18.5 1.0
CG A:HIS451 4.0 2.6 1.0
ND1 A:HIS401 4.0 14.2 1.0
CD2 A:PHE449 4.1 6.2 1.0
CU A:CU1502 4.1 20.2 1.0
CG A:HIS401 4.2 12.4 1.0
CG A:HIS111 4.3 11.9 1.0
NE2 A:HIS399 4.4 7.6 1.0
CD2 A:HIS64 4.4 16.2 1.0
CB A:PHE449 4.6 24.6 1.0
NE2 A:HIS64 4.7 3.7 1.0
CG A:PHE449 4.7 8.2 1.0
CE2 A:PHE449 4.8 11.7 1.0
CG A:PRO79 4.9 19.5 1.0
CG A:HIS399 4.9 0.0 1.0

Copper binding site 3 out of 4 in 1v10

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Copper binding site 3 out of 4 in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1502

b:20.2
occ:1.00
NE2 A:HIS399 1.8 7.6 1.0
NE2 A:HIS64 2.1 3.7 1.0
O A:HOH2018 2.4 26.6 1.0
CD2 A:HIS399 2.8 7.3 1.0
CE1 A:HIS399 2.8 3.6 1.0
CD2 A:HIS64 3.0 16.2 1.0
O A:HOH2071 3.0 20.3 1.0
CE1 A:HIS64 3.1 3.1 1.0
NE2 A:HIS401 3.2 11.9 1.0
CD2 A:HIS401 3.4 12.1 1.0
CE1 A:HIS401 3.5 9.7 1.0
ND1 A:HIS66 3.6 13.2 1.0
CG A:HIS66 3.6 11.3 1.0
CG A:HIS401 3.8 12.4 1.0
ND1 A:HIS401 3.8 14.2 1.0
ND1 A:HIS399 3.9 11.3 1.0
CG A:HIS399 3.9 0.0 1.0
CA A:HIS66 3.9 10.6 1.0
CE1 A:HIS66 4.0 10.8 1.0
N A:GLY67 4.0 1.7 1.0
CD2 A:HIS66 4.0 11.2 1.0
CU A:CU1500 4.0 14.6 1.0
CB A:HIS66 4.0 11.3 1.0
CU A:CU1501 4.1 19.1 1.0
ND1 A:HIS64 4.1 12.6 1.0
CG A:HIS64 4.2 15.4 1.0
NE2 A:HIS66 4.2 15.1 1.0
O A:HOH2019 4.6 9.9 1.0
C A:HIS66 4.6 14.6 1.0
CB A:HIS401 4.7 7.7 1.0
CA A:HIS401 4.7 7.3 1.0
O A:HOH2073 4.8 7.1 1.0
O A:LEU400 4.9 11.1 1.0
N A:HIS66 5.0 6.7 1.0

Copper binding site 4 out of 4 in 1v10

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Copper binding site 4 out of 4 in the Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Structure of Rigidoporus Lignosus Laccase From Hemihedrally Twinned Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1503

b:20.0
occ:1.00
ND1 A:HIS396 2.1 23.6 1.0
ND1 A:HIS457 2.1 20.7 1.0
SG A:CYS452 2.2 21.6 1.0
CE1 A:HIS396 3.0 25.0 1.0
CG A:HIS457 3.1 7.5 1.0
CB A:CYS452 3.1 5.4 1.0
CE1 A:HIS457 3.2 26.7 1.0
CG A:HIS396 3.2 7.8 1.0
CD1 A:ILE454 3.2 9.8 1.0
CB A:HIS457 3.4 11.9 1.0
CB A:HIS396 3.5 15.1 1.0
CD2 A:LEU462 3.7 10.8 1.0
CB A:ILE454 3.7 11.8 1.0
CG1 A:ILE454 3.9 9.4 1.0
CA A:HIS396 4.0 7.2 1.0
NE2 A:HIS396 4.1 16.1 1.0
CD2 A:HIS396 4.2 7.0 1.0
NE2 A:HIS457 4.3 22.8 1.0
CD2 A:HIS457 4.3 24.2 1.0
CG2 A:ILE454 4.3 27.2 1.0
CD A:PRO397 4.5 17.7 1.0
CA A:CYS452 4.5 8.7 1.0
CA A:ILE454 4.8 16.8 1.0
CG A:LEU462 4.8 19.6 1.0
N A:ILE454 4.8 23.4 1.0
CA A:HIS457 4.9 10.3 1.0
C A:HIS396 5.0 14.9 1.0
N A:HIS396 5.0 19.4 1.0
O A:ILE454 5.0 5.7 1.0

Reference:

S.Garavaglia, M.T.Cambria, M.Miglio, S.Ragusa, V.Iacobazzi, F.Palmieri, C.D'ambrosio, A.Scaloni, M.Rizzi. The Structure of Rigidoporus Lignosus Laccase Containing A Full Complement of Copper Ions, Reveals An Asymmetrical Arrangement For the T3 Copper Pair J.Mol.Biol. V. 342 1519 2004.
ISSN: ISSN 0022-2836
PubMed: 15364578
DOI: 10.1016/J.JMB.2004.07.100
Page generated: Thu Sep 3 16:21:54 2020
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