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Copper in PDB 2qt6: Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus

Enzymatic activity of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus

All present enzymatic activity of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus:
1.10.3.2;

Protein crystallography data

The structure of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus, PDB code: 2qt6 was solved by M.Ferraroni, F.Briganti, A.Scozzafava, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.218, 111.613, 97.086, 90.00, 97.75, 90.00
R / Rfree (%) 15 / 18.2

Other elements in 2qt6:

The structure of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Calcium (Ca) 6 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus (pdb code 2qt6). 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 Determination of A Blue Laccase From Lentinus Tigrinus, PDB code: 2qt6:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Copper binding site 1 out of 8 in 2qt6

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Copper binding site 1 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu499

b:19.2
occ:0.75
 ND1 A:HIS457 2.0 16.1 1.0
ND1 A:HIS394 2.0 16.7 1.0
SG A:CYS452 2.2 16.7 1.0
CE1 A:HIS394 2.9 19.2 1.0
CE1 A:HIS457 3.0 17.6 1.0
CG A:HIS457 3.0 16.4 1.0
CG A:HIS394 3.1 16.1 1.0
CB A:CYS452 3.3 15.4 1.0
CB A:HIS457 3.4 15.8 1.0
CB A:HIS394 3.5 15.4 1.0
CD1 A:ILE454 3.6 15.4 1.0
CD2 A:PHE462 3.7 14.4 1.0
CB A:ILE454 3.8 15.2 1.0
CE2 A:PHE462 3.8 16.6 1.0
CA A:HIS394 4.0 16.0 1.0
NE2 A:HIS394 4.1 17.3 1.0
CG1 A:ILE454 4.1 15.6 1.0
NE2 A:HIS457 4.1 18.2 1.0
CD2 A:HIS457 4.2 17.1 1.0
CD2 A:HIS394 4.2 16.8 1.0
CG2 A:ILE454 4.6 16.0 1.0
CD A:PRO395 4.7 16.1 1.0
CA A:CYS452 4.7 14.4 1.0
O A:GLY391 4.7 20.7 1.0
N A:ILE454 4.8 15.6 1.0
CA A:ILE454 4.8 15.6 1.0
O A:ILE454 4.9 15.5 1.0
CA A:HIS457 4.9 15.5 1.0
CG A:PHE462 5.0 14.3 1.0
C A:HIS394 5.0 16.1 1.0

Copper binding site 2 out of 8 in 2qt6

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Copper binding site 2 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu500

b:19.7
occ:0.50
 NE2 A:HIS397 1.9 17.5 1.0
NE2 A:HIS64 1.9 15.5 1.0
O A:HOH4600 2.2 48.4 1.0
O A:HOH4017 2.4 18.1 1.0
CE1 A:HIS64 2.8 16.1 1.0
CD2 A:HIS397 2.9 17.6 1.0
CE1 A:HIS397 2.9 17.8 1.0
CD2 A:HIS64 3.0 14.7 1.0
NE2 A:HIS399 3.3 16.8 1.0
CE1 A:HIS399 3.4 16.3 1.0
ND1 A:HIS66 3.5 15.6 1.0
CD2 A:HIS399 3.6 16.0 1.0
ND1 A:HIS399 3.6 14.7 1.0
CG A:HIS66 3.7 14.7 1.0
CG A:HIS399 3.7 15.0 1.0
CE1 A:HIS66 3.8 16.7 1.0
CA A:HIS66 3.9 16.4 1.0
N A:GLY67 3.9 16.0 1.0
ND1 A:HIS64 3.9 16.3 1.0
ND1 A:HIS397 4.0 17.3 1.0
CG A:HIS397 4.0 16.1 1.0
CG A:HIS64 4.0 15.9 1.0
CU A:CU502 4.1 21.2 0.8
O A:HOH3898 4.1 21.8 0.8
CD2 A:HIS66 4.1 16.1 1.0
NE2 A:HIS66 4.2 16.1 1.0
CB A:HIS66 4.2 16.0 1.0
CU A:CU501 4.3 22.4 0.8
C A:HIS66 4.4 16.3 1.0
O A:HOH4054 4.5 19.5 1.0
CA A:HIS399 4.6 15.2 1.0
CB A:HIS399 4.7 14.0 1.0
O A:HOH4012 4.7 19.9 1.0
CA A:GLY67 5.0 15.9 1.0
N A:HIS66 5.0 15.1 1.0

Copper binding site 3 out of 8 in 2qt6

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Copper binding site 3 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:22.4
occ:0.75
 NE2 A:HIS399 2.0 16.8 1.0
NE2 A:HIS451 2.0 16.7 1.0
NE2 A:HIS111 2.0 16.4 1.0
O A:HOH3898 2.2 21.8 0.8
CE1 A:HIS399 2.8 16.3 1.0
O A:HOH4600 2.9 48.4 1.0
CE1 A:HIS451 3.0 16.9 1.0
CE1 A:HIS111 3.0 14.8 1.0
CD2 A:HIS451 3.0 15.9 1.0
CD2 A:HIS111 3.1 16.7 1.0
CD2 A:HIS399 3.1 16.0 1.0
CD2 A:HIS397 3.8 17.6 1.0
O A:HOH4152 3.8 24.5 1.0
ND1 A:HIS399 4.0 14.7 1.0
ND1 A:HIS451 4.1 16.6 1.0
CG A:HIS451 4.1 15.2 1.0
ND1 A:HIS111 4.1 15.6 1.0
CG A:HIS399 4.2 15.0 1.0
CD2 A:PHE449 4.2 15.3 1.0
CG A:HIS111 4.2 15.4 1.0
CU A:CU500 4.3 19.7 0.5
CD2 A:HIS64 4.5 14.7 1.0
NE2 A:HIS397 4.5 17.5 1.0
CB A:PHE449 4.5 14.4 1.0
CG A:PRO79 4.6 15.5 1.0
NE2 A:HIS64 4.6 15.5 1.0
CG A:PHE449 4.8 14.8 1.0
NE2 A:HIS453 4.9 16.4 1.0
CD2 A:HIS453 4.9 14.8 1.0
CG A:HIS397 4.9 16.1 1.0
CU A:CU502 4.9 21.2 0.8
CE1 A:HIS109 4.9 16.2 1.0

Copper binding site 4 out of 8 in 2qt6

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Copper binding site 4 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:21.2
occ:0.75
 ND1 A:HIS66 2.0 15.6 1.0
NE2 A:HIS109 2.0 16.3 1.0
NE2 A:HIS453 2.1 16.4 1.0
O A:HOH4600 2.6 48.4 1.0
CE1 A:HIS66 2.9 16.7 1.0
O A:HOH3898 3.0 21.8 0.8
CD2 A:HIS109 3.0 14.5 1.0
CE1 A:HIS109 3.0 16.2 1.0
CE1 A:HIS453 3.0 16.0 1.0
CG A:HIS66 3.1 14.7 1.0
CD2 A:HIS453 3.2 14.8 1.0
CB A:HIS66 3.5 16.0 1.0
CZ2 A:TRP107 3.6 15.6 1.0
CD2 A:HIS64 3.8 14.7 1.0
CE2 A:TRP107 3.9 14.5 1.0
NE1 A:TRP107 4.0 15.4 1.0
NE2 A:HIS66 4.1 16.1 1.0
ND1 A:HIS109 4.1 16.4 1.0
CU A:CU500 4.1 19.7 0.5
CG A:HIS109 4.1 13.6 1.0
CD2 A:HIS66 4.2 16.1 1.0
ND1 A:HIS453 4.2 15.0 1.0
CG A:HIS453 4.3 14.2 1.0
NE2 A:HIS64 4.3 15.5 1.0
CB A:ALA241 4.3 15.0 1.0
CD2 A:HIS397 4.4 17.6 1.0
CH2 A:TRP107 4.4 16.0 1.0
O A:HOH4152 4.4 24.5 1.0
NE2 A:HIS397 4.5 17.5 1.0
CA A:HIS66 4.6 16.4 1.0
CD2 A:TRP107 4.8 13.7 1.0
CU A:CU501 4.9 22.4 0.8
CD1 A:TRP107 5.0 15.2 1.0

Copper binding site 5 out of 8 in 2qt6

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Copper binding site 5 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu499

b:24.2
occ:0.75
 ND1 B:HIS457 2.0 20.3 1.0
ND1 B:HIS394 2.0 22.0 1.0
SG B:CYS452 2.3 20.6 1.0
CE1 B:HIS394 2.9 24.1 1.0
CE1 B:HIS457 3.0 23.8 1.0
CG B:HIS457 3.0 21.2 1.0
CG B:HIS394 3.1 21.9 1.0
CB B:CYS452 3.3 18.8 1.0
CB B:HIS457 3.4 21.6 1.0
CB B:HIS394 3.5 21.2 1.0
CD1 B:ILE454 3.6 20.2 1.0
CD2 B:PHE462 3.7 20.7 1.0
CB B:ILE454 3.8 18.5 1.0
CE2 B:PHE462 3.8 21.7 1.0
CA B:HIS394 4.0 21.0 1.0
NE2 B:HIS394 4.1 24.4 1.0
CG1 B:ILE454 4.1 18.6 1.0
NE2 B:HIS457 4.1 22.3 1.0
CD2 B:HIS457 4.1 22.6 1.0
CD2 B:HIS394 4.2 24.3 1.0
CG2 B:ILE454 4.6 18.6 1.0
CD B:PRO395 4.6 19.4 1.0
CA B:CYS452 4.7 18.6 1.0
O B:GLY391 4.7 27.0 1.0
N B:ILE454 4.8 18.3 1.0
CA B:HIS457 4.9 20.9 1.0
CA B:ILE454 4.9 19.1 1.0
O B:ILE454 4.9 20.2 1.0
C B:HIS394 5.0 19.7 1.0
CG B:PHE462 5.0 21.1 1.0

Copper binding site 6 out of 8 in 2qt6

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Copper binding site 6 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu500

b:23.9
occ:0.50
 NE2 B:HIS64 1.9 18.5 1.0
NE2 B:HIS397 1.9 20.0 1.0
O B:HOH3988 2.5 20.9 1.0
CE1 B:HIS64 2.8 19.4 1.0
CE1 B:HIS397 2.9 21.3 1.0
CD2 B:HIS397 2.9 19.1 1.0
CD2 B:HIS64 2.9 18.6 1.0
O1 B:PER503 3.1 33.7 0.8
NE2 B:HIS399 3.4 17.9 1.0
ND1 B:HIS66 3.5 18.5 1.0
CE1 B:HIS399 3.5 18.4 1.0
CD2 B:HIS399 3.6 18.2 1.0
ND1 B:HIS399 3.7 17.3 1.0
CG B:HIS66 3.7 17.5 1.0
CG B:HIS399 3.8 18.0 1.0
CE1 B:HIS66 3.8 17.8 1.0
ND1 B:HIS64 3.9 18.9 1.0
CA B:HIS66 3.9 17.6 1.0
N B:GLY67 3.9 17.6 1.0
ND1 B:HIS397 4.0 19.1 1.0
CG B:HIS397 4.0 19.7 1.0
CG B:HIS64 4.0 18.4 1.0
CU B:CU502 4.1 24.1 0.8
CD2 B:HIS66 4.2 17.3 1.0
O2 B:PER503 4.2 23.6 0.8
NE2 B:HIS66 4.2 16.9 1.0
CB B:HIS66 4.2 17.6 1.0
CU B:CU501 4.3 26.9 0.8
C B:HIS66 4.5 17.6 1.0
O B:HOH4002 4.5 21.2 1.0
CA B:HIS399 4.5 16.5 1.0
O B:HOH4009 4.6 20.8 1.0
CB B:HIS399 4.6 17.4 1.0
CA B:GLY67 5.0 17.7 1.0

Copper binding site 7 out of 8 in 2qt6

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Copper binding site 7 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu501

b:26.9
occ:0.75
 NE2 B:HIS111 2.0 19.9 1.0
NE2 B:HIS399 2.0 17.9 1.0
NE2 B:HIS451 2.0 22.1 1.0
O2 B:PER503 2.1 23.6 0.8
CE1 B:HIS399 2.9 18.4 1.0
O1 B:PER503 3.0 33.7 0.8
CE1 B:HIS111 3.0 19.7 1.0
CD2 B:HIS111 3.0 17.1 1.0
CE1 B:HIS451 3.0 18.5 1.0
CD2 B:HIS451 3.0 18.4 1.0
CD2 B:HIS399 3.1 18.2 1.0
O B:HOH4069 3.8 27.4 1.0
CD2 B:HIS397 3.8 19.1 1.0
ND1 B:HIS399 4.0 17.3 1.0
ND1 B:HIS111 4.1 18.7 1.0
ND1 B:HIS451 4.1 19.0 1.0
CG B:HIS111 4.1 17.8 1.0
CG B:HIS451 4.1 18.3 1.0
CG B:HIS399 4.2 18.0 1.0
CD2 B:PHE449 4.3 20.6 1.0
CU B:CU500 4.3 23.9 0.5
CD2 B:HIS64 4.4 18.6 1.0
NE2 B:HIS397 4.5 20.0 1.0
CG B:PRO79 4.6 19.5 1.0
CB B:PHE449 4.6 18.9 1.0
NE2 B:HIS64 4.6 18.5 1.0
NE2 B:HIS453 4.9 16.7 1.0
CG B:PHE449 4.9 18.8 1.0
CD2 B:HIS453 4.9 17.9 1.0
CU B:CU502 4.9 24.1 0.8
CG B:HIS397 4.9 19.7 1.0
CE1 B:HIS109 4.9 17.8 1.0

Copper binding site 8 out of 8 in 2qt6

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Copper binding site 8 out of 8 in the Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Crystal Structure Determination of A Blue Laccase From Lentinus Tigrinus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu502

b:24.1
occ:0.75
 ND1 B:HIS66 2.0 18.5 1.0
NE2 B:HIS109 2.0 18.3 1.0
O1 B:PER503 2.0 33.7 0.8
NE2 B:HIS453 2.1 16.7 1.0
CE1 B:HIS66 2.9 17.8 1.0
CE1 B:HIS109 3.0 17.8 1.0
CE1 B:HIS453 3.0 17.0 1.0
CD2 B:HIS109 3.0 16.6 1.0
O2 B:PER503 3.0 23.6 0.8
CG B:HIS66 3.1 17.5 1.0
CD2 B:HIS453 3.2 17.9 1.0
CB B:HIS66 3.5 17.6 1.0
CZ2 B:TRP107 3.6 16.9 1.0
CD2 B:HIS64 3.8 18.6 1.0
CE2 B:TRP107 3.9 16.2 1.0
NE1 B:TRP107 4.0 16.8 1.0
NE2 B:HIS66 4.0 16.9 1.0
ND1 B:HIS109 4.1 17.8 1.0
CU B:CU500 4.1 23.9 0.5
CG B:HIS109 4.1 16.7 1.0
CD2 B:HIS66 4.1 17.3 1.0
ND1 B:HIS453 4.1 16.8 1.0
CG B:HIS453 4.3 16.3 1.0
NE2 B:HIS64 4.3 18.5 1.0
CB B:ALA241 4.3 15.7 1.0
O B:HOH4069 4.4 27.4 1.0
CD2 B:HIS397 4.4 19.1 1.0
CH2 B:TRP107 4.4 16.3 1.0
NE2 B:HIS397 4.5 20.0 1.0
CA B:HIS66 4.6 17.6 1.0
CD2 B:TRP107 4.9 14.7 1.0
CU B:CU501 4.9 26.9 0.8
CD1 B:TRP107 5.0 16.0 1.0
CG B:HIS64 5.0 18.4 1.0

Reference:

M.Ferraroni, N.M.Myasoedova, V.Schmatchenko, A.A.Leontievsky, L.A.Golovleva, A.Scozzafava, F.Briganti. Crystal Structure of A Blue Laccase From Lentinus Tigrinus: Evidences For Intermediates in the Molecular Oxygen Reductive Splitting By Multicopper Oxidases. Bmc Struct.Biol. V. 7 60 2007.
ISSN: ESSN 1472-6807
PubMed: 17897461
DOI: 10.1186/1472-6807-7-60
Page generated: Wed Jul 31 00:00:40 2024

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