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Copper in PDB 3div: Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution

Enzymatic activity of Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution

All present enzymatic activity of Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution:
1.10.3.2;

Protein crystallography data

The structure of Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution, PDB code: 3div was solved by A.V.Lyashenko, Y.N.Zhukova, A.M.Mikhailov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.99 / 1.76
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 52.581, 77.101, 130.884, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 21.7

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution (pdb code 3div). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution, PDB code: 3div:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 3div

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Copper binding site 1 out of 4 in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution


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 Cerrena Maxima at 1.76A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu509

b:17.1
occ:1.00
NE2 A:HIS400 2.0 10.6 1.0
NE2 A:HIS452 2.0 13.3 1.0
NE2 A:HIS111 2.1 9.8 1.0
O A:HOH1055 2.3 13.8 0.7
CE1 A:HIS400 2.7 7.7 1.0
CD2 A:HIS452 2.9 11.7 1.0
CE1 A:HIS111 3.1 10.3 1.0
CE1 A:HIS452 3.1 14.3 1.0
CD2 A:HIS111 3.1 10.6 1.0
CD2 A:HIS400 3.2 8.1 1.0
CD2 A:HIS398 3.8 9.3 1.0
O A:HOH797 3.9 21.4 1.0
ND1 A:HIS400 4.0 10.3 1.0
CG A:HIS452 4.1 10.7 1.0
ND1 A:HIS452 4.1 12.6 1.0
ND1 A:HIS111 4.2 10.2 1.0
CG A:HIS400 4.2 8.2 1.0
CG A:HIS111 4.2 9.1 1.0
CD2 A:PHE450 4.3 8.9 1.0
CU A:CU511 4.4 27.5 1.0
CD2 A:HIS64 4.5 10.0 1.0
NE2 A:HIS398 4.6 10.7 1.0
CB A:PHE450 4.6 9.4 1.0
CG A:PRO79 4.7 9.2 1.0
NE2 A:HIS64 4.7 9.4 1.0
CU A:CU510 4.8 17.4 1.0
NE2 A:HIS454 4.8 10.4 1.0
CD2 A:HIS454 4.8 8.5 1.0
CG A:PHE450 4.9 8.3 1.0
CG A:HIS398 4.9 9.7 1.0
CE1 A:HIS109 5.0 8.1 1.0

Copper binding site 2 out of 4 in 3div

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Copper binding site 2 out of 4 in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution


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 Cerrena Maxima at 1.76A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu510

b:17.4
occ:1.00
ND1 A:HIS66 2.0 9.8 1.0
NE2 A:HIS454 2.1 10.4 1.0
NE2 A:HIS109 2.1 10.0 1.0
O A:HOH1055 2.5 13.8 0.7
CE1 A:HIS66 2.9 10.9 1.0
CE1 A:HIS454 3.0 8.2 1.0
CE1 A:HIS109 3.0 8.1 1.0
CG A:HIS66 3.1 10.5 1.0
CD2 A:HIS109 3.2 7.8 1.0
CD2 A:HIS454 3.2 8.5 1.0
CB A:HIS66 3.5 9.3 1.0
CZ2 A:TRP107 3.6 7.3 1.0
CD2 A:HIS64 3.7 10.0 1.0
CE2 A:TRP107 3.9 7.6 1.0
CU A:CU511 4.0 27.5 1.0
NE2 A:HIS66 4.1 9.7 1.0
NE1 A:TRP107 4.1 6.9 1.0
ND1 A:HIS109 4.2 8.4 1.0
CD2 A:HIS66 4.2 8.3 1.0
ND1 A:HIS454 4.2 9.9 1.0
NE2 A:HIS64 4.2 9.4 1.0
CD2 A:HIS398 4.2 9.3 1.0
CG A:HIS109 4.3 8.0 1.0
CG A:HIS454 4.3 9.8 1.0
CH2 A:TRP107 4.4 7.8 1.0
CB A:ALA241 4.4 7.8 1.0
NE2 A:HIS398 4.4 10.7 1.0
CA A:HIS66 4.7 9.3 1.0
O A:HOH797 4.7 21.4 1.0
CU A:CU509 4.8 17.1 1.0
CG A:HIS64 4.9 10.1 1.0
CD2 A:TRP107 4.9 7.0 1.0

Copper binding site 3 out of 4 in 3div

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Copper binding site 3 out of 4 in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution


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 Cerrena Maxima at 1.76A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu511

b:27.5
occ:1.00
NE2 A:HIS398 1.8 10.7 1.0
NE2 A:HIS64 1.9 9.4 1.0
O A:HOH961 2.7 9.3 1.0
CD2 A:HIS398 2.7 9.3 1.0
CE1 A:HIS398 2.8 8.2 1.0
CE1 A:HIS64 2.8 9.2 1.0
CD2 A:HIS64 3.0 10.0 1.0
NE2 A:HIS400 3.4 10.6 1.0
O A:HOH1055 3.4 13.8 0.7
CE1 A:HIS400 3.4 7.7 1.0
ND1 A:HIS66 3.4 9.8 1.0
CG A:HIS66 3.6 10.5 1.0
CD2 A:HIS400 3.6 8.1 1.0
ND1 A:HIS400 3.6 10.3 1.0
CE1 A:HIS66 3.8 10.9 1.0
CG A:HIS400 3.8 8.2 1.0
CA A:HIS66 3.8 9.3 1.0
CG A:HIS398 3.9 9.7 1.0
ND1 A:HIS398 3.9 10.2 1.0
ND1 A:HIS64 3.9 10.3 1.0
CD2 A:HIS66 4.0 8.3 1.0
N A:GLY67 4.0 8.7 1.0
CU A:CU510 4.0 17.4 1.0
CG A:HIS64 4.0 10.1 1.0
CB A:HIS66 4.0 9.3 1.0
NE2 A:HIS66 4.1 9.7 1.0
CU A:CU509 4.4 17.1 1.0
C A:HIS66 4.4 9.2 1.0
O A:HOH550 4.5 12.7 1.0
CA A:HIS400 4.6 9.4 1.0
O A:HOH546 4.7 17.3 1.0
CB A:HIS400 4.7 9.8 1.0
N A:HIS66 4.9 9.4 1.0
O A:TRP65 5.0 8.3 1.0

Copper binding site 4 out of 4 in 3div

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Copper binding site 4 out of 4 in the Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution


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 Cerrena Maxima at 1.76A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu512

b:55.0
occ:1.00
SG A:CYS453 2.1 17.1 1.0
ND1 A:HIS458 2.2 17.5 1.0
ND1 A:HIS395 2.5 20.6 1.0
CG A:HIS458 3.1 14.3 1.0
CE1 A:HIS458 3.2 14.9 1.0
CB A:CYS453 3.2 11.9 1.0
CE1 A:HIS395 3.3 24.6 1.0
CG A:HIS395 3.3 19.8 1.0
CB A:HIS458 3.4 13.2 1.0
CD2 A:PHE463 3.6 14.9 1.0
CB A:HIS395 3.7 16.7 1.0
CD1 A:ILE455 3.8 13.5 1.0
CE2 A:PHE463 3.8 14.5 1.0
CB A:ILE455 3.9 13.3 1.0
CA A:HIS395 4.2 16.6 1.0
NE2 A:HIS395 4.2 23.1 1.0
CD2 A:HIS395 4.3 21.1 1.0
CG1 A:ILE455 4.3 13.9 1.0
CD2 A:HIS458 4.3 14.4 1.0
NE2 A:HIS458 4.3 16.3 1.0
CA A:CYS453 4.6 11.8 1.0
CG2 A:ILE455 4.7 13.1 1.0
N A:ILE455 4.8 12.9 1.0
O A:GLY392 4.8 27.1 1.0
CD A:PRO396 4.8 12.5 1.0
CG A:PHE463 4.9 13.1 1.0
CA A:HIS458 4.9 13.1 1.0
CA A:ILE455 4.9 13.0 1.0
O A:ILE455 4.9 12.2 1.0

Reference:

A.V.Lyashenko, Y.N.Zhukova, A.M.Mikhailov. Crystal Structure of Laccase From Cerrena Maxima at 1.76A Resolution. To Be Published.
Page generated: Sun Dec 13 11:09:23 2020

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