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Copper in PDB 4jhv: T2-Depleted Laccase From Coriolopsis Caperata

Protein crystallography data

The structure of T2-Depleted Laccase From Coriolopsis Caperata, PDB code: 4jhv was solved by K.M.Polyakov, T.V.Fedorova, O.A.Glazunova, S.A.Kurzeev, L.G.Maloshenok, V.S.Lamzin, O.V.Koroleva, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.79 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 62.780, 84.910, 116.950, 90.00, 90.00, 90.00
R / Rfree (%) 15.6 / 17.8

Copper Binding Sites:

The binding sites of Copper atom in the T2-Depleted Laccase From Coriolopsis Caperata (pdb code 4jhv). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the T2-Depleted Laccase From Coriolopsis Caperata, PDB code: 4jhv:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 4jhv

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Copper binding site 1 out of 4 in the T2-Depleted Laccase From Coriolopsis Caperata


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of T2-Depleted Laccase From Coriolopsis Caperata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:10.7
occ:0.80
NE2 A:HIS449 2.0 13.0 1.0
NE2 A:HIS399 2.0 10.6 1.0
NE2 A:HIS111 2.0 11.1 1.0
O A:HOH612 2.4 9.1 0.5
CE1 A:HIS399 2.8 10.7 1.0
CE1 A:HIS449 2.9 13.6 1.0
CE1 A:HIS111 2.9 11.5 1.0
CD2 A:HIS449 3.0 12.2 1.0
CD2 A:HIS111 3.1 11.1 1.0
CD2 A:HIS399 3.1 9.7 1.0
CD2 A:HIS397 3.9 13.3 1.0
ND1 A:HIS399 4.0 10.2 1.0
CD2 A:PHE447 4.0 12.6 1.0
ND1 A:HIS449 4.1 12.0 1.0
CG A:HIS449 4.1 11.5 1.0
ND1 A:HIS111 4.1 11.1 1.0
O A:HOH1076 4.1 18.3 0.5
CG A:HIS399 4.2 9.9 1.0
CG A:HIS111 4.2 10.7 1.0
CB A:PHE447 4.4 11.6 1.0
CG A:PRO79 4.5 11.3 1.0
CD2 A:HIS64 4.5 10.8 1.0
CU A:CU504 4.5 16.1 0.1
CG A:PHE447 4.6 11.6 1.0
NE2 A:HIS397 4.7 12.8 1.0
NE2 A:HIS64 4.7 11.8 1.0
CE2 A:PHE447 4.9 12.6 1.0
CG A:HIS397 4.9 12.3 1.0

Copper binding site 2 out of 4 in 4jhv

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Copper binding site 2 out of 4 in the T2-Depleted Laccase From Coriolopsis Caperata


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of T2-Depleted Laccase From Coriolopsis Caperata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu502

b:9.6
occ:0.80
ND1 A:HIS66 2.0 10.6 1.0
NE2 A:HIS109 2.0 9.0 1.0
NE2 A:HIS451 2.1 11.5 1.0
O A:HOH612 2.8 9.1 0.5
CE1 A:HIS66 2.9 9.9 1.0
CE1 A:HIS451 3.0 11.8 1.0
CE1 A:HIS109 3.0 8.9 1.0
CD2 A:HIS109 3.0 9.9 1.0
CG A:HIS66 3.1 9.1 1.0
CD2 A:HIS451 3.2 11.3 1.0
CB A:HIS66 3.5 8.8 1.0
CZ2 A:TRP107 3.6 9.2 1.0
CD2 A:HIS64 3.6 10.8 1.0
CE2 A:TRP107 3.9 9.0 1.0
NE1 A:TRP107 4.0 9.6 1.0
CU A:CU504 4.0 16.1 0.1
NE2 A:HIS66 4.1 10.6 1.0
ND1 A:HIS109 4.1 9.0 1.0
CG A:HIS109 4.1 8.7 1.0
ND1 A:HIS451 4.1 11.4 1.0
CD2 A:HIS66 4.1 10.3 1.0
NE2 A:HIS64 4.2 11.8 1.0
CD2 A:HIS397 4.2 13.3 1.0
CB A:ALA240 4.2 9.5 1.0
CG A:HIS451 4.3 11.2 1.0
CH2 A:TRP107 4.4 10.1 1.0
NE2 A:HIS397 4.4 12.8 1.0
O A:HOH1076 4.6 18.3 0.5
CA A:HIS66 4.6 9.2 1.0
CG A:HIS64 4.8 10.4 1.0
CD2 A:TRP107 4.8 9.0 1.0
CG A:HIS397 5.0 12.3 1.0

Copper binding site 3 out of 4 in 4jhv

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Copper binding site 3 out of 4 in the T2-Depleted Laccase From Coriolopsis Caperata


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of T2-Depleted Laccase From Coriolopsis Caperata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu503

b:9.5
occ:0.80
ND1 A:HIS455 2.0 11.9 1.0
ND1 A:HIS394 2.0 11.9 1.0
SG A:CYS450 2.2 11.7 1.0
CE1 A:HIS394 2.9 12.3 1.0
CE1 A:HIS455 3.0 12.8 1.0
CG A:HIS455 3.0 11.7 1.0
CG A:HIS394 3.1 11.6 1.0
CB A:CYS450 3.3 10.7 1.0
CB A:HIS455 3.4 12.2 1.0
CB A:HIS394 3.5 11.2 1.0
CD1 A:ILE452 3.6 13.0 1.0
CB A:ILE452 3.8 12.6 1.0
CD2 A:PHE460 3.8 12.4 1.0
CA A:HIS394 4.0 10.6 1.0
CE2 A:PHE460 4.0 11.9 1.0
CG1 A:ILE452 4.1 12.7 1.0
NE2 A:HIS394 4.1 11.8 1.0
NE2 A:HIS455 4.1 13.6 1.0
CD2 A:HIS394 4.2 12.0 1.0
CD2 A:HIS455 4.2 12.8 1.0
CG2 A:ILE452 4.6 12.5 1.0
CD A:PRO395 4.7 10.2 1.0
CA A:CYS450 4.7 10.7 1.0
N A:ILE452 4.7 11.4 1.0
O A:GLY391 4.7 15.3 1.0
CA A:ILE452 4.8 12.1 1.0
CA A:HIS455 4.9 12.4 1.0
O A:ILE452 4.9 12.9 1.0
C A:HIS394 5.0 10.8 1.0
N A:HIS394 5.0 10.9 1.0

Copper binding site 4 out of 4 in 4jhv

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Copper binding site 4 out of 4 in the T2-Depleted Laccase From Coriolopsis Caperata


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of T2-Depleted Laccase From Coriolopsis Caperata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu504

b:16.1
occ:0.10
NE2 A:HIS397 1.5 12.8 1.0
NE2 A:HIS64 1.6 11.8 1.0
CD2 A:HIS397 2.5 13.3 1.0
CE1 A:HIS64 2.6 10.7 1.0
CE1 A:HIS397 2.6 12.0 1.0
CD2 A:HIS64 2.7 10.8 1.0
O A:HOH603 2.8 11.4 1.0
ND1 A:HIS66 3.4 10.6 1.0
NE2 A:HIS399 3.5 10.6 1.0
CE1 A:HIS399 3.5 10.7 1.0
CG A:HIS66 3.6 9.1 1.0
CG A:HIS397 3.6 12.3 1.0
ND1 A:HIS397 3.6 12.5 1.0
ND1 A:HIS64 3.7 10.6 1.0
O A:HOH612 3.7 9.1 0.5
ND1 A:HIS399 3.7 10.2 1.0
CE1 A:HIS66 3.8 9.9 1.0
CG A:HIS64 3.8 10.4 1.0
CD2 A:HIS399 3.8 9.7 1.0
CA A:HIS66 3.9 9.2 1.0
CG A:HIS399 3.9 9.9 1.0
CU A:CU502 4.0 9.6 0.8
CD2 A:HIS66 4.1 10.3 1.0
CB A:HIS66 4.1 8.8 1.0
NE2 A:HIS66 4.1 10.6 1.0
N A:GLY67 4.1 9.4 1.0
C A:HIS66 4.5 9.7 1.0
CU A:CU501 4.5 10.7 0.8
O A:HOH638 4.7 11.0 1.0
CA A:HIS399 4.7 10.3 1.0
CB A:HIS399 4.8 9.9 1.0
O A:HOH656 4.9 14.8 1.0
N A:HIS66 4.9 9.1 1.0

Reference:

K.M.Polyakov, T.V.Fedorova, O.A.Glazunova, S.A.Kurzeev, L.G.Maloshenok, O.V.Koroleva. X-Ray Study of Copper Ions Incorporation in T2D Laccase From Coriolopsis Caperata To Be Published.
Page generated: Mon Jul 14 03:47:52 2025

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