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Copper in PDB 5g3f: Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase

Enzymatic activity of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase

All present enzymatic activity of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase:
1.10.3.2;

Protein crystallography data

The structure of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase, PDB code: 5g3f was solved by R.Ruiz-Arellano, A.Diaz, E.Rosas, E.Rudino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.71 / 1.82
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 93.744, 110.332, 96.484, 90.00, 90.00, 90.00
R / Rfree (%) 14.6 / 17.9

Other elements in 5g3f:

The structure of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase also contains other interesting chemical elements:

Sodium (Na) 1 atom

Copper Binding Sites:

The binding sites of Copper atom in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase (pdb code 5g3f). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 3 binding sites of Copper where determined in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase, PDB code: 5g3f:
Jump to Copper binding site number: 1; 2; 3;

Copper binding site 1 out of 3 in 5g3f

Go back to Copper Binding Sites List in 5g3f
Copper binding site 1 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1463

b:21.1
occ:0.29
NE2 A:HIS398 1.7 7.6 1.0
NE2 A:HIS444 1.8 9.6 1.0
NE2 A:HIS137 2.6 24.0 1.0
CE1 A:HIS398 2.6 7.0 1.0
CD2 A:HIS137 2.6 20.0 1.0
CD2 A:HIS444 2.7 11.0 1.0
CE1 A:HIS444 2.9 10.0 1.0
CD2 A:HIS398 2.9 9.1 1.0
CE1 A:HIS137 3.7 28.3 1.0
ND1 A:HIS398 3.7 9.5 1.0
CD2 A:HIS396 3.8 9.7 1.0
CG A:HIS137 3.8 16.0 1.0
CD2 A:HIS95 3.8 13.7 1.0
CG A:HIS444 3.9 10.9 1.0
ND1 A:HIS444 3.9 8.5 1.0
NE2 A:HIS95 3.9 14.5 1.0
CG A:HIS398 3.9 9.2 1.0
O A:HOH2148 4.0 27.4 1.0
CG2 A:VAL442 4.2 4.6 1.0
OE2 A:GLU451 4.2 25.9 0.4
ND1 A:HIS137 4.3 30.4 1.0
NE2 A:HIS396 4.3 10.5 1.0
CG A:HIS95 4.4 9.6 1.0
CE1 A:HIS95 4.6 12.5 1.0
CD A:GLU451 4.7 14.9 0.4
OE1 A:GLU451 4.7 10.5 0.4
ND1 A:HIS95 4.8 10.3 1.0
CB A:HIS137 4.9 12.0 1.0
CG A:HIS396 5.0 7.7 1.0

Copper binding site 2 out of 3 in 5g3f

Go back to Copper Binding Sites List in 5g3f
Copper binding site 2 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1464

b:8.4
occ:0.75
ND1 A:HIS393 2.1 8.7 1.0
ND1 A:HIS450 2.1 7.4 1.0
SG A:CYS445 2.2 10.8 1.0
CE1 A:HIS393 2.9 10.5 1.0
CG A:HIS450 3.1 8.4 1.0
CE1 A:HIS450 3.1 10.6 1.0
CG A:HIS393 3.2 10.0 1.0
CB A:CYS445 3.2 6.4 1.0
CB A:HIS450 3.4 5.8 1.0
SD A:MET455 3.4 7.6 0.3
CB A:HIS393 3.7 9.8 1.0
CE A:MET455 3.8 13.8 0.3
SD A:MET455 3.8 19.4 0.7
CD1 A:ILE447 3.9 10.8 1.0
CB A:ILE447 4.0 6.5 1.0
CA A:HIS393 4.0 6.0 1.0
NE2 A:HIS393 4.1 14.0 1.0
NE2 A:HIS450 4.2 7.2 1.0
CD2 A:HIS393 4.2 7.5 1.0
CD2 A:HIS450 4.3 10.6 1.0
CG1 A:ILE447 4.4 8.1 1.0
O A:ASP392 4.5 7.4 1.0
CE A:MET455 4.5 9.4 0.7
CD A:PRO394 4.5 5.0 1.0
CA A:CYS445 4.6 4.2 1.0
O A:ILE447 4.7 7.0 1.0
N A:ILE447 4.8 5.1 1.0
CG2 A:ILE447 4.8 6.7 1.0
CA A:ILE447 4.9 7.8 1.0
CA A:HIS450 4.9 7.9 1.0
CG A:MET455 4.9 13.8 0.3
C A:HIS393 5.0 6.1 1.0

Copper binding site 3 out of 3 in 5g3f

Go back to Copper Binding Sites List in 5g3f
Copper binding site 3 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1465

b:9.6
occ:1.00
ND1 A:HIS97 2.0 8.4 1.0
NE2 A:HIS135 2.0 7.6 1.0
NE2 A:HIS446 2.1 6.9 1.0
CD2 A:HIS135 2.9 6.1 1.0
CE1 A:HIS97 3.0 7.9 1.0
CE1 A:HIS446 3.0 4.9 1.0
CG A:HIS97 3.0 7.8 1.0
CE1 A:HIS135 3.1 7.7 1.0
CD2 A:HIS446 3.2 7.2 1.0
CB A:HIS97 3.4 7.2 1.0
CZ2 A:TRP133 3.6 6.9 1.0
CD2 A:HIS95 3.7 13.7 1.0
CE2 A:TRP133 3.8 5.8 1.0
NE1 A:TRP133 4.0 5.0 1.0
NE2 A:HIS97 4.1 7.8 1.0
CG A:HIS135 4.1 5.7 1.0
CD2 A:HIS97 4.1 11.5 1.0
ND1 A:HIS135 4.1 6.0 1.0
ND1 A:HIS446 4.2 7.2 1.0
NE2 A:HIS95 4.2 14.5 1.0
CG A:HIS446 4.3 4.3 1.0
CH2 A:TRP133 4.3 4.6 1.0
NE2 A:HIS396 4.4 10.5 1.0
CD2 A:HIS396 4.4 9.7 1.0
CA A:HIS97 4.6 6.2 1.0
CD2 A:TRP133 4.8 3.8 1.0
CG A:HIS95 4.9 9.6 1.0
CD1 A:TRP133 5.0 3.0 1.0

Reference:

R.Ruiz-Arellano, A.Diaz, E.Rosas, V.Stojanoff, E.Rudino. Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Thermophilus Multicopper Oxidase To Be Published.
Page generated: Mon Jul 14 04:36:26 2025

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