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Copper in PDB 5g3c: Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus Multicopper Oxidase

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

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

Protein crystallography data

The structure of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus Multicopper Oxidase, PDB code: 5g3c 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) 19.66 / 1.75
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 (%) 13.6 / 16.6

Other elements in 5g3c:

The structure of Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus 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 Termophilus Multicopper Oxidase (pdb code 5g3c). 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 Termophilus Multicopper Oxidase, PDB code: 5g3c:
Jump to Copper binding site number: 1; 2; 3;

Copper binding site 1 out of 3 in 5g3c

Go back to Copper Binding Sites List in 5g3c
Copper binding site 1 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus 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 Termophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1463

b:14.1
occ:0.24
NE2 A:HIS398 1.7 6.3 1.0
NE2 A:HIS444 1.8 9.0 1.0
CE1 A:HIS137 2.5 18.0 1.0
CE1 A:HIS398 2.6 7.5 1.0
CD2 A:HIS444 2.7 9.3 1.0
ND1 A:HIS137 2.7 21.0 1.0
CE1 A:HIS444 2.8 9.7 1.0
CD2 A:HIS398 2.9 7.4 1.0
NE2 A:HIS137 3.5 28.3 1.0
CD2 A:HIS95 3.7 9.9 1.0
CD2 A:HIS396 3.7 7.0 1.0
O A:HOH2228 3.8 18.7 1.0
ND1 A:HIS398 3.8 7.2 1.0
CG A:HIS137 3.8 13.2 1.0
NE2 A:HIS95 3.8 11.6 1.0
CG A:HIS444 3.8 10.0 1.0
ND1 A:HIS444 3.9 8.2 1.0
CG A:HIS398 3.9 6.0 1.0
CD2 A:HIS137 4.2 20.1 1.0
NE2 A:HIS396 4.2 8.9 1.0
CG2 A:VAL442 4.3 7.0 1.0
CG A:HIS95 4.4 7.1 1.0
CE1 A:HIS95 4.5 12.1 1.0
OE1 A:GLU451 4.6 5.1 0.4
OE2 A:GLU451 4.7 16.4 0.4
CD A:GLU451 4.7 7.7 0.4
ND1 A:HIS95 4.8 8.7 1.0
CB A:HIS137 4.9 8.4 1.0
CG A:HIS396 4.9 5.2 1.0

Copper binding site 2 out of 3 in 5g3c

Go back to Copper Binding Sites List in 5g3c
Copper binding site 2 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus 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 Termophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1464

b:9.7
occ:0.85
ND1 A:HIS393 2.1 8.4 1.0
SG A:CYS445 2.2 9.2 1.0
ND1 A:HIS450 2.2 7.4 1.0
CE1 A:HIS393 2.9 10.8 1.0
CG A:HIS450 3.1 7.3 1.0
CE1 A:HIS450 3.2 11.1 1.0
CG A:HIS393 3.2 7.5 1.0
CB A:CYS445 3.2 6.2 1.0
CB A:HIS450 3.4 4.5 1.0
SD A:MET455 3.5 4.3 0.3
CB A:HIS393 3.7 10.3 1.0
SD A:MET455 3.8 14.4 0.7
CE A:MET455 3.9 12.3 0.3
CD1 A:ILE447 3.9 8.5 1.0
CB A:ILE447 3.9 4.3 1.0
CA A:HIS393 4.0 6.7 1.0
NE2 A:HIS393 4.1 10.3 1.0
CD2 A:HIS393 4.3 5.8 1.0
NE2 A:HIS450 4.3 5.0 1.0
CD2 A:HIS450 4.3 9.3 1.0
CG1 A:ILE447 4.4 5.6 1.0
O A:ASP392 4.5 7.2 1.0
CD A:PRO394 4.5 3.7 1.0
CE A:MET455 4.5 6.2 0.7
CA A:CYS445 4.6 5.4 1.0
N A:ILE447 4.7 3.6 1.0
O A:ILE447 4.7 6.0 1.0
CG2 A:ILE447 4.8 5.2 1.0
CA A:ILE447 4.9 5.4 1.0
CA A:HIS450 4.9 7.4 1.0
C A:HIS393 5.0 7.0 1.0

Copper binding site 3 out of 3 in 5g3c

Go back to Copper Binding Sites List in 5g3c
Copper binding site 3 out of 3 in the Preserving Metallic Sites Affected By Radiation Damage the CUT2 Case in Thermus Termophilus 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 Termophilus Multicopper Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu1465

b:8.6
occ:1.00
ND1 A:HIS97 2.0 6.6 1.0
NE2 A:HIS135 2.0 8.6 1.0
NE2 A:HIS446 2.1 6.2 1.0
CE1 A:HIS97 2.9 4.6 1.0
CD2 A:HIS135 2.9 7.7 1.0
CE1 A:HIS446 3.0 5.7 1.0
CG A:HIS97 3.0 6.4 1.0
CE1 A:HIS135 3.0 7.4 1.0
CD2 A:HIS446 3.2 7.9 1.0
CB A:HIS97 3.4 5.2 1.0
CZ2 A:TRP133 3.5 4.9 1.0
CD2 A:HIS95 3.7 9.9 1.0
CE2 A:TRP133 3.8 4.5 1.0
NE1 A:TRP133 4.0 4.6 1.0
NE2 A:HIS97 4.1 6.3 1.0
CG A:HIS135 4.1 5.6 1.0
ND1 A:HIS135 4.1 6.8 1.0
CD2 A:HIS97 4.1 9.9 1.0
ND1 A:HIS446 4.1 4.5 1.0
CG A:HIS446 4.2 4.7 1.0
NE2 A:HIS95 4.2 11.6 1.0
CH2 A:TRP133 4.3 5.1 1.0
NE2 A:HIS396 4.4 8.9 1.0
CD2 A:HIS396 4.4 7.0 1.0
CA A:HIS97 4.7 4.6 1.0
CD2 A:TRP133 4.8 3.9 1.0
CG A:HIS95 4.8 7.1 1.0
CD1 A:TRP133 4.9 3.2 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: Sun Dec 13 11:17:37 2020

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