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Copper in PDB 2zkx: Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121

Enzymatic activity of Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121

All present enzymatic activity of Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121:
1.15.1.1;

Protein crystallography data

The structure of Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121, PDB code: 2zkx was solved by S.Yoshikawa, M.Kukimoto-Niino, K.Ito, L.Chen, Z.Q.Fu, J.Chrzas, B.C.Wang, M.Shirouzu, M.Urushitani, R.Takahashi, S.Yokoyama, Riken Structuralgenomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.55 / 2.72
Space group I 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 73.105, 113.080, 146.375, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 24.6

Other elements in 2zkx:

The structure of Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 (pdb code 2zkx). 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 Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121, PDB code: 2zkx:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 2zkx

Go back to Copper Binding Sites List in 2zkx
Copper binding site 1 out of 4 in the Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121


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 Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu301

b:45.7
occ:1.00
ND1 A:HIS46 1.9 38.6 1.0
NE2 A:HIS120 2.0 34.9 1.0
NE2 A:HIS48 2.2 22.7 1.0
CE1 A:HIS46 2.7 35.7 1.0
CD2 A:HIS120 3.0 30.8 1.0
CG A:HIS46 3.0 37.5 1.0
CE1 A:HIS48 3.0 18.6 1.0
CE1 A:HIS120 3.0 33.4 1.0
NE2 A:HIS63 3.0 33.7 1.0
CD2 A:HIS48 3.3 25.0 1.0
CD2 A:HIS63 3.5 33.3 1.0
CB A:HIS46 3.5 29.6 1.0
NE2 A:HIS46 3.9 37.1 1.0
CE1 A:HIS63 4.0 30.8 1.0
CD2 A:HIS46 4.0 39.0 1.0
ND1 A:HIS120 4.1 29.5 1.0
CG A:HIS120 4.1 32.3 1.0
CB A:VAL118 4.2 26.1 1.0
ND1 A:HIS48 4.2 26.6 1.0
N A:HIS46 4.2 23.1 1.0
CG1 A:VAL118 4.3 19.4 1.0
CA A:HIS46 4.3 28.0 1.0
CG A:HIS48 4.4 26.8 1.0
CG A:HIS63 4.5 29.2 1.0
C A:HIS46 4.7 27.6 1.0
ND1 A:HIS63 4.7 34.0 1.0
O A:VAL118 4.8 29.1 1.0
O A:HIS46 4.9 27.4 1.0
CG2 A:VAL118 4.9 28.9 1.0

Copper binding site 2 out of 4 in 2zkx

Go back to Copper Binding Sites List in 2zkx
Copper binding site 2 out of 4 in the Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121


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 Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu302

b:49.5
occ:1.00
NE2 B:HIS120 2.1 39.8 1.0
NE2 B:HIS48 2.2 28.0 1.0
ND1 B:HIS46 2.5 28.6 1.0
NE2 B:HIS63 2.8 27.1 1.0
CE1 B:HIS48 2.9 23.9 1.0
CE1 B:HIS120 3.0 36.1 1.0
CD2 B:HIS120 3.1 37.3 1.0
CG B:HIS46 3.3 27.7 1.0
CD2 B:HIS48 3.3 27.5 1.0
CD2 B:HIS63 3.3 25.5 1.0
CB B:HIS46 3.4 21.4 1.0
CE1 B:HIS46 3.5 27.0 1.0
CE1 B:HIS63 3.7 32.8 1.0
ND1 B:HIS48 4.0 18.9 1.0
ND1 B:HIS120 4.1 36.0 1.0
CG B:HIS120 4.2 28.2 1.0
CG B:HIS48 4.3 26.9 1.0
CG B:HIS63 4.4 24.9 1.0
CA B:HIS46 4.4 20.7 1.0
CB B:VAL118 4.5 20.2 1.0
CD2 B:HIS46 4.5 31.4 1.0
N B:HIS46 4.5 24.7 1.0
NE2 B:HIS46 4.6 30.5 1.0
ND1 B:HIS63 4.6 22.4 1.0
CG1 B:VAL118 4.7 15.9 1.0
C B:HIS46 4.8 25.8 1.0
O B:HIS46 4.9 24.3 1.0
O B:VAL118 4.9 24.3 1.0

Copper binding site 3 out of 4 in 2zkx

Go back to Copper Binding Sites List in 2zkx
Copper binding site 3 out of 4 in the Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121


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 Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu303

b:41.0
occ:1.00
NE2 C:HIS120 1.9 22.5 1.0
ND1 C:HIS46 2.0 33.6 1.0
NE2 C:HIS48 2.0 23.8 1.0
CE1 C:HIS120 2.6 14.5 1.0
CE1 C:HIS46 2.9 35.0 1.0
CE1 C:HIS48 3.0 27.9 1.0
CD2 C:HIS48 3.0 35.4 1.0
NE2 C:HIS63 3.0 25.5 1.0
CG C:HIS46 3.1 25.8 1.0
CD2 C:HIS120 3.1 27.5 1.0
CD2 C:HIS63 3.4 26.9 1.0
CB C:HIS46 3.5 24.7 1.0
ND1 C:HIS120 3.8 19.7 1.0
CE1 C:HIS63 4.0 23.1 1.0
NE2 C:HIS46 4.1 35.1 1.0
CB C:VAL118 4.1 22.0 1.0
ND1 C:HIS48 4.1 20.8 1.0
CG C:HIS120 4.1 24.6 1.0
CG C:HIS48 4.1 15.6 1.0
CD2 C:HIS46 4.2 27.7 1.0
N C:HIS46 4.3 30.4 1.0
CA C:HIS46 4.3 31.1 1.0
O C:HIS46 4.3 29.9 1.0
O C:VAL118 4.4 27.3 1.0
CG C:HIS63 4.4 21.1 1.0
CG1 C:VAL118 4.4 17.3 1.0
C C:HIS46 4.6 29.1 1.0
ND1 C:HIS63 4.7 20.8 1.0
CG2 C:VAL118 4.7 20.5 1.0
C C:VAL118 4.9 16.4 1.0

Copper binding site 4 out of 4 in 2zkx

Go back to Copper Binding Sites List in 2zkx
Copper binding site 4 out of 4 in the Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121


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 Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu304

b:63.7
occ:1.00
NE2 D:HIS120 2.0 48.7 1.0
ND1 D:HIS46 2.3 52.0 1.0
CE1 D:HIS46 2.3 52.6 1.0
NE2 D:HIS48 2.3 31.9 1.0
CE1 D:HIS120 2.9 44.5 1.0
NE2 D:HIS63 2.9 74.0 1.0
CD2 D:HIS120 3.0 46.8 1.0
CE1 D:HIS48 3.1 26.5 1.0
CD2 D:HIS63 3.3 68.8 1.0
CD2 D:HIS48 3.4 36.7 1.0
NE2 D:HIS46 3.6 39.3 1.0
CG D:HIS46 3.6 51.3 1.0
ND1 D:HIS120 3.9 46.3 1.0
CE1 D:HIS63 4.0 70.7 1.0
CG D:HIS120 4.1 48.0 1.0
CD2 D:HIS46 4.2 45.1 1.0
ND1 D:HIS48 4.3 34.0 1.0
CG D:HIS48 4.5 33.8 1.0
CG D:HIS63 4.5 63.8 1.0
CB D:HIS46 4.6 52.0 1.0
CG1 D:VAL118 4.6 43.4 1.0
CB D:VAL118 4.6 38.8 1.0
ND1 D:HIS63 4.8 63.8 1.0
N D:HIS46 4.8 38.8 1.0
O D:HIS46 4.9 56.3 1.0

Reference:

S.Yoshikawa, M.Kukimoto-Niino, K.Ito, L.Chen, Z.Q.Fu, J.Chrzas, B.C.Wang, M.Shirouzu, M.Urushitani, R.Takahashi, S.Yokoyama. Crystal Structure of Human Cu-Zn Superoxide Dismutase Mutant G85R in Space Group I212121 To Be Published.
Page generated: Mon Jul 14 01:45:45 2025

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