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Zinc in PDB 1xso: Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution

Enzymatic activity of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution

All present enzymatic activity of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution:
1.15.1.1;

Protein crystallography data

The structure of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution, PDB code: 1xso was solved by K.Djinovic Carugo, A.Coda, A.Battistoni, M.T.Carri, F.Polticelli, A.Desideri, G.Rotilio, K.S.Wilson, M.Bolognesi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 1.49
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 73.450, 68.940, 58.760, 90.00, 90.00, 90.00
R / Rfree (%) 10.4 / 16.9

Other elements in 1xso:

The structure of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution (pdb code 1xso). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution, PDB code: 1xso:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1xso

Go back to Zinc Binding Sites List in 1xso
Zinc binding site 1 out of 2 in the Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn152

b:9.3
occ:1.00
OD1 A:ASP81 2.0 8.3 1.0
ND1 A:HIS61 2.0 9.1 1.0
ND1 A:HIS78 2.1 8.4 1.0
ND1 A:HIS69 2.1 8.2 1.0
CG A:ASP81 2.8 8.5 1.0
OD2 A:ASP81 2.9 10.8 1.0
CE1 A:HIS78 2.9 9.6 1.0
CE1 A:HIS61 2.9 12.8 1.0
CE1 A:HIS69 3.0 9.1 1.0
CG A:HIS61 3.0 8.8 1.0
CG A:HIS78 3.2 9.3 1.0
CG A:HIS69 3.2 7.5 1.0
CB A:HIS61 3.5 9.4 1.0
CB A:HIS78 3.6 9.9 1.0
CB A:HIS69 3.6 11.1 1.0
O A:LYS134 3.8 11.8 1.0
CA A:HIS69 4.0 8.1 1.0
NE2 A:HIS78 4.1 11.4 1.0
NE2 A:HIS61 4.1 11.7 1.0
CD2 A:HIS61 4.1 11.1 1.0
NE2 A:HIS69 4.1 10.9 1.0
CB A:ASP81 4.2 10.1 1.0
CD2 A:HIS78 4.2 9.8 1.0
CD2 A:HIS69 4.2 9.5 1.0
C A:LYS134 4.7 13.3 1.0
CA A:ASP81 4.8 8.7 1.0
N A:HIS78 4.8 9.1 1.0
O A:HOH158 4.8 16.3 1.0
CA A:HIS78 4.8 9.1 1.0
N A:ASP81 4.9 9.4 1.0
N A:GLY70 4.9 10.4 1.0
N A:HIS69 4.9 9.8 1.0

Zinc binding site 2 out of 2 in 1xso

Go back to Zinc Binding Sites List in 1xso
Zinc binding site 2 out of 2 in the Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn153

b:8.9
occ:1.00
OD1 B:ASP81 2.0 7.8 1.0
ND1 B:HIS78 2.0 9.7 1.0
ND1 B:HIS61 2.0 8.4 1.0
ND1 B:HIS69 2.0 8.4 1.0
CG B:ASP81 2.8 7.1 1.0
CE1 B:HIS78 2.9 9.5 1.0
CE1 B:HIS69 2.9 9.7 1.0
OD2 B:ASP81 2.9 8.6 1.0
CE1 B:HIS61 3.0 13.1 1.0
CG B:HIS61 3.1 8.4 1.0
CG B:HIS78 3.1 10.1 1.0
CG B:HIS69 3.2 8.3 1.0
CB B:HIS61 3.5 7.6 1.0
CB B:HIS78 3.6 9.7 1.0
CB B:HIS69 3.7 8.7 1.0
O B:LYS134 3.8 13.2 1.0
CA B:HIS69 4.0 8.8 1.0
NE2 B:HIS78 4.1 12.1 1.0
NE2 B:HIS61 4.1 10.1 1.0
NE2 B:HIS69 4.1 9.6 1.0
CD2 B:HIS61 4.2 10.5 1.0
CD2 B:HIS78 4.2 11.5 1.0
CB B:ASP81 4.2 8.6 1.0
CD2 B:HIS69 4.3 9.9 1.0
O B:HOH160 4.7 16.2 1.0
CA B:ASP81 4.7 7.3 1.0
C B:LYS134 4.8 13.7 1.0
N B:HIS78 4.8 9.4 1.0
CA B:HIS78 4.9 9.0 1.0
N B:ASP81 4.9 7.8 1.0
N B:HIS69 4.9 11.6 1.0
N B:GLY70 5.0 9.3 1.0

Reference:

K.Djinovic Carugo, A.Battistoni, M.T.Carri, F.Polticelli, A.Desideri, G.Rotilio, A.Coda, K.S.Wilson, M.Bolognesi. Three-Dimensional Structure of Xenopus Laevis Cu,Zn Superoxide Dismutase B Determined By X-Ray Crystallography at 1.5 A Resolution. Acta Crystallogr.,Sect.D V. 52 176 1996.
ISSN: ISSN 0907-4449
PubMed: 15299740
DOI: 10.1107/S0907444995007608
Page generated: Wed Dec 16 03:13:04 2020

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