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Zinc in PDB 3l9y: Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis

Enzymatic activity of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis

All present enzymatic activity of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis:
1.15.1.1;

Protein crystallography data

The structure of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis, PDB code: 3l9y was solved by N.-N.Zhang, Y.-X.He, W.-F.Li, F.Zhao, L.-F.Yan, G.-Z.Zhang, Y.-B.Teng, J.Yu, Y.Chen, C.-Z.Zhou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.80
Space group P 64
Cell size a, b, c (Å), α, β, γ (°) 111.493, 111.493, 39.886, 90.00, 90.00, 120.00
R / Rfree (%) 22.3 / 25.8

Other elements in 3l9y:

The structure of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis (pdb code 3l9y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis, PDB code: 3l9y:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3l9y

Go back to Zinc Binding Sites List in 3l9y
Zinc binding site 1 out of 2 in the Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn155

b:22.6
occ:1.00
ND1 A:HIS79 2.0 21.6 1.0
ND1 A:HIS62 2.0 20.8 1.0
OD1 A:ASP82 2.0 20.5 1.0
ND1 A:HIS70 2.1 21.0 1.0
CG A:ASP82 2.8 21.4 1.0
OD2 A:ASP82 2.8 22.5 1.0
CE1 A:HIS79 2.9 22.9 1.0
CE1 A:HIS62 3.0 19.7 1.0
CE1 A:HIS70 3.0 20.9 1.0
CG A:HIS62 3.0 21.2 1.0
CG A:HIS79 3.1 20.6 1.0
CG A:HIS70 3.1 22.2 1.0
CB A:HIS62 3.4 21.3 1.0
CB A:HIS70 3.5 22.9 1.0
CB A:HIS79 3.5 21.6 1.0
CA A:HIS70 3.8 23.6 1.0
NE2 A:HIS79 4.1 22.3 1.0
O A:THR136 4.1 27.4 1.0
NE2 A:HIS62 4.1 20.6 1.0
CD2 A:HIS79 4.2 20.9 1.0
CD2 A:HIS62 4.2 19.5 1.0
NE2 A:HIS70 4.2 20.4 1.0
CB A:ASP82 4.2 21.1 1.0
CD2 A:HIS70 4.3 19.1 1.0
N A:GLY71 4.5 23.1 1.0
N A:HIS79 4.6 22.3 1.0
CA A:HIS79 4.7 21.8 1.0
C A:HIS70 4.7 23.3 1.0
O A:HOH163 4.8 21.7 1.0
CA A:ASP82 4.8 21.5 1.0
O A:GLY71 4.8 22.4 1.0
N A:HIS70 4.9 24.4 1.0
CD2 A:HIS45 4.9 21.1 1.0
CA A:HIS62 4.9 21.2 1.0

Zinc binding site 2 out of 2 in 3l9y

Go back to Zinc Binding Sites List in 3l9y
Zinc binding site 2 out of 2 in the Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structures of Holo and Cu-Deficient Cu/Znsod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn155

b:22.3
occ:1.00
ND1 B:HIS79 1.9 19.8 1.0
OD1 B:ASP82 2.0 18.4 1.0
ND1 B:HIS70 2.1 23.5 1.0
ND1 B:HIS62 2.2 19.1 1.0
CG B:ASP82 2.7 21.2 1.0
CE1 B:HIS79 2.7 22.3 1.0
OD2 B:ASP82 2.8 22.5 1.0
CE1 B:HIS70 3.0 21.8 1.0
CG B:HIS79 3.1 19.9 1.0
CG B:HIS62 3.1 22.3 1.0
CE1 B:HIS62 3.2 21.7 1.0
CG B:HIS70 3.2 23.9 1.0
CB B:HIS62 3.4 22.3 1.0
CB B:HIS79 3.6 21.3 1.0
CB B:HIS70 3.6 24.3 1.0
CA B:HIS70 3.8 24.4 1.0
NE2 B:HIS79 3.9 21.2 1.0
O B:THR136 4.0 27.1 1.0
CD2 B:HIS79 4.1 20.4 1.0
CB B:ASP82 4.2 20.9 1.0
NE2 B:HIS70 4.2 23.5 1.0
NE2 B:HIS62 4.3 22.4 1.0
CD2 B:HIS62 4.3 20.8 1.0
CD2 B:HIS70 4.3 23.2 1.0
O B:HOH162 4.6 23.5 1.0
N B:GLY71 4.6 23.6 1.0
N B:HIS79 4.6 22.4 1.0
CA B:HIS79 4.7 22.0 1.0
CA B:ASP82 4.7 21.3 1.0
C B:HIS70 4.7 24.3 1.0
O B:GLY71 4.8 22.7 1.0
N B:HIS70 4.8 24.9 1.0
CD2 B:HIS45 4.9 19.7 1.0
CA B:HIS62 4.9 22.9 1.0

Reference:

N.N.Zhang, Y.X.He, W.F.Li, Y.B.Teng, J.Yu, Y.Chen, C.Z.Zhou. Crystal Structures of Holo and Cu-Deficient Cu/Zn-Sod From the Silkworm Bombyx Mori and the Implications in Amyotrophic Lateral Sclerosis. Proteins V. 78 1999 2010.
ISSN: ESSN 1097-0134
PubMed: 20310068
DOI: 10.1002/PROT.22709
Page generated: Wed Dec 16 04:32:01 2020

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