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Sodium in PDB 3ucy: Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+

Protein crystallography data

The structure of Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+, PDB code: 3ucy was solved by F.T.Senguen, Z.Grabarek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.73 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 35.298, 35.298, 142.937, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 22.8

Other elements in 3ucy:

The structure of Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+ also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Zinc (Zn) 2 atoms
Arsenic (As) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+ (pdb code 3ucy). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+, PDB code: 3ucy:

Sodium binding site 1 out of 1 in 3ucy

Go back to Sodium Binding Sites List in 3ucy
Sodium binding site 1 out of 1 in the Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of MG2+ Bound N-Terminal Domain of Calmodulin in the Presence of ZN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na100

b:28.2
occ:1.00
O A:THR26 2.3 28.3 1.0
O A:HOH301 2.3 30.0 1.0
O2 A:CAC200 2.4 30.0 1.0
OD1 A:ASP22 2.4 27.9 1.0
OD1 A:ASP20 2.4 35.0 1.0
OD1 A:ASP24 2.6 29.5 1.0
OG1 A:THR26 3.3 35.5 1.0
C A:THR26 3.4 27.5 1.0
ZN A:ZN102 3.4 29.8 1.0
CG A:ASP22 3.4 29.2 1.0
CG A:ASP24 3.5 33.0 1.0
CG A:ASP20 3.6 34.4 1.0
AS A:CAC200 3.8 30.0 1.0
OD2 A:ASP24 3.8 32.5 1.0
N A:THR26 3.9 28.8 1.0
OD2 A:ASP22 3.9 30.3 1.0
CA A:THR26 4.1 29.2 1.0
CA A:ASP20 4.1 32.7 1.0
C2 A:CAC200 4.1 30.0 1.0
N A:ASP24 4.2 36.2 1.0
N A:ASP22 4.2 36.6 1.0
CB A:THR26 4.3 30.6 1.0
C A:ASP20 4.3 33.6 1.0
CB A:ASP20 4.3 33.7 1.0
OD2 A:ASP20 4.4 36.6 1.0
N A:LYS21 4.5 35.8 1.0
N A:ILE27 4.5 26.2 1.0
N A:GLY23 4.6 35.1 1.0
O A:HOH341 4.6 53.6 1.0
CB A:ASP22 4.6 30.6 1.0
CB A:ASP24 4.6 32.9 1.0
N A:GLY25 4.7 31.6 1.0
CA A:ASP22 4.7 34.0 1.0
CA A:ASP24 4.7 33.6 1.0
C A:ASP22 4.8 34.9 1.0
C A:ASP24 4.8 34.3 1.0
CA A:ILE27 4.8 26.8 1.0
O A:ASP20 4.9 34.1 1.0
C1 A:CAC200 5.0 30.0 1.0
O1 A:CAC200 5.0 30.0 1.0

Reference:

F.T.Senguen, Z.Grabarek. X-Ray Structures of Magnesium and Manganese Complexes with the N-Terminal Domain of Calmodulin: Insights Into the Mechanism and Specificity of Metal Ion Binding to An Ef-Hand. Biochemistry V. 51 6182 2012.
ISSN: ISSN 0006-2960
PubMed: 22803592
DOI: 10.1021/BI300698H
Page generated: Tue Dec 15 06:27:10 2020

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