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Sodium in PDB 3icf: Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5

Enzymatic activity of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5

All present enzymatic activity of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5:
3.1.3.16;

Protein crystallography data

The structure of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5, PDB code: 3icf was solved by A.U.Singer, X.Xu, C.Chang, H.Cui, O.Kagan, A.M.Edwards, A.Joachimiak, A.F.Yakunin, A.Savchenko, Midwest Center For Structural Genomics(Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.29 / 2.30
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 47.194, 47.194, 237.096, 90.00, 90.00, 120.00
R / Rfree (%) 19 / 24

Other elements in 3icf:

The structure of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5 also contains other interesting chemical elements:

Iron (Fe) 4 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5 (pdb code 3icf). 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 Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5, PDB code: 3icf:

Sodium binding site 1 out of 1 in 3icf

Go back to Sodium Binding Sites List in 3icf
Sodium binding site 1 out of 1 in the Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na515

b:47.0
occ:1.00
 O B:SER219 2.2 47.4 1.0
O A:SER219 2.2 47.1 1.0
OG1 A:THR223 2.2 47.8 1.0
OG1 B:THR223 2.2 48.0 1.0
OG A:SER219 2.4 45.1 1.0
OG B:SER219 2.5 45.0 1.0
C B:SER219 3.0 47.6 1.0
C A:SER219 3.1 47.5 1.0
CB B:THR223 3.4 48.8 1.0
CB A:THR223 3.4 48.9 1.0
CB A:SER219 3.6 47.0 1.0
CB B:SER219 3.6 46.9 1.0
CA A:SER219 3.7 46.9 1.0
CA B:SER219 3.7 47.0 1.0
N B:THR223 3.9 49.8 1.0
N A:THR223 4.0 49.5 1.0
N B:HIS220 4.0 47.9 1.0
N A:HIS220 4.0 47.9 1.0
CA B:THR223 4.2 49.3 1.0
CA A:THR223 4.2 49.4 1.0
CA B:HIS220 4.2 48.7 1.0
CA A:HIS220 4.3 48.6 1.0
O A:HOH53 4.4 42.1 1.0
CG2 B:THR223 4.5 48.9 1.0
O B:HOH56 4.5 45.8 1.0
CG2 A:THR223 4.5 48.8 1.0
OD1 B:ASP222 4.7 49.2 1.0
OD1 A:ASP222 4.7 49.3 1.0
CB A:ASP222 4.9 49.0 1.0
C B:HIS220 4.9 49.4 1.0
CB B:ASP222 4.9 49.2 1.0
C A:HIS220 5.0 49.4 1.0

Reference:

A.U.Singer, X.Xu, C.Chang, H.Cui, A.M.Edwards, A.Joachimiak, A.Savchenko, A.F.Yakunin. Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae with Similarity to Human Phosphatase PP5 To Be Published.
Page generated: Sun Aug 17 15:45:54 2025

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