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Sodium in PDB 6c2z: Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate

Enzymatic activity of Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate

All present enzymatic activity of Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate:
4.2.1.22;

Protein crystallography data

The structure of Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate, PDB code: 6c2z was solved by C.A.Kreinbring, Y.Tu, D.Liu, G.A.Petsko, D.Ringe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.37
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 81.465, 81.465, 209.486, 90.00, 90.00, 120.00
R / Rfree (%) 13.4 / 16.3

Other elements in 6c2z:

The structure of Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate (pdb code 6c2z). 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 Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate, PDB code: 6c2z:

Sodium binding site 1 out of 1 in 6c2z

Go back to Sodium Binding Sites List in 6c2z
Sodium binding site 1 out of 1 in the Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: the Structure of the Plp-Aminoacrylate Intermediate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na503

b:25.2
occ:1.00
O A:HOH770 2.1 31.4 1.0
O A:GLY120 2.3 16.2 1.0
C A:GLY120 3.4 14.4 1.0
CA A:GLY120 4.1 13.2 1.0
O A:HOH877 4.4 50.7 1.0
N A:ALA121 4.4 14.3 1.0
N A:THR100 4.5 13.3 0.4
N A:THR100 4.5 13.3 0.6
OE2 A:GLU122 4.5 26.7 1.0
CA A:ARG99 4.6 13.4 1.0
O A:HOH762 4.6 17.0 1.0
CA A:ALA121 4.7 14.5 1.0
O A:HOH753 4.7 26.8 1.0
O A:THR100 4.8 14.6 0.4
OG1 A:THR100 4.9 13.7 0.4
O A:THR100 4.9 13.9 0.6
CG A:ARG99 4.9 14.0 1.0
O A:TYR98 4.9 16.7 1.0

Reference:

Y.Tu, C.A.Kreinbring, M.Hill, C.Liu, G.A.Petsko, C.D.Mccune, D.B.Berkowitz, D.Liu, D.Ringe. Crystal Structures of Cystathionine Beta-Synthase From Saccharomyces Cerevisiae: One Enzymatic Step at A Time. Biochemistry V. 57 3134 2018.
ISSN: ISSN 1520-4995
PubMed: 29630349
DOI: 10.1021/ACS.BIOCHEM.8B00092
Page generated: Tue Dec 15 12:00:55 2020

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