Sodium in PDB 5zc7: Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group).

All present enzymatic activity of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group).:
2.4.2.7;

The structure of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group)., PDB code: 5zc7 was solved by G.C.Pavithra, U.A.Ramagopal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.00
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	121.074, 121.074, 50.035, 90.00, 90.00, 120.00
R / Rfree (%)	16 / 19.2

The structure of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group). also contains other interesting chemical elements:

Nickel	(Ni)	1 atom
Chlorine	(Cl)	3 atoms

The binding sites of Sodium atom in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group). (pdb code 5zc7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group)., PDB code: 5zc7:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group).


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group). within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:54.0 occ:1.00 O A:HOH326 2.4 30.7 1.0 O A:THR117 2.4 24.1 1.0 O A:ILE120 2.8 20.9 1.0 C A:THR117 3.5 22.4 1.0 C A:ILE120 3.9 22.2 1.0 CA A:ASP118 4.1 25.4 1.0 CD2 A:LEU149 4.2 25.0 1.0 N A:ASP118 4.2 22.8 1.0 C A:ASP118 4.3 23.3 1.0 CA A:THR117 4.6 21.6 1.0 N A:ILE120 4.6 20.1 1.0 CB A:LEU149 4.6 21.6 1.0 O A:ASP118 4.6 21.0 1.0 O A:LEU149 4.8 19.2 1.0 CG A:GLN121 4.8 47.5 1.0 N A:GLN121 4.8 24.2 1.0 N A:SER119 4.8 20.4 1.0 CG A:LEU149 4.8 23.5 1.0 CB A:THR117 4.8 24.9 1.0 CA A:ILE120 4.8 21.0 1.0 CA A:GLN121 4.8 29.4 1.0 CD1 A:LEU149 4.9 23.8 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group).


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Aprt From Y. Pseudotuberculosis with Bound Adenine (P63 Space Group). within 5.0Å range: probe atom residue distance (Å) B Occ B:Na202 b:41.2 occ:1.00 O B:HOH352 2.2 41.1 1.0 O B:HOH353 2.3 39.0 1.0 O B:HOH324 2.3 26.7 1.0 O B:THR117 2.3 29.7 1.0 O B:ILE120 2.4 31.7 1.0 C B:THR117 3.5 28.6 1.0 C B:ILE120 3.6 32.9 1.0 O B:HOH308 4.1 30.6 1.0 CA B:ASP118 4.2 32.7 1.0 CA B:GLN121 4.2 40.2 1.0 N B:ASP118 4.2 30.3 1.0 CD2 B:LEU149 4.3 34.4 1.0 C B:ASP118 4.3 31.0 1.0 N B:GLN121 4.4 35.4 1.0 N B:ILE120 4.4 28.0 1.0 CB B:GLN121 4.4 44.4 1.0 CA B:THR117 4.5 27.6 1.0 O B:LEU149 4.5 36.0 1.0 CB B:LEU149 4.5 31.7 1.0 CA B:ILE120 4.6 30.7 1.0 O B:ASP118 4.7 28.6 1.0 CB B:THR117 4.7 27.7 1.0 CG B:LEU149 4.8 32.2 1.0 N B:SER119 4.8 27.6 1.0 CD1 B:LEU149 4.9 30.6 1.0

G.C.Pavithra, U.A.Ramagopal. Crystal Structure of Adenine Phosphoribosyltransferase From Yersinia Pseudotuberculosis To Be Published.