Sodium in PDB 3peb: The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus.

The structure of The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus., PDB code: 3peb was solved by M.E.Cuff, J.C.Mack, S.Clancy, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.43 / 1.86
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	70.503, 70.503, 160.388, 90.00, 90.00, 120.00
R / Rfree (%)	17 / 19

The binding sites of Sodium atom in the The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus. (pdb code 3peb). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus., PDB code: 3peb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na146 b:50.1 occ:1.00 O A:PHE116 2.3 34.5 1.0 O A:HOH203 2.3 49.5 1.0 O A:HOH267 2.4 43.6 1.0 O A:HOH262 2.5 47.5 1.0 O A:GLN113 2.6 31.8 1.0 O A:HOH234 3.3 56.2 1.0 C A:PHE116 3.4 34.8 1.0 C A:GLN113 3.5 30.6 1.0 CA A:GLN113 3.7 29.4 1.0 CA A:GLU117 4.0 41.2 1.0 CB A:GLN113 4.0 31.4 1.0 N A:GLU117 4.1 37.6 1.0 OE1 A:GLU117 4.2 58.7 1.0 N A:GLY118 4.5 39.4 1.0 CG A:GLN113 4.5 34.4 1.0 CA A:PHE116 4.6 31.2 1.0 N A:PHE116 4.7 29.5 1.0 N A:THR114 4.7 29.7 1.0 C A:GLU117 4.8 40.4 1.0 O A:GLY118 4.8 39.0 1.0

Sodium binding site 2 out of 2 in the The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na147 b:37.2 occ:1.00 O A:HOH304 2.3 48.6 1.0 O A:LEU68 2.3 37.3 1.0 O A:SER65 2.4 34.7 1.0 O A:HOH278 2.4 36.0 1.0 O A:HOH305 2.5 47.3 1.0 O A:HOH279 2.5 54.3 1.0 C A:SER65 3.4 34.1 1.0 C A:LEU68 3.6 36.3 1.0 O A:HOH151 3.8 57.6 0.5 CA A:SER65 3.9 32.0 1.0 CA A:ASP69 4.3 40.1 1.0 CB A:SER65 4.3 33.2 1.0 N A:ASP69 4.4 37.1 1.0 N A:LEU68 4.5 34.9 1.0 O A:PHE70 4.5 32.3 1.0 CA A:LEU68 4.6 34.1 1.0 N A:SER66 4.6 35.1 1.0 OD2 A:ASP69 4.8 57.8 1.0 C A:ASP69 4.8 38.2 1.0 O A:HOH306 4.9 54.1 1.0 N A:PHE70 4.9 34.9 1.0 O A:HOH277 5.0 44.0 1.0

M.E.Cuff, J.C.Mack, S.Clancy, A.Joachimiak. The Structure of A CREATINE_N Superfamily Domain of A Dipeptidase From Streptococcus Thermophilus. To Be Published.