Sodium in PDB 4y7d: Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita

The structure of Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita, PDB code: 4y7d was solved by M.E.Cuff, J.Osipiuk, J.Holowicki, M.Endres, A.Joachimiak, Midwest Centerfor Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.10 / 1.68
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	67.404, 75.394, 126.536, 90.00, 90.00, 90.00
R / Rfree (%)	15.3 / 18.7

The structure of Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita (pdb code 4y7d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita, PDB code: 4y7d:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:33.8 occ:1.00 O A:GLY176 2.3 27.8 1.0 O A:ALA173 2.3 29.1 1.0 O A:HOH847 2.4 43.8 1.0 O A:HOH909 2.4 39.1 1.0 O A:HOH910 2.6 36.1 1.0 O A:HOH798 2.7 45.6 1.0 C A:ALA173 3.5 28.6 1.0 C A:GLY176 3.5 28.2 1.0 O A:HOH667 4.0 28.7 1.0 CA A:ALA173 4.2 29.1 1.0 CA A:HIS177 4.2 30.1 1.0 N A:HIS177 4.3 27.0 1.0 N A:ALA174 4.5 27.3 1.0 O A:HOH846 4.5 38.0 1.0 N A:GLY176 4.5 25.4 1.0 O A:HOH825 4.6 35.3 1.0 CA A:GLY176 4.6 25.8 1.0 CB A:ALA173 4.6 30.6 1.0 CA A:ALA174 4.7 28.0 1.0 N A:LEU178 4.7 30.7 1.0 O A:LEU178 4.7 31.9 1.0 C A:HIS177 4.7 31.2 1.0 C A:ALA174 4.7 27.2 1.0 O A:ALA174 4.9 28.9 1.0

Sodium binding site 2 out of 2 in the Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita within 5.0Å range: probe atom residue distance (Å) B Occ B:Na502 b:33.6 occ:1.00 O B:ALA173 2.2 26.5 1.0 O B:HOH874 2.3 38.5 1.0 O B:GLY176 2.4 28.2 1.0 O B:HOH938 2.4 30.2 1.0 O B:HOH937 2.5 37.3 1.0 O B:HOH818 2.9 41.9 1.0 C B:ALA173 3.4 25.6 1.0 C B:GLY176 3.6 26.8 1.0 O B:HOH772 4.0 24.0 1.0 CA B:ALA173 4.2 24.9 1.0 CA B:HIS177 4.3 28.9 1.0 N B:HIS177 4.4 27.2 1.0 N B:ALA174 4.4 24.7 1.0 N B:GLY176 4.5 22.8 1.0 O B:HOH839 4.5 43.3 1.0 O B:HOH783 4.6 36.4 1.0 CA B:ALA174 4.6 25.4 1.0 CA B:GLY176 4.6 24.3 1.0 N B:LEU178 4.6 28.2 1.0 O B:LEU178 4.6 29.3 1.0 CB B:ALA173 4.7 25.9 1.0 C B:ALA174 4.7 25.1 1.0 C B:HIS177 4.7 29.8 1.0 O B:ALA174 4.9 26.3 1.0 OG B:SER248 5.0 26.4 1.0

M.E.Cuff, J.Osipiuk, J.Holowicki, M.Endres, A.Joachimiak. Alpha/Beta Hydrolase Fold Protein From Nakamurella Multipartita. To Be Published.