Sodium in PDB 5byd: Crystal Structure of Human Ribokinase in P21 Spacegroup

All present enzymatic activity of Crystal Structure of Human Ribokinase in P21 Spacegroup:
2.7.1.15;

The structure of Crystal Structure of Human Ribokinase in P21 Spacegroup, PDB code: 5byd was solved by J.Park, J.Chakrabarti, B.Singh, R.S.Gupta, M.S.Junop, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.96 / 2.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	46.590, 89.910, 75.140, 90.00, 98.80, 90.00
R / Rfree (%)	17.1 / 21.5

The structure of Crystal Structure of Human Ribokinase in P21 Spacegroup also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Human Ribokinase in P21 Spacegroup (pdb code 5byd). 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 Structure of Human Ribokinase in P21 Spacegroup, PDB code: 5byd:

Sodium binding site 1 out of 1 in the Crystal Structure of Human Ribokinase in P21 Spacegroup


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 Human Ribokinase in P21 Spacegroup within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:34.2 occ:1.00 O A:HOH536 2.3 30.3 1.0 O A:SER301 2.4 29.5 1.0 O A:HOH530 2.4 32.2 1.0 O A:ALA304 2.5 35.9 1.0 OG A:SER310 2.6 29.8 1.0 O A:ASP263 2.7 37.8 1.0 CB A:SER310 3.1 32.4 1.0 C A:SER301 3.4 29.6 1.0 C A:ALA304 3.7 44.2 1.0 O A:THR265 3.7 37.6 1.0 C A:ASP263 3.9 40.9 1.0 CA A:VAL302 3.9 33.1 1.0 N A:VAL302 4.1 31.0 1.0 CB A:ASP263 4.2 51.8 1.0 CA A:SER301 4.4 29.2 1.0 C A:VAL302 4.4 37.4 1.0 N A:ALA304 4.4 42.9 1.0 N A:THR307 4.4 42.6 1.0 C A:ALA305 4.5 49.9 1.0 OD1 A:ASP263 4.5 56.6 1.0 CG A:ASP263 4.5 54.4 1.0 CB A:SER301 4.5 29.0 1.0 CA A:ALA305 4.5 50.0 1.0 N A:ALA305 4.5 47.4 1.0 OG A:SER301 4.6 30.4 1.0 CA A:ALA304 4.6 44.3 1.0 CA A:ASP263 4.6 47.9 1.0 CA A:SER310 4.6 33.2 1.0 O A:VAL302 4.7 39.0 1.0 N A:GLY306 4.7 50.1 1.0 N A:THR265 4.7 38.1 1.0 O A:THR307 4.7 36.0 1.0 O A:ALA305 4.8 49.7 1.0 C A:THR265 4.8 37.8 1.0 N A:THR264 4.8 39.1 1.0 C A:THR264 4.9 37.1 1.0 CA A:THR307 4.9 38.3 1.0 CA A:THR264 5.0 37.9 1.0 N A:GLN303 5.0 38.3 1.0

J.Park, J.Chakrabarti, B.Singh, R.S.Gupta, M.S.Junop. Crystal Structure of Human Ribokinase in P21 Spacegroup To Be Published.