Sodium in PDB 5cb6: Structure of Adenosine-5'-Phosphosulfate Kinase

All present enzymatic activity of Structure of Adenosine-5'-Phosphosulfate Kinase:
2.7.1.25;

The structure of Structure of Adenosine-5'-Phosphosulfate Kinase, PDB code: 5cb6 was solved by J.Herrmann, J.M.Jez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.34 / 2.79
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	136.904, 109.681, 100.807, 90.00, 90.72, 90.00
R / Rfree (%)	16.4 / 21.8

The structure of Structure of Adenosine-5'-Phosphosulfate Kinase also contains other interesting chemical elements:

Magnesium	(Mg)	6 atoms
Arsenic	(As)	2 atoms

The binding sites of Sodium atom in the Structure of Adenosine-5'-Phosphosulfate Kinase (pdb code 5cb6). 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 Structure of Adenosine-5'-Phosphosulfate Kinase, PDB code: 5cb6:

Sodium binding site 1 out of 1 in the Structure of Adenosine-5'-Phosphosulfate Kinase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Adenosine-5'-Phosphosulfate Kinase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na304 b:28.7 occ:1.00 C2 B:ANP302 2.5 60.7 1.0 C2 A:ANP302 2.6 56.2 1.0 O B:THR153 2.6 41.6 1.0 O A:THR153 2.8 37.8 1.0 O B:GLU156 3.1 42.9 1.0 N1 B:ANP302 3.1 64.7 1.0 O A:GLU156 3.1 36.0 1.0 O A:ASP154 3.2 46.3 1.0 N1 A:ANP302 3.2 61.9 1.0 O B:ASP154 3.4 48.0 1.0 N3 B:ANP302 3.5 43.7 1.0 N3 A:ANP302 3.5 34.8 1.0 C B:THR153 3.8 43.8 1.0 C A:ASP154 4.0 44.9 1.0 C B:ASP154 4.0 48.2 1.0 C A:THR153 4.0 38.9 1.0 C B:GLU156 4.1 44.1 1.0 C A:GLU156 4.2 36.9 1.0 CA B:ASP154 4.2 44.8 1.0 NH2 B:ARG117 4.3 60.7 1.0 CA A:ASP154 4.3 46.3 1.0 NH2 A:ARG117 4.4 44.9 1.0 C6 B:ANP302 4.4 51.5 1.0 N B:ASP154 4.5 39.5 1.0 C6 A:ANP302 4.6 48.8 1.0 C4 B:ANP302 4.6 44.0 1.0 N A:ASP154 4.7 40.6 1.0 C4 A:ANP302 4.7 38.9 1.0 N B:GLU156 4.8 43.9 1.0 N A:GLU156 4.8 39.2 1.0 N B:GLU157 4.9 53.3 1.0 CA B:GLU157 4.9 49.8 1.0 C A:LEU155 4.9 44.9 1.0 C B:LEU155 4.9 45.0 1.0 N A:LEU155 4.9 42.8 1.0 N B:LEU155 4.9 45.6 1.0 CA B:THR153 5.0 40.8 1.0

J.Herrmann, D.Nathin, S.G.Lee, T.Sun, J.M.Jez. Recapitulating the Structural Evolution of Redox Regulation in Adenosine 5'-Phosphosulfate Kinase From Cyanobacteria to Plants. J.Biol.Chem. V. 290 24705 2015.
ISSN: ESSN 1083-351X
PubMed: 26294763
DOI: 10.1074/JBC.M115.679514