Sodium in PDB 3hup: High-Resolution Structure of the Extracellular Domain of Human CD69

The structure of High-Resolution Structure of the Extracellular Domain of Human CD69, PDB code: 3hup was solved by P.Kolenko, J.Dohnalek, T.Skalova, J.Hasek, J.Duskova, O.Vanek, K.Bezouska, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.17 / 1.37
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	86.067, 86.067, 61.975, 90.00, 90.00, 120.00
R / Rfree (%)	13.3 / 18.4

The structure of High-Resolution Structure of the Extracellular Domain of Human CD69 also contains other interesting chemical elements:

Chlorine

(Cl)

5 atoms

The binding sites of Sodium atom in the High-Resolution Structure of the Extracellular Domain of Human CD69 (pdb code 3hup). 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 High-Resolution Structure of the Extracellular Domain of Human CD69, PDB code: 3hup:

Sodium binding site 1 out of 1 in the High-Resolution Structure of the Extracellular Domain of Human CD69


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of High-Resolution Structure of the Extracellular Domain of Human CD69 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na203 b:26.0 occ:1.00 O B:TRP89 2.8 16.0 1.0 O B:SER86 2.9 19.6 1.0 O A:HOH213 3.0 24.2 1.0 O A:HOH214 3.0 25.8 1.0 O A:GLY91 3.1 13.9 1.0 C A:GLY91 3.5 12.8 1.0 C B:TRP89 3.8 15.6 1.0 CA A:TYR92 3.9 14.1 1.0 CB B:CYS85 3.9 16.2 1.0 N A:TYR92 3.9 12.6 1.0 C B:SER86 3.9 21.2 1.0 CA B:GLU87 4.1 23.8 1.0 N B:GLY91 4.1 12.6 1.0 OH A:TYR198 4.3 41.8 1.0 C B:GLU87 4.3 23.5 1.0 O B:GLU87 4.3 22.6 1.0 CA A:GLY91 4.3 11.4 1.0 N B:GLU87 4.4 23.7 1.0 CA B:VAL90 4.4 12.3 1.0 O B:CYS85 4.5 21.5 1.0 N A:GLN93 4.5 15.9 1.0 N B:VAL90 4.5 13.4 1.0 C B:CYS85 4.6 19.0 1.0 C A:TYR92 4.6 15.4 1.0 C B:VAL90 4.6 13.3 1.0 N B:TRP89 4.7 16.2 1.0 O B:HOH216 4.7 35.7 1.0 CA B:TRP89 4.8 13.8 1.0 CA B:GLY91 4.8 12.6 1.0 CA B:CYS85 4.9 15.8 1.0 SG B:CYS85 4.9 16.3 1.0 N B:SER86 5.0 17.7 1.0

P.Kolenko, T.Skalova, O.Vanek, A.Stepankova, J.Duskova, J.Hasek, K.Bezouska, J.Dohnalek. The High-Resolution Structure of the Extracellular Domain of Human CD69 Using A Novel Polymer Acta Crystallogr.,Sect.F V. 65 1258 2009.
ISSN: ESSN 1744-3091
PubMed: 20054122
DOI: 10.1107/S1744309109043152