Sodium in PDB 8zas: Crystal Structure of Adenine Dna Aptamer Bound with Adenine

The structure of Crystal Structure of Adenine Dna Aptamer Bound with Adenine, PDB code: 8zas was solved by X.Lin, L.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.57 / 2.54
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	61.366, 26.929, 63.532, 90, 96.38, 90
R / Rfree (%)	21.8 / 27.5

The binding sites of Sodium atom in the Crystal Structure of Adenine Dna Aptamer Bound with Adenine (pdb code 8zas). 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 Adenine Dna Aptamer Bound with Adenine, PDB code: 8zas:

Sodium binding site 1 out of 1 in the Crystal Structure of Adenine Dna Aptamer Bound with Adenine


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 Adenine Dna Aptamer Bound with Adenine within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:78.8 occ:1.00 O6 A:DG4 2.8 92.8 1.0 O6 B:DG25 2.9 96.1 1.0 O4 A:DT5 2.9 90.7 1.0 N4 B:DC24 3.3 92.8 1.0 C6 A:DG4 3.8 91.7 1.0 C4 A:DT5 3.9 89.6 1.0 N4 B:DC26 3.9 96.0 1.0 C4 B:DC24 3.9 95.1 1.0 C6 B:DG25 4.0 95.7 1.0 N3 A:DT5 4.2 90.1 1.0 C5 B:DC24 4.3 98.1 1.0 C5 A:DG4 4.5 90.5 1.0 N7 A:DG4 4.5 89.4 1.0 N7 B:DG25 4.5 95.9 1.0 C5 B:DG25 4.6 95.4 1.0 N3 B:DC24 4.8 95.5 1.0 N1 A:DG4 4.8 91.6 1.0

X.Lin, Y.Huang, J.Huang, H.Yuan, Y.Luo, Z.Lu, Y.Ao, J.Huang, S.B.Chen, Z.Miao, L.Huang. From Theophylline to Adenine or Preq 1 : Repurposing A Dna Aptamer Revealed By Crystal Structure Analysis. Angew.Chem.Int.Ed.Engl. 04107 2025.
ISSN: ESSN 1521-3773
PubMed: 40101171
DOI: 10.1002/ANIE.202504107