Sodium in PDB 8rmh: Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet

The structure of Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet, PDB code: 8rmh was solved by A.Abdullrahman, K.El Omari, N.Paterson, C.Orr, M.Lambert, C.J.Cardin, J.Sanchez-Weatherby, J.P.Hall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.48 / 1.15
Space group	P 4 21 2
Cell size a, b, c (Å), α, β, γ (°)	40.436, 40.436, 40.479, 90, 90, 90
R / Rfree (%)	15.1 / 19

The structure of Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet also contains other interesting chemical elements:

Potassium	(K)	11 atoms
Magnesium	(Mg)	1 atom

The binding sites of Sodium atom in the Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet (pdb code 8rmh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet, PDB code: 8rmh:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet


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 Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet within 5.0Å range: probe atom residue distance (Å) B Occ A:Na109 b:22.9 occ:0.25 K A:K101 2.9 18.0 0.2 K A:K107 3.2 12.6 0.2 O4 A:DT7 3.2 24.4 1.0 H3 A:DT7 3.8 30.7 1.0 C4 A:DT7 4.0 24.5 1.0 N3 A:DT7 4.2 25.6 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet within 5.0Å range: probe atom residue distance (Å) B Occ A:Na110 b:37.8 occ:0.25 K A:K103 2.7 17.0 0.2 O4 A:DT4 3.1 22.5 1.0 O6 A:DG3 3.2 12.2 1.0 K A:K104 3.5 10.1 0.2 H3 A:DT4 3.8 27.1 1.0 H1 A:DG3 3.8 13.7 1.0 C6 A:DG3 3.9 11.5 1.0 C4 A:DT4 4.0 21.4 1.0 N1 A:DG3 4.2 11.4 1.0 N3 A:DT4 4.2 22.6 1.0

A.Abdullrahman, K.El Omari, N.Paterson, C.Orr, M.Lambert, J.Sandy, H.Mikolajek, C.J.Cardin, J.Sanchez-Weatherby, J.P.Hall. Crystal Structure of Parallel G-Quadruplex Containing T-Tetrads and Tg-Octaplet To Be Published.