Potassium in PDB 5vhe: DHX36 in Complex with the C-Myc G-Quadruplex

The structure of DHX36 in Complex with the C-Myc G-Quadruplex, PDB code: 5vhe was solved by M.Chen, A.Ferre-D'amare, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.64 / 3.79
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	72.526, 79.282, 212.077, 90.00, 90.00, 90.00
R / Rfree (%)	23.8 / 28

The binding sites of Potassium atom in the DHX36 in Complex with the C-Myc G-Quadruplex (pdb code 5vhe). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the DHX36 in Complex with the C-Myc G-Quadruplex, PDB code: 5vhe:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the DHX36 in Complex with the C-Myc G-Quadruplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of DHX36 in Complex with the C-Myc G-Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ B:K101 b:1.0 occ:1.00 O6 B:DG2 2.9 0.1 1.0 O4 B:DT14 2.9 1.0 1.0 O6 B:DG6 2.9 0.6 1.0 O6 B:DG11 2.9 0.3 1.0 N6 B:DA10 3.0 0.6 1.0 O6 B:DG15 3.1 0.8 1.0 O6 B:DG3 3.1 0.9 1.0 N1 B:DG15 3.4 0.8 1.0 O6 B:DG7 3.4 0.8 1.0 K B:K102 3.4 1.0 1.0 C6 B:DG15 3.6 0.5 1.0 C6 B:DG11 3.7 0.7 1.0 N1 B:DG3 3.7 0.7 1.0 C6 B:DG3 3.7 0.3 1.0 N1 B:DG11 3.8 0.6 1.0 C6 B:DG2 3.8 0.7 1.0 C6 B:DG6 3.9 0.9 1.0 C4 B:DT14 3.9 0.2 1.0 C6 B:DA10 4.0 0.5 1.0 N1 B:DG2 4.2 0.9 1.0 C6 B:DG7 4.2 0.9 1.0 N1 B:DG6 4.3 1.0 1.0 CA A:GLY66 4.3 0.0 1.0 N1 B:DA10 4.3 0.0 1.0 N1 B:DG7 4.5 0.5 1.0 C2 B:DG15 4.5 0.3 1.0 N3 B:DT14 4.6 0.3 1.0 C5 B:DT14 4.8 0.7 1.0 N2 B:DG15 4.8 0.8 1.0 C7 B:DT14 4.9 0.0 1.0 C5 B:DG15 4.9 0.8 1.0 C2 B:DG3 4.9 0.0 1.0 C5 B:DG11 4.9 0.8 1.0 C2 B:DG11 5.0 0.5 1.0

Potassium binding site 2 out of 2 in the DHX36 in Complex with the C-Myc G-Quadruplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of DHX36 in Complex with the C-Myc G-Quadruplex within 5.0Å range: probe atom residue distance (Å) B Occ B:K102 b:1.0 occ:1.00 O6 B:DG7 2.9 0.8 1.0 O6 B:DG4 2.9 0.6 1.0 O6 B:DG16 2.9 0.7 1.0 O6 B:DG12 3.0 0.4 1.0 O6 B:DG3 3.0 0.9 1.0 O6 B:DG11 3.1 0.3 1.0 O6 B:DG15 3.1 0.8 1.0 O6 B:DG8 3.1 0.6 1.0 K B:K101 3.4 1.0 1.0 N1 B:DG4 3.5 0.7 1.0 C6 B:DG4 3.6 0.6 1.0 N1 B:DG15 3.6 0.8 1.0 N1 B:DG3 3.6 0.7 1.0 C6 B:DG3 3.6 0.3 1.0 C6 B:DG15 3.7 0.5 1.0 C6 B:DG16 3.8 0.3 1.0 C6 B:DG8 3.8 0.0 1.0 N1 B:DG8 3.9 0.6 1.0 C6 B:DG7 3.9 0.9 1.0 C6 B:DG11 4.0 0.7 1.0 C6 B:DG12 4.0 0.4 1.0 N1 B:DG16 4.1 0.8 1.0 N1 B:DG11 4.2 0.6 1.0 N1 B:DG12 4.4 0.7 1.0 N1 B:DG7 4.4 0.5 1.0 C2 B:DG4 4.7 0.1 1.0 C2 B:DG15 4.7 0.3 1.0 C2 B:DG3 4.7 0.0 1.0 C5 B:DG4 4.9 0.8 1.0 C5 B:DG3 4.9 0.8 1.0 C5 B:DG16 4.9 0.8 1.0 C5 B:DG15 5.0 0.8 1.0 C5 B:DG8 5.0 0.1 1.0

M.C.Chen, R.Tippana, N.A.Demeshkina, P.Murat, S.Balasubramanian, S.Myong, A.R.Ferre-D'amare. Structural Basis of G-Quadruplex Unfolding By the Deah/Rha Helicase DHX36. Nature V. 558 465 2018.
ISSN: ESSN 1476-4687
PubMed: 29899445
DOI: 10.1038/S41586-018-0209-9