Potassium in PDB 6jkn: Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna

The structure of Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna, PDB code: 6jkn was solved by Y.Geng, Q.Cai, C.Liu, G.Zhu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.00 / 1.40
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	46.252, 46.252, 120.054, 90.00, 90.00, 120.00
R / Rfree (%)	15.9 / 18.4

The structure of Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna also contains other interesting chemical elements:

Bromine

(Br)

2 atoms

The binding sites of Potassium atom in the Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna (pdb code 6jkn). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna, PDB code: 6jkn:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K101 b:19.4 occ:1.00 O A:HOH257 2.7 21.3 1.0 O A:HOH261 2.7 21.7 1.0 O6 A:DG15 2.8 20.6 1.0 O6 A:DG3 2.8 19.7 1.0 O6 A:DG7 2.8 21.1 1.0 O2 A:DT17 2.8 21.1 1.0 O2 A:DT5 2.8 20.0 1.0 O6 A:DG19 2.9 19.2 1.0 K A:K102 3.6 19.8 1.0 C6 A:DG7 3.6 19.6 1.0 C6 A:DG15 3.7 19.8 1.0 C6 A:DG19 3.7 19.0 1.0 N1 A:DG7 3.7 20.3 1.0 C6 A:DG3 3.8 18.6 1.0 C2 A:DT5 3.9 20.1 1.0 N1 A:DG19 3.9 20.0 1.0 C2 A:DT17 4.0 21.5 1.0 N1 A:DG15 4.1 18.9 1.0 N1 A:DG3 4.2 20.6 1.0 C1' A:DT5 4.2 20.8 1.0 C1' A:DT17 4.4 21.7 1.0 N1 A:DT5 4.5 19.2 1.0 O4' A:DT5 4.7 22.0 1.0 N1 A:DT17 4.7 21.3 1.0 C5 A:DG15 4.8 19.0 1.0 C5 A:DG7 4.8 20.2 1.0 N3 A:DT5 4.9 22.1 1.0 C5 A:DG19 4.9 19.2 1.0 N3 A:DT17 4.9 22.7 1.0 C2 A:DG7 5.0 20.3 1.0 O4' A:DT17 5.0 21.5 1.0

Potassium binding site 2 out of 3 in the Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K102 b:19.8 occ:1.00 O6 A:DG7 2.7 21.1 1.0 O6 A:DG14 2.7 21.0 1.0 O6 A:BGM20 2.7 19.9 1.0 O6 A:DG19 2.7 19.2 1.0 O6 A:DG2 2.8 20.7 1.0 O6 A:DG3 2.9 19.7 1.0 O6 A:BGM8 2.9 21.4 1.0 O6 A:DG15 3.0 20.6 1.0 K A:K103 3.5 21.4 1.0 C6 A:DG3 3.5 18.6 1.0 C6 A:DG14 3.5 21.8 1.0 K A:K101 3.6 19.4 1.0 C6 A:BGM20 3.6 20.0 1.0 N1 A:DG3 3.6 20.6 1.0 C6 A:DG19 3.6 19.0 1.0 C6 A:DG7 3.7 19.6 1.0 C6 A:DG2 3.7 20.0 1.0 C6 A:BGM8 3.8 21.7 1.0 C6 A:DG15 3.9 19.8 1.0 N1 A:BGM20 3.9 20.8 1.0 N1 A:DG14 3.9 20.2 1.0 N1 A:DG19 4.0 20.0 1.0 N1 A:BGM8 4.0 22.5 1.0 N1 A:DG15 4.0 18.9 1.0 N1 A:DG2 4.1 21.7 1.0 N1 A:DG7 4.2 20.3 1.0 C5 A:DG14 4.6 22.4 1.0 C5 A:DG3 4.7 18.6 1.0 C2 A:DG3 4.8 20.4 1.0 C5 A:DG7 4.8 20.2 1.0 C5 A:DG19 4.8 19.2 1.0 C5 A:BGM20 4.9 21.0 1.0 C5 A:DG2 4.9 20.8 1.0

Potassium binding site 3 out of 3 in the Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K103 b:21.4 occ:1.00 O6 A:DG1 2.7 22.3 1.0 O6 A:DG13 2.7 22.1 1.0 O6 A:DG9 2.7 22.9 1.0 O6 A:BGM20 2.8 19.9 1.0 O6 A:DG21 2.8 22.5 1.0 O6 A:DG14 2.8 21.0 1.0 O6 A:BGM8 2.9 21.4 1.0 O6 A:DG2 3.2 20.7 1.0 K A:K102 3.5 19.8 1.0 C6 A:DG13 3.6 22.4 1.0 C6 A:DG1 3.6 21.7 1.0 C6 A:BGM20 3.6 20.0 1.0 C6 A:DG9 3.7 22.6 1.0 C6 A:BGM8 3.7 21.7 1.0 C6 A:DG14 3.7 21.8 1.0 C6 A:DG21 3.7 22.1 1.0 N1 A:DG13 3.9 23.6 1.0 N1 A:DG9 3.9 23.2 1.0 N1 A:DG1 3.9 23.0 1.0 N1 A:DG14 3.9 20.2 1.0 N1 A:DG21 3.9 21.6 1.0 C6 A:DG2 4.0 20.0 1.0 N1 A:BGM8 4.0 22.5 1.0 N1 A:BGM20 4.1 20.8 1.0 N1 A:DG2 4.1 21.7 1.0 C2 A:DA12 4.2 26.4 1.0 N1 A:DA12 4.4 26.2 1.0 C5 A:BGM20 4.7 21.0 1.0 C5 A:BGM8 4.8 23.6 1.0 C5 A:DG13 4.8 22.8 1.0 N3 A:DA12 4.8 28.5 1.0 C5 A:DG1 4.8 22.5 1.0 C5 A:DG14 5.0 22.4 1.0

Y.Geng, C.Liu, B.Zhou, Q.Cai, H.Miao, X.Shi, N.Xu, Y.You, C.P.Fung, R.U.Din, G.Zhu. The Crystal Structure of An Antiparallel Chair-Type G-Quadruplex Formed By Bromo-Substituted Human Telomeric Dna. Nucleic Acids Res. V. 47 5395 2019.
ISSN: ESSN 1362-4962
PubMed: 30957851
DOI: 10.1093/NAR/GKZ221