Potassium in PDB 4wo2: Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna

The structure of Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna, PDB code: 4wo2 was solved by D.Wei, G.N.Parkinson, S.Neidle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.29 / 1.82
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	31.440, 31.440, 186.810, 90.00, 90.00, 120.00
R / Rfree (%)	21 / 22.3

The binding sites of Potassium atom in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna (pdb code 4wo2). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna, PDB code: 4wo2:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex 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 Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K101 b:14.8 occ:1.00 O6 A:DG21 2.7 16.8 1.0 O6 A:DG3 2.7 17.1 1.0 O6 A:DG10 2.7 18.5 1.0 O6 A:DG6 2.7 13.6 1.0 O6 A:DG13 2.8 16.6 1.0 O6 A:DG14 2.8 14.7 1.0 O6 A:DG7 2.9 16.5 1.0 O6 A:DG2 2.9 17.8 1.0 K A:K104 3.3 14.9 1.0 K A:K102 3.4 15.3 1.0 C6 A:DG6 3.6 15.9 1.0 C6 A:DG13 3.6 18.9 1.0 C6 A:DG10 3.7 17.4 1.0 C6 A:DG3 3.7 18.0 1.0 C6 A:DG14 3.7 17.6 1.0 C6 A:DG21 3.7 17.4 1.0 C6 A:DG7 3.8 17.6 1.0 C6 A:DG2 3.8 18.5 1.0 N1 A:DG6 3.9 14.5 1.0 N1 A:DG13 3.9 17.6 1.0 N1 A:DG14 3.9 17.9 1.0 N1 A:DG10 4.0 17.9 1.0 N1 A:DG7 4.0 16.4 1.0 N1 A:DG3 4.0 17.5 1.0 N1 A:DG21 4.1 16.7 1.0 N1 A:DG2 4.1 17.9 1.0 C5 A:DG13 4.8 20.3 1.0 C5 A:DG6 4.8 16.0 1.0 C5 A:DG10 4.9 18.3 1.0 C5 A:DG3 4.9 18.6 1.0 C5 A:DG21 5.0 17.3 1.0

Potassium binding site 2 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex 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 Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K102 b:15.3 occ:1.00 O6 A:DG22 2.7 15.6 1.0 O6 A:DG8 2.8 17.2 1.0 O6 A:DG14 2.8 14.7 1.0 O6 A:DG4 2.8 20.5 1.0 O6 A:DG7 2.8 16.5 1.0 O6 A:DG15 2.9 15.6 1.0 O6 A:DG3 3.0 17.1 1.0 O6 A:DG21 3.0 16.8 1.0 K A:K101 3.4 14.8 1.0 N2 A:DG20 3.6 16.8 1.0 C6 A:DG14 3.6 17.6 1.0 C6 A:DG8 3.6 19.3 1.0 C6 A:DG4 3.7 20.2 1.0 C6 A:DG22 3.7 18.3 1.0 C6 A:DG7 3.7 17.6 1.0 C6 A:DG15 3.8 17.3 1.0 C6 A:DG21 3.8 17.4 1.0 C6 A:DG3 3.8 18.0 1.0 N1 A:DG8 3.8 18.3 1.0 N1 A:DG4 3.9 20.3 1.0 N1 A:DG14 4.0 17.9 1.0 N1 A:DG15 4.0 17.7 1.0 N1 A:DG22 4.0 17.9 1.0 N1 A:DG21 4.0 16.7 1.0 N1 A:DG3 4.1 17.5 1.0 N1 A:DG7 4.1 16.4 1.0 C2 A:DG20 4.4 17.9 1.0 C5 A:DG14 4.8 18.5 1.0 C5 A:DG8 4.9 19.6 1.0 C5 A:DG7 4.9 19.0 1.0 N3 A:DG20 4.9 17.4 1.0 C5 A:DG21 5.0 17.3 1.0 C5 A:DG4 5.0 20.7 1.0

Potassium binding site 3 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex 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 Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K103 b:19.4 occ:0.50 N7 A:DA16 2.9 20.8 1.0 O6 A:DG17 3.1 29.5 1.0 O A:HOH219 3.6 43.2 1.0 C8 A:DA16 3.6 22.1 1.0 O A:HOH205 3.7 29.7 1.0 C6 A:DG17 3.8 26.0 1.0 C5 A:DA16 4.1 20.2 1.0 N6 A:DA16 4.3 19.9 1.0 O A:HOH228 4.4 31.8 1.0 C5 A:DG17 4.5 26.6 1.0 N7 A:DG17 4.6 26.8 1.0 C6 A:DA16 4.7 19.9 1.0 N1 A:DG17 4.7 25.3 1.0 C2' A:DG15 4.8 24.7 1.0 N9 A:DA16 4.9 21.5 1.0

Potassium binding site 4 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:K104 b:14.9 occ:1.00 O6 B:DG2 2.7 18.1 1.0 O6 A:DG6 2.8 13.6 1.0 O6 A:DG13 2.8 16.6 1.0 O6 B:DG6 2.8 16.3 1.0 O6 B:DG10 2.8 16.6 1.0 O6 B:DG13 2.9 18.7 1.0 O6 A:DG2 2.9 17.8 1.0 O6 A:DG10 2.9 18.5 1.0 K B:K102 3.3 15.9 1.0 K A:K101 3.3 14.8 1.0 C6 B:DG2 3.6 20.0 1.0 C6 A:DG6 3.7 15.9 1.0 C6 B:DG6 3.7 17.8 1.0 C6 A:DG2 3.7 18.5 1.0 C6 A:DG13 3.7 18.9 1.0 C6 B:DG10 3.7 16.2 1.0 C6 A:DG10 3.8 17.4 1.0 C6 B:DG13 3.8 19.1 1.0 N1 B:DG2 3.9 17.8 1.0 N1 B:DG6 3.9 18.3 1.0 N1 A:DG2 4.0 17.9 1.0 N1 A:DG6 4.0 14.5 1.0 N1 A:DG13 4.0 17.6 1.0 N1 B:DG13 4.0 18.1 1.0 N1 B:DG10 4.0 16.1 1.0 N1 A:DG10 4.0 17.9 1.0 C5 B:DG2 4.8 20.2 1.0 C5 B:DG10 4.9 16.4 1.0 C5 A:DG6 4.9 16.0 1.0 C5 A:DG2 4.9 19.8 1.0 C5 A:DG13 4.9 20.3 1.0 C5 B:DG6 4.9 18.9 1.0 C5 A:DG10 4.9 18.3 1.0

Potassium binding site 5 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:K101 b:16.1 occ:1.00 O6 B:DG22 2.7 16.4 1.0 O6 B:DG4 2.8 20.7 1.0 O6 B:DG8 2.8 16.5 1.0 O6 B:DG15 2.8 21.9 1.0 O6 B:DG14 2.8 16.9 1.0 O6 B:DG7 2.9 16.6 1.0 O6 B:DG3 2.9 21.3 1.0 O6 B:DG21 3.1 16.9 1.0 K B:K102 3.4 15.9 1.0 N2 B:DG20 3.5 17.0 1.0 C6 B:DG14 3.6 18.3 1.0 C6 B:DG22 3.7 17.8 1.0 C6 B:DG8 3.7 17.7 1.0 C6 B:DG3 3.7 21.2 1.0 C6 B:DG4 3.7 21.0 1.0 C6 B:DG15 3.8 22.6 1.0 C6 B:DG7 3.8 18.1 1.0 C6 B:DG21 3.8 17.4 1.0 N1 B:DG22 3.9 17.8 1.0 N1 B:DG3 3.9 20.6 1.0 N1 B:DG4 3.9 20.0 1.0 N1 B:DG8 4.0 18.1 1.0 N1 B:DG14 4.0 18.8 1.0 N1 B:DG15 4.1 22.1 1.0 N1 B:DG21 4.1 17.0 1.0 N1 B:DG7 4.2 15.3 1.0 C2 B:DG20 4.5 18.9 1.0 C5 B:DG14 4.8 19.1 1.0 C5 B:DG3 4.9 22.1 1.0 C5 B:DG8 4.9 18.6 1.0 C5 B:DG7 4.9 18.4 1.0 N3 B:DG20 5.0 17.8 1.0 C5 B:DG4 5.0 21.8 1.0 C5 B:DG21 5.0 16.7 1.0

Potassium binding site 6 out of 6 in the Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Crystal Structure of Human Native Ckit Proto-Oncogene Promoter Quadruplex Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:K102 b:15.9 occ:1.00 O6 B:DG21 2.7 16.9 1.0 O6 B:DG6 2.7 16.3 1.0 O6 B:DG3 2.8 21.3 1.0 O6 B:DG10 2.8 16.6 1.0 O6 B:DG14 2.8 16.9 1.0 O6 B:DG7 2.8 16.6 1.0 O6 B:DG13 2.8 18.7 1.0 O6 B:DG2 2.9 18.1 1.0 K A:K104 3.3 14.9 1.0 K B:K101 3.4 16.1 1.0 C6 B:DG6 3.6 17.8 1.0 C6 B:DG21 3.7 17.4 1.0 C6 B:DG3 3.7 21.2 1.0 C6 B:DG10 3.7 16.2 1.0 C6 B:DG7 3.7 18.1 1.0 C6 B:DG14 3.7 18.3 1.0 C6 B:DG13 3.7 19.1 1.0 C6 B:DG2 3.7 20.0 1.0 N1 B:DG6 3.9 18.3 1.0 N1 B:DG7 4.0 15.3 1.0 N1 B:DG14 4.0 18.8 1.0 N1 B:DG2 4.0 17.8 1.0 N1 B:DG3 4.0 20.6 1.0 N1 B:DG10 4.0 16.1 1.0 N1 B:DG13 4.1 18.1 1.0 N1 B:DG21 4.1 17.0 1.0 C5 B:DG6 4.8 18.9 1.0 C5 B:DG13 4.9 18.9 1.0 C5 B:DG21 4.9 16.7 1.0 C5 B:DG10 4.9 16.4 1.0 C5 B:DG3 4.9 22.1 1.0 C5 B:DG7 5.0 18.4 1.0 C5 B:DG2 5.0 20.2 1.0 C5 B:DG14 5.0 19.1 1.0

D.Wei, G.N.Parkinson, S.Neidle. Crystal Structure of Human Native Ckit-1 Proto-Oncogene Promoter Quadruplex Dna To Be Published.