Potassium in PDB 6ip7: Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11

The structure of Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11, PDB code: 6ip7 was solved by K.Saikrishnan, A.Nuthanakanti, S.G.Srivatsan, I.Ahmad, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.92 / 1.55
Space group	P 6
Cell size a, b, c (Å), α, β, γ (°)	56.483, 56.483, 42.415, 90.00, 90.00, 120.00
R / Rfree (%)	18.9 / 21.3

The binding sites of Potassium atom in the Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11 (pdb code 6ip7). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11, PDB code: 6ip7:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11 within 5.0Å range: probe atom residue distance (Å) B Occ A:K101 b:18.6 occ:1.00 O6 A:DG4 2.7 19.4 1.0 O6 A:DG16 2.7 20.6 1.0 O6 A:DG22 2.7 20.9 1.0 O6 A:DG10 2.8 20.0 1.0 O6 A:DG21 2.9 18.4 1.0 O6 A:DG9 2.9 18.2 1.0 O6 A:DG3 2.9 18.4 1.0 O6 A:DG15 3.0 19.1 1.0 H1 A:DG16 3.4 24.9 1.0 K A:K102 3.4 17.4 1.0 H1 A:DG4 3.4 27.5 1.0 H1 A:DG22 3.5 25.1 1.0 H1 A:DG10 3.5 24.7 1.0 H1 A:DG21 3.6 23.1 1.0 H1 A:DG15 3.6 22.4 1.0 C6 A:DG16 3.6 20.9 1.0 C6 A:DG4 3.6 21.6 1.0 H1 A:DG3 3.7 24.1 1.0 H1 A:DG9 3.7 23.1 1.0 C6 A:DG22 3.7 18.8 1.0 C6 A:DG21 3.7 17.2 1.0 C6 A:DG10 3.7 19.5 1.0 C6 A:DG9 3.7 16.4 1.0 C6 A:DG15 3.7 18.3 1.0 C6 A:DG3 3.7 18.9 1.0 N1 A:DG16 3.9 20.8 1.0 N1 A:DG4 3.9 22.9 1.0 N1 A:DG22 3.9 20.9 1.0 N1 A:DG10 4.0 20.6 1.0 N1 A:DG15 4.0 18.7 1.0 N1 A:DG21 4.0 19.3 1.0 N1 A:DG3 4.0 20.1 1.0 N1 A:DG9 4.0 19.3 1.0 C5 A:DG21 4.9 18.3 1.0 C5 A:DG9 4.9 17.2 1.0 C5 A:DG3 4.9 18.8 1.0 C5 A:DG15 4.9 21.7 1.0 C5 A:DG4 5.0 23.0 1.0 C5 A:DG16 5.0 20.4 1.0 C5 A:DG22 5.0 20.9 1.0

Potassium binding site 2 out of 3 in the Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11 within 5.0Å range: probe atom residue distance (Å) B Occ A:K102 b:17.4 occ:1.00 O6 A:DG15 2.7 19.1 1.0 O6 A:DG3 2.7 18.4 1.0 O6 A:DG21 2.8 18.4 1.0 O6 A:DG8 2.8 18.0 1.0 O6 A:DG20 2.8 17.0 1.0 O6 A:DG9 2.8 18.2 1.0 O6 A:DG14 2.8 17.4 1.0 O6 A:DG2 2.8 17.1 1.0 K A:K103 3.3 15.6 0.5 K A:K101 3.4 18.6 1.0 H1 A:DG15 3.5 22.4 1.0 H1 A:DG21 3.5 23.1 1.0 H1 A:DG8 3.5 21.5 1.0 H1 A:DG2 3.6 22.4 1.0 H1 A:DG9 3.6 23.1 1.0 H1 A:DG14 3.6 21.3 1.0 H1 A:DG3 3.6 24.1 1.0 C6 A:DG8 3.6 17.2 1.0 C6 A:DG15 3.6 18.3 1.0 H1 A:DG20 3.6 22.7 1.0 C6 A:DG3 3.7 18.9 1.0 C6 A:DG21 3.7 17.2 1.0 C6 A:DG14 3.7 18.4 1.0 C6 A:DG20 3.7 17.6 1.0 C6 A:DG9 3.7 16.4 1.0 C6 A:DG2 3.7 17.0 1.0 N1 A:DG8 3.9 17.9 1.0 N1 A:DG15 3.9 18.7 1.0 N1 A:DG21 4.0 19.3 1.0 N1 A:DG14 4.0 17.8 1.0 N1 A:DG9 4.0 19.3 1.0 N1 A:DG3 4.0 20.1 1.0 N1 A:DG2 4.0 18.6 1.0 N1 A:DG20 4.0 18.9 1.0 C5 A:DG8 4.8 18.9 1.0 C5 A:DG14 4.9 17.9 1.0 C5 A:DG21 4.9 18.3 1.0 C5 A:DG15 4.9 21.7 1.0 C5 A:DG20 4.9 17.2 1.0 C5 A:DG3 4.9 18.8 1.0 C5 A:DG2 5.0 17.5 1.0 C5 A:DG9 5.0 17.2 1.0

Potassium binding site 3 out of 3 in the Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of Human Telomeric Dna with 5-Selenophene-Modified Deoxyuridine at Residue 11 within 5.0Å range: probe atom residue distance (Å) B Occ A:K103 b:15.6 occ:0.50 O6 A:DG20 2.8 17.0 1.0 O6 A:DG8 2.8 18.0 1.0 O6 A:DG14 2.8 17.4 1.0 O6 A:DG2 2.8 17.1 1.0 K A:K102 3.3 17.4 1.0 H1 A:DG14 3.5 21.3 1.0 H1 A:DG20 3.6 22.7 1.0 H1 A:DG8 3.6 21.5 1.0 H1 A:DG2 3.6 22.4 1.0 C6 A:DG20 3.7 17.6 1.0 C6 A:DG14 3.7 18.4 1.0 C6 A:DG2 3.7 17.0 1.0 C6 A:DG8 3.7 17.2 1.0 N1 A:DG14 4.0 17.8 1.0 N1 A:DG20 4.0 18.9 1.0 N1 A:DG2 4.0 18.6 1.0 N1 A:DG8 4.0 17.9 1.0 C5 A:DG20 4.9 17.2 1.0 C5 A:DG2 4.9 17.5 1.0 C5 A:DG14 4.9 17.9 1.0 C5 A:DG8 5.0 18.9 1.0

A.Nuthanakanti, I.Ahmed, S.Y.Khatik, K.Saikrishnan, S.G.Srivatsan. Probing G-Quadruplex Topologies and Recognition Concurrently in Real Time and 3D Using A Dual-App Nucleoside Probe. Nucleic Acids Res. V. 47 6059 2019.
ISSN: ESSN 1362-4962
PubMed: 31106340
DOI: 10.1093/NAR/GKZ419