Potassium in PDB 6xt7: TEL25 Hybrid Four-Quartet G-Quadruplex with K+

The structure of TEL25 Hybrid Four-Quartet G-Quadruplex with K+, PDB code: 6xt7 was solved by L.A.Yatsunyk, S.E.Mccarthy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.38 / 1.56
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	29.998, 92.916, 50.081, 90, 99.62, 90
R / Rfree (%)	16.1 / 18.5

The structure of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ also contains other interesting chemical elements:

Magnesium

(Mg)

6 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Potassium atom in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+ (pdb code 6xt7). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 12 binding sites of Potassium where determined in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+, PDB code: 6xt7:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K1102 b:29.9 occ:1.00 O6 A:DG1004 2.6 32.5 1.0 O6 A:DG1019 2.7 29.9 1.0 O6 A:DG1022 2.7 31.5 1.0 O6 A:DG1001 2.7 32.3 1.0 O6 A:DG1010 2.8 30.8 1.0 O6 A:DG1018 2.9 28.1 1.0 O6 A:DG1023 2.9 30.9 1.0 O6 A:DG1005 3.0 31.3 1.0 C6 A:DG1004 3.5 31.4 1.0 K A:K1103 3.5 27.9 1.0 C6 A:DG1022 3.6 31.0 1.0 C6 A:DG1010 3.6 28.9 1.0 C6 A:DG1019 3.6 30.9 1.0 C6 A:DG1001 3.7 35.2 1.0 C6 A:DG1018 3.7 28.4 1.0 N1 A:DG1004 3.8 31.4 1.0 N1 A:DG1010 3.8 30.9 1.0 C6 A:DG1023 3.8 29.2 1.0 N1 A:DG1019 3.9 30.3 1.0 N1 A:DG1022 3.9 30.0 1.0 C6 A:DG1005 3.9 31.0 1.0 N1 A:DG1001 4.0 34.4 1.0 N1 A:DG1018 4.1 28.0 1.0 N1 A:DG1005 4.2 30.4 1.0 N1 A:DG1023 4.2 28.4 1.0 O2 A:DT1003 4.4 35.0 1.0 C2 A:DT1003 4.6 35.3 1.0 N3 A:DT1003 4.7 36.9 1.0 C5 A:DG1004 4.7 33.5 1.0 C5 A:DG1010 4.8 31.3 1.0 C5 A:DG1022 4.8 31.9 1.0 C5 A:DG1018 4.8 28.8 1.0 C5 A:DG1019 4.9 30.0 1.0 C5 A:DG1001 5.0 35.6 1.0

Potassium binding site 2 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K1103 b:27.9 occ:1.00 O6 A:DG1024 2.7 32.8 1.0 O6 A:DG1017 2.7 28.8 1.0 O6 A:DG1010 2.7 30.8 1.0 O6 A:DG1011 2.7 30.8 1.0 O6 A:DG1005 2.7 31.3 1.0 O6 A:DG1023 2.8 30.9 1.0 O6 A:DG1006 2.8 32.0 1.0 O6 A:DG1018 2.8 28.1 1.0 K A:K1104 3.5 28.3 1.0 K A:K1102 3.5 29.9 1.0 C6 A:DG1005 3.5 31.0 1.0 C6 A:DG1023 3.6 29.2 1.0 C6 A:DG1010 3.6 28.9 1.0 C6 A:DG1024 3.6 31.0 1.0 C6 A:DG1011 3.6 30.2 1.0 C6 A:DG1017 3.6 27.6 1.0 C6 A:DG1018 3.8 28.4 1.0 C6 A:DG1006 3.8 29.9 1.0 N1 A:DG1005 3.9 30.4 1.0 N1 A:DG1011 3.9 30.9 1.0 N1 A:DG1010 3.9 30.9 1.0 N1 A:DG1023 3.9 28.4 1.0 N1 A:DG1017 3.9 27.7 1.0 N1 A:DG1024 4.0 30.2 1.0 N1 A:DG1018 4.0 28.0 1.0 N1 A:DG1006 4.1 29.3 1.0 C5 A:DG1005 4.7 33.1 1.0 C5 A:DG1023 4.8 30.3 1.0 C5 A:DG1010 4.8 31.3 1.0 C5 A:DG1024 4.8 32.8 1.0 C5 A:DG1017 4.9 27.6 1.0 C5 A:DG1011 4.9 32.3 1.0

Potassium binding site 3 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K1104 b:28.3 occ:1.00 O6 A:DG1016 2.6 28.1 1.0 O6 A:DG1025 2.6 29.9 1.0 O6 A:DG1007 2.7 32.3 1.0 O6 A:DG1006 2.8 32.0 1.0 O6 A:DG1012 2.8 29.5 1.0 O6 A:DG1011 2.9 30.8 1.0 O6 A:DG1017 3.0 28.8 1.0 O6 A:DG1024 3.0 32.8 1.0 K A:K1103 3.5 27.9 1.0 C6 A:DG1006 3.5 29.9 1.0 C6 A:DG1016 3.5 27.5 1.0 C6 A:DG1011 3.6 30.2 1.0 C6 A:DG1025 3.6 29.8 1.0 C6 A:DG1007 3.7 31.8 1.0 C6 A:DG1012 3.8 31.2 1.0 C6 A:DG1024 3.8 31.0 1.0 C6 A:DG1017 3.8 27.6 1.0 N1 A:DG1016 3.8 27.3 1.0 N1 A:DG1006 3.9 29.3 1.0 N1 A:DG1007 3.9 30.3 1.0 N1 A:DG1024 3.9 30.2 1.0 N1 A:DG1025 4.0 27.6 1.0 N1 A:DG1012 4.0 28.4 1.0 N1 A:DG1011 4.0 30.9 1.0 N1 A:DG1017 4.2 27.7 1.0 C7 A:DT1015 4.6 36.2 1.0 C5 A:DG1006 4.7 31.6 1.0 C5 A:DG1011 4.8 32.3 1.0 C5 A:DG1016 4.8 26.7 1.0 C5 A:DG1017 4.9 27.6 1.0 C5 A:DG1025 5.0 30.3 1.0 C5 A:DG1024 5.0 32.8 1.0 C5 A:DG1007 5.0 32.8 1.0

Potassium binding site 4 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ B:K1103 b:28.0 occ:1.00 O6 B:DG1007 2.5 29.9 0.4 O6 B:DG1025 2.7 30.3 1.0 O6 B:DG1016 2.7 30.0 1.0 O6 B:DG1012 2.7 29.4 1.0 O6 B:DG1006 2.8 31.4 1.0 O6 B:DG1007 2.8 30.5 0.6 O6 B:DG1011 2.8 30.6 1.0 O6 B:DG1017 3.0 29.3 1.0 O6 B:DG1024 3.1 28.6 1.0 C6 B:DG1007 3.4 30.9 0.4 K B:K1104 3.5 28.4 1.0 N1 B:DG1007 3.5 30.5 0.4 C6 B:DG1006 3.6 31.1 1.0 C6 B:DG1016 3.6 27.7 1.0 C6 B:DG1011 3.6 31.6 1.0 C6 B:DG1025 3.7 32.4 1.0 C6 B:DG1012 3.7 28.4 1.0 C6 B:DG1007 3.8 31.1 0.6 C6 B:DG1017 3.8 27.9 1.0 N1 B:DG1006 3.8 31.2 1.0 C6 B:DG1024 3.9 31.1 1.0 N1 B:DG1016 3.9 26.6 1.0 N1 B:DG1012 3.9 29.1 1.0 N1 B:DG1025 4.0 32.1 1.0 N1 B:DG1011 4.0 29.8 1.0 N1 B:DG1024 4.1 32.9 1.0 N1 B:DG1007 4.1 30.9 0.6 N1 B:DG1017 4.2 28.2 1.0 C7 B:DT1015 4.5 38.0 1.0 C5 B:DG1006 4.7 34.4 1.0 C5 B:DG1007 4.7 32.4 0.4 C5 B:DG1011 4.8 32.7 1.0 C2 B:DG1007 4.9 31.2 0.4 C5 B:DG1016 4.9 26.5 1.0 C5 B:DG1017 5.0 27.0 1.0 C5 B:DG1025 5.0 30.2 1.0

Potassium binding site 5 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ B:K1104 b:28.4 occ:1.00 O6 B:DG1010 2.7 30.8 0.6 O6 B:DG1024 2.7 28.6 1.0 O6 B:DG1017 2.7 29.3 1.0 O6 B:DG1023 2.8 28.5 1.0 O6 B:DG1005 2.8 30.5 1.0 O6 B:DG1011 2.8 30.6 1.0 O6 B:DG1006 2.8 31.4 1.0 O6 B:DG1018 2.9 28.1 1.0 O6 B:DG1010 2.9 30.5 0.4 K B:K1103 3.5 28.0 1.0 C6 B:DG1010 3.5 30.5 0.6 K B:K1105 3.5 29.9 1.0 C6 B:DG1005 3.5 31.7 1.0 C6 B:DG1023 3.6 30.0 1.0 C6 B:DG1017 3.7 27.9 1.0 C6 B:DG1024 3.7 31.1 1.0 C6 B:DG1011 3.7 31.6 1.0 C6 B:DG1006 3.7 31.1 1.0 C6 B:DG1010 3.8 30.9 0.4 C6 B:DG1018 3.8 29.5 1.0 N1 B:DG1010 3.8 29.3 0.6 N1 B:DG1005 3.8 32.4 1.0 N1 B:DG1023 3.9 30.0 1.0 N1 B:DG1011 3.9 29.8 1.0 N1 B:DG1017 4.0 28.2 1.0 N1 B:DG1006 4.0 31.2 1.0 N1 B:DG1024 4.1 32.9 1.0 N1 B:DG1018 4.1 28.7 1.0 N1 B:DG1010 4.2 29.7 0.4 C5 B:DG1005 4.7 34.5 1.0 C5 B:DG1010 4.8 32.5 0.6 C5 B:DG1023 4.8 30.6 1.0 C5 B:DG1024 4.9 31.6 1.0 C5 B:DG1017 4.9 27.0 1.0 C5 B:DG1010 4.9 32.6 0.4 C5 B:DG1011 5.0 32.7 1.0 C5 B:DG1006 5.0 34.4 1.0

Potassium binding site 6 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ B:K1105 b:29.9 occ:1.00 O6 B:DG1004 2.6 34.1 1.0 O6 B:DG1019 2.7 29.3 1.0 O6 B:DG1010 2.7 30.5 0.4 O6 B:DG1022 2.7 30.3 1.0 O6 B:DG1001 2.8 32.9 1.0 O6 B:DG1018 2.9 28.1 1.0 O6 B:DG1010 2.9 30.8 0.6 O6 B:DG1023 3.0 28.5 1.0 O6 B:DG1005 3.0 30.5 1.0 C6 B:DG1004 3.5 33.3 1.0 K B:K1104 3.5 28.4 1.0 C6 B:DG1010 3.6 30.9 0.4 C6 B:DG1022 3.6 30.1 1.0 C6 B:DG1010 3.6 30.5 0.6 C6 B:DG1019 3.6 30.5 1.0 C6 B:DG1018 3.6 29.5 1.0 C6 B:DG1001 3.7 33.5 1.0 N1 B:DG1004 3.8 31.4 1.0 C6 B:DG1023 3.9 30.0 1.0 N1 B:DG1010 3.9 29.3 0.6 N1 B:DG1010 3.9 29.7 0.4 N1 B:DG1019 3.9 31.1 1.0 N1 B:DG1022 3.9 27.6 1.0 N1 B:DG1001 3.9 33.5 1.0 C6 B:DG1005 3.9 31.7 1.0 N1 B:DG1018 4.1 28.7 1.0 N1 B:DG1023 4.1 30.0 1.0 N1 B:DG1005 4.1 32.4 1.0 O2 B:DT1003 4.4 35.3 1.0 C2 B:DT1003 4.6 36.0 1.0 N3 B:DT1003 4.7 36.5 1.0 C5 B:DG1004 4.7 35.8 1.0 C5 B:DG1010 4.8 32.5 0.6 C5 B:DG1018 4.8 29.2 1.0 C5 B:DG1010 4.8 32.6 0.4 C5 B:DG1022 4.9 31.9 1.0 C5 B:DG1019 5.0 29.3 1.0 C5 B:DG1001 5.0 34.5 1.0

Potassium binding site 7 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ C:K1102 b:31.8 occ:1.00 O6 C:DG1019 2.6 32.3 1.0 O6 C:DG1022 2.7 34.2 1.0 O6 C:DG1004 2.7 34.0 1.0 O6 C:DG1001 2.8 34.5 1.0 O6 C:DG1010 2.8 32.4 1.0 O6 C:DG1023 2.9 31.2 1.0 O6 C:DG1018 2.9 29.7 1.0 O6 C:DG1005 3.0 33.1 1.0 K C:K1104 3.5 30.6 1.0 C6 C:DG1004 3.5 35.5 1.0 C6 C:DG1022 3.5 33.0 1.0 C6 C:DG1019 3.6 31.6 1.0 C6 C:DG1010 3.6 30.8 1.0 C6 C:DG1001 3.7 33.4 1.0 N1 C:DG1004 3.8 35.1 1.0 C6 C:DG1023 3.8 32.3 1.0 C6 C:DG1018 3.8 28.7 1.0 N1 C:DG1022 3.8 31.9 1.0 N1 C:DG1019 3.8 32.1 1.0 N1 C:DG1010 3.9 30.4 1.0 C6 C:DG1005 3.9 33.0 1.0 N1 C:DG1001 3.9 34.2 1.0 N1 C:DG1023 4.1 34.2 1.0 N1 C:DG1005 4.1 33.1 1.0 N1 C:DG1018 4.1 30.5 1.0 O2 C:DT1003 4.5 37.1 1.0 C5 C:DG1004 4.8 36.5 1.0 N3 C:DT1003 4.8 37.3 1.0 C2 C:DT1003 4.8 35.9 1.0 C5 C:DG1022 4.8 33.8 1.0 C5 C:DG1010 4.8 32.4 1.0 C5 C:DG1018 4.9 28.5 1.0 C5 C:DG1019 4.9 30.8 1.0 C5 C:DG1001 5.0 36.6 1.0 O4 C:DT1021 5.0 35.5 1.0

Potassium binding site 8 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ C:K1103 b:31.7 occ:1.00 O6 C:DG1025 2.6 34.4 1.0 O6 C:DG1016 2.7 32.4 1.0 O6 C:DG1011 2.7 31.8 1.0 O6 C:DG1007 2.7 30.2 1.0 O6 C:DG1006 2.8 33.1 1.0 O6 C:DG1012 2.8 28.9 1.0 O6 C:DG1017 3.0 31.8 1.0 O6 C:DG1024 3.1 34.5 1.0 K C:K1104 3.5 30.6 1.0 C6 C:DG1011 3.5 29.3 1.0 C6 C:DG1006 3.5 34.0 1.0 C6 C:DG1016 3.6 30.7 1.0 C6 C:DG1025 3.6 32.5 1.0 C6 C:DG1007 3.7 30.3 1.0 C6 C:DG1012 3.7 29.2 1.0 C6 C:DG1024 3.8 34.4 1.0 N1 C:DG1006 3.8 32.6 1.0 C6 C:DG1017 3.8 30.8 1.0 N1 C:DG1016 3.9 32.9 1.0 N1 C:DG1011 3.9 31.4 1.0 N1 C:DG1025 3.9 32.9 1.0 N1 C:DG1012 3.9 28.2 1.0 N1 C:DG1024 3.9 34.0 1.0 N1 C:DG1007 4.0 28.6 1.0 N1 C:DG1017 4.2 31.5 1.0 C7 C:DT1015 4.3 37.9 1.0 C5 C:DG1011 4.6 31.5 1.0 C5 C:DG1006 4.7 34.9 1.0 C5 C:DG1016 4.9 33.1 1.0 C5 C:DG1025 4.9 34.8 1.0 C5 C:DG1024 5.0 36.7 1.0 C5 C:DG1017 5.0 31.0 1.0

Potassium binding site 9 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ C:K1104 b:30.6 occ:1.00 O6 C:DG1024 2.6 34.5 1.0 O6 C:DG1010 2.7 32.4 1.0 O6 C:DG1005 2.8 33.1 1.0 O6 C:DG1017 2.8 31.8 1.0 O6 C:DG1011 2.8 31.8 1.0 O6 C:DG1023 2.8 31.2 1.0 O6 C:DG1018 2.8 29.7 1.0 O6 C:DG1006 2.9 33.1 1.0 K C:K1103 3.5 31.7 1.0 K C:K1102 3.5 31.8 1.0 C6 C:DG1005 3.5 33.0 1.0 C6 C:DG1010 3.6 30.8 1.0 C6 C:DG1024 3.6 34.4 1.0 C6 C:DG1023 3.6 32.3 1.0 C6 C:DG1011 3.6 29.3 1.0 C6 C:DG1017 3.7 30.8 1.0 C6 C:DG1018 3.7 28.7 1.0 C6 C:DG1006 3.8 34.0 1.0 N1 C:DG1010 3.9 30.4 1.0 N1 C:DG1005 3.9 33.1 1.0 N1 C:DG1011 3.9 31.4 1.0 N1 C:DG1023 3.9 34.2 1.0 N1 C:DG1024 3.9 34.0 1.0 N1 C:DG1017 4.0 31.5 1.0 N1 C:DG1018 4.1 30.5 1.0 N1 C:DG1006 4.1 32.6 1.0 C5 C:DG1005 4.6 34.9 1.0 C5 C:DG1010 4.8 32.4 1.0 C5 C:DG1024 4.8 36.7 1.0 C5 C:DG1023 4.8 35.7 1.0 C5 C:DG1011 4.9 31.5 1.0 C5 C:DG1017 4.9 31.0 1.0 C5 C:DG1018 5.0 28.5 1.0

Potassium binding site 10 out of 12 in the TEL25 Hybrid Four-Quartet G-Quadruplex with K+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of TEL25 Hybrid Four-Quartet G-Quadruplex with K+ within 5.0Å range: probe atom residue distance (Å) B Occ D:K1103 b:28.4 occ:1.00 O6 D:DG1024 2.7 32.7 1.0 O6 D:DG1017 2.7 31.1 1.0 O6 D:DG1010 2.8 29.0 1.0 O6 D:DG1005 2.8 31.1 1.0 O6 D:DG1011 2.8 30.4 1.0 O6 D:DG1018 2.8 29.9 1.0 O6 D:DG1023 2.8 30.3 1.0 O6 D:DG1006 2.9 30.7 1.0 K D:K1104 3.5 28.3 1.0 K D:K1105 3.5 28.3 1.0 C6 D:DG1005 3.5 32.1 1.0 C6 D:DG1023 3.6 30.9 1.0 C6 D:DG1017 3.6 30.1 1.0 C6 D:DG1010 3.6 27.7 1.0 C6 D:DG1024 3.6 34.0 1.0 C6 D:DG1011 3.7 29.4 1.0 C6 D:DG1018 3.7 28.3 1.0 C6 D:DG1006 3.8 30.1 1.0 N1 D:DG1023 3.9 31.6 1.0 N1 D:DG1005 3.9 31.5 1.0 N1 D:DG1011 4.0 27.8 1.0 N1 D:DG1017 4.0 31.1 1.0 N1 D:DG1010 4.0 26.9 1.0 N1 D:DG1018 4.0 28.3 1.0 N1 D:DG1024 4.0 34.4 1.0 N1 D:DG1006 4.1 28.7 1.0 C5 D:DG1005 4.7 33.3 1.0 C5 D:DG1023 4.8 33.5 1.0 C5 D:DG1010 4.8 28.3 1.0 C5 D:DG1017 4.8 29.9 1.0 C5 D:DG1024 4.9 35.4 1.0 C5 D:DG1011 5.0 29.8 1.0 C5 D:DG1018 5.0 28.2 1.0

K.Li, L.Yatsunyk, S.Neidle. Water Spines and Networks in G-Quadruplex Structures. Nucleic Acids Res. V. 49 519 2021.
ISSN: ESSN 1362-4962
PubMed: 33290519
DOI: 10.1093/NAR/GKAA1177