Potassium in PDB 2awe: Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex

The structure of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex, PDB code: 2awe was solved by B.Pan, K.Shi, M.Sundaralingam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.36 / 2.10
Space group	I 41 2 2 1
Cell size a, b, c (Å), α, β, γ (°)	82.667, 82.667, 74.154, 90.00, 90.00, 90.00
R / Rfree (%)	17.2 / 22.8

The structure of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex also contains other interesting chemical elements:

Bromine	(Br)	8 atoms
Strontium	(Sr)	1 atom

Pages:

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

Binding sites:

The binding sites of Potassium atom in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex (pdb code 2awe). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 11 binding sites of Potassium where determined in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex, PDB code: 2awe:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ A:K211 b:12.3 occ:1.00 O4 A:U6 2.8 13.5 1.0 O4 D:U6 2.9 11.5 1.0 O4 B:U6 2.9 14.0 1.0 O4 C:U6 2.9 12.0 1.0 O6 B:G5 3.0 14.2 1.0 O6 D:G5 3.0 12.5 1.0 O6 C:G5 3.2 10.5 1.0 O6 A:G5 3.2 14.2 1.0 K A:K212 3.6 11.4 1.0 C4 A:U6 3.8 13.7 1.0 C6 D:G5 3.8 11.4 1.0 C4 B:U6 3.8 16.7 1.0 C6 B:G5 3.8 13.1 1.0 C4 D:U6 3.8 12.6 1.0 C4 C:U6 3.9 12.9 1.0 C6 A:G5 3.9 12.9 1.0 C6 C:G5 3.9 10.1 1.0 N3 A:U6 4.0 10.6 1.0 N3 B:U6 4.0 12.6 1.0 N3 D:U6 4.1 13.5 1.0 N1 A:G5 4.1 10.2 1.0 N1 C:G5 4.1 9.1 1.0 N3 C:U6 4.1 12.7 1.0 N1 D:G5 4.1 7.9 1.0 N1 B:G5 4.2 10.3 1.0 C5 D:G5 5.0 12.9 1.0 C5 B:G5 5.0 13.3 1.0

Potassium binding site 2 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ A:K212 b:11.4 occ:1.00 O6 B:G5 2.9 14.2 1.0 O6 D:G5 2.9 12.5 1.0 O6 A:G5 2.9 14.2 1.0 O6 C:G3 3.0 8.7 1.0 O6 A:G3 3.0 9.2 1.0 O6 D:G3 3.0 11.2 1.0 O6 B:G3 3.0 10.8 1.0 O6 C:G5 3.0 10.5 1.0 K A:K213 3.5 13.6 1.0 K A:K211 3.6 12.3 1.0 C6 D:G3 3.8 12.3 1.0 C6 A:G3 3.8 9.2 1.0 C6 C:G3 3.8 11.1 1.0 C6 B:G3 3.9 12.4 1.0 C6 B:G5 3.9 13.1 1.0 C6 C:G5 3.9 10.1 1.0 C6 D:G5 3.9 11.4 1.0 C6 A:G5 3.9 12.9 1.0 N1 A:G3 4.1 6.9 1.0 N1 C:G3 4.1 11.7 1.0 N1 D:G3 4.2 9.7 1.0 N1 C:G5 4.2 9.1 1.0 N1 B:G3 4.2 12.9 1.0 N1 B:G5 4.2 10.3 1.0 N1 A:G5 4.3 10.2 1.0 N1 D:G5 4.3 7.9 1.0 C5 D:G3 4.9 10.2 1.0 C5 A:G3 5.0 8.4 1.0

Potassium binding site 3 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ A:K213 b:13.6 occ:1.00 O6 D:BGM2 2.9 13.2 1.0 O6 A:BGM2 2.9 14.1 1.0 O6 D:G3 3.0 11.2 1.0 O6 C:BGM2 3.0 17.4 1.0 O6 B:BGM2 3.0 16.1 1.0 O6 C:G3 3.0 8.7 1.0 O6 B:G3 3.0 10.8 1.0 O6 A:G3 3.1 9.2 1.0 K A:K212 3.5 11.4 1.0 K A:K214 3.6 13.0 1.0 C6 D:BGM2 3.8 14.0 1.0 C6 B:BGM2 3.8 17.6 1.0 C6 C:BGM2 3.8 18.2 1.0 C6 A:BGM2 3.9 15.2 1.0 C6 C:G3 4.0 11.1 1.0 C6 D:G3 4.0 12.3 1.0 C6 B:G3 4.0 12.4 1.0 N1 C:BGM2 4.0 18.6 1.0 N1 D:BGM2 4.0 13.9 1.0 N1 B:BGM2 4.1 18.8 1.0 C6 A:G3 4.1 9.2 1.0 N1 A:BGM2 4.2 15.5 1.0 N1 B:G3 4.3 12.9 1.0 N1 D:G3 4.3 9.7 1.0 N1 C:G3 4.3 11.7 1.0 N1 A:G3 4.3 6.9 1.0 C5 D:BGM2 4.9 12.4 1.0 C5 B:BGM2 5.0 17.0 1.0

Potassium binding site 4 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ A:K214 b:13.0 occ:1.00 O4 G:U1 2.9 17.8 1.0 O A:HOH236 3.0 22.0 1.0 O4 E:U1 3.0 17.1 1.0 O6 A:BGM2 3.1 14.1 1.0 O4 H:U1 3.1 16.7 1.0 O6 C:BGM2 3.1 17.4 1.0 O4 F:U1 3.1 26.4 1.0 O6 D:BGM2 3.3 13.2 1.0 O6 B:BGM2 3.4 16.1 1.0 K A:K213 3.6 13.6 1.0 O F:HOH229 3.8 26.2 1.0 C4 G:U1 3.9 15.9 1.0 C4 E:U1 3.9 14.8 1.0 C6 A:BGM2 4.0 15.2 1.0 C6 C:BGM2 4.0 18.2 1.0 C4 H:U1 4.0 17.4 1.0 C4 F:U1 4.1 26.8 1.0 C6 D:BGM2 4.1 14.0 1.0 N3 E:U1 4.2 14.9 1.0 N3 G:U1 4.2 15.4 1.0 N1 A:BGM2 4.2 15.5 1.0 N1 D:BGM2 4.2 13.9 1.0 N3 H:U1 4.3 16.0 1.0 N3 F:U1 4.3 26.8 1.0 C6 B:BGM2 4.3 17.6 1.0 N1 C:BGM2 4.3 18.6 1.0 N1 B:BGM2 4.5 18.8 1.0

Potassium binding site 5 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ A:K215 b:13.6 occ:1.00 O4 A:U1 2.8 18.7 1.0 O4 B:U1 2.9 10.6 1.0 O4 D:U1 2.9 16.2 1.0 O A:HOH236 3.1 22.0 1.0 O6 G:BGM2 3.1 17.7 1.0 O6 F:BGM2 3.1 18.5 1.0 O4 C:U1 3.2 25.9 1.0 O6 E:BGM2 3.3 14.8 1.0 O6 H:BGM2 3.4 20.1 1.0 K E:K216 3.7 15.7 1.0 C4 D:U1 3.8 14.9 1.0 C4 A:U1 3.8 19.1 1.0 C4 B:U1 3.9 12.0 1.0 C6 G:BGM2 3.9 18.6 1.0 C6 F:BGM2 4.0 18.5 1.0 N3 D:U1 4.0 13.8 1.0 N1 G:BGM2 4.1 19.7 1.0 C4 C:U1 4.1 23.9 1.0 O C:HOH238 4.2 34.0 1.0 N3 B:U1 4.2 14.6 1.0 C6 E:BGM2 4.2 15.4 1.0 N3 A:U1 4.2 17.3 1.0 N3 C:U1 4.3 24.3 1.0 N1 E:BGM2 4.3 14.8 1.0 N1 F:BGM2 4.3 18.8 1.0 C6 H:BGM2 4.3 20.6 1.0 N1 H:BGM2 4.6 21.3 1.0

Potassium binding site 6 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ C:K220 b:14.7 occ:1.00 OP2 C:U4 2.5 22.5 1.0 O B:HOH56 2.5 22.1 1.0 O2' C:U6 2.7 23.6 1.0 O3' C:U6 3.1 24.5 1.0 O B:HOH103 3.2 36.6 1.0 O2' C:G3 3.2 15.0 1.0 C2' C:U6 3.8 21.4 1.0 P C:U4 3.9 24.4 1.0 C3' C:U6 4.0 22.6 1.0 O3' C:G3 4.1 19.8 1.0 C2' C:G3 4.2 17.1 1.0 C1' C:U6 4.2 20.1 1.0 OP1 C:G5 4.4 16.2 1.0 O B:HOH115 4.4 44.7 1.0 C3' C:G3 4.5 18.9 1.0 O2' B:G5 4.6 23.0 1.0 O2 C:U6 4.7 15.1 1.0 OP1 C:U4 4.7 23.8 1.0 O5' C:U4 5.0 22.4 1.0 N2 B:G5 5.0 10.9 1.0 C4' C:U6 5.0 24.0 1.0

Potassium binding site 7 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ E:K216 b:15.7 occ:1.00 O6 E:BGM2 2.8 14.8 1.0 O6 G:BGM2 2.9 17.7 1.0 O6 H:BGM2 3.0 20.1 1.0 O6 F:BGM2 3.0 18.5 1.0 O6 E:G3 3.0 13.9 1.0 O6 G:G3 3.0 12.1 1.0 O6 F:G3 3.1 16.8 1.0 O6 H:G3 3.1 12.8 1.0 K E:K217 3.4 14.1 1.0 K A:K215 3.7 13.6 1.0 C6 E:BGM2 3.7 15.4 1.0 C6 G:BGM2 3.8 18.6 1.0 C6 H:BGM2 3.9 20.6 1.0 C6 F:BGM2 3.9 18.5 1.0 C6 F:G3 4.0 15.2 1.0 N1 E:BGM2 4.0 14.8 1.0 C6 G:G3 4.0 14.1 1.0 C6 E:G3 4.0 15.2 1.0 N1 G:BGM2 4.0 19.7 1.0 C6 H:G3 4.1 12.9 1.0 N1 H:BGM2 4.1 21.3 1.0 N1 F:BGM2 4.1 18.8 1.0 N1 F:G3 4.2 13.4 1.0 N1 G:G3 4.3 10.9 1.0 N1 E:G3 4.4 13.2 1.0 N1 H:G3 4.4 13.6 1.0 C5 E:BGM2 4.8 14.1 1.0 C5 G:BGM2 4.9 17.0 1.0

Potassium binding site 8 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ E:K217 b:14.1 occ:1.00 O6 G:G3 2.8 12.1 1.0 O6 F:G5 2.9 14.4 1.0 O6 H:G5 2.9 12.7 1.0 O6 E:G5 3.0 13.5 1.0 O6 E:G3 3.0 13.9 1.0 O6 G:G5 3.0 12.6 1.0 O6 F:G3 3.1 16.8 1.0 O6 H:G3 3.1 12.8 1.0 K E:K216 3.4 15.7 1.0 K E:K218 3.5 15.7 1.0 C6 G:G3 3.7 14.1 1.0 C6 E:G3 3.8 15.2 1.0 C6 F:G3 3.9 15.2 1.0 C6 H:G5 3.9 14.5 1.0 C6 F:G5 3.9 13.3 1.0 C6 H:G3 3.9 12.9 1.0 N1 G:G3 4.0 10.9 1.0 C6 G:G5 4.0 12.6 1.0 C6 E:G5 4.0 13.8 1.0 N1 F:G3 4.1 13.4 1.0 N1 E:G3 4.2 13.2 1.0 N1 F:G5 4.3 9.9 1.0 N1 H:G3 4.3 13.6 1.0 N1 H:G5 4.3 13.5 1.0 N1 G:G5 4.3 12.2 1.0 N1 E:G5 4.3 12.1 1.0 C5 G:G3 4.9 11.8 1.0 C5 E:G3 5.0 14.7 1.0

Potassium binding site 9 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ E:K218 b:15.7 occ:1.00 O4 G:U6 2.8 14.6 1.0 O4 E:U6 2.8 15.6 1.0 O4 H:U6 2.9 15.0 1.0 O4 F:U6 2.9 12.6 1.0 O6 H:G5 3.0 12.7 1.0 O6 E:G5 3.0 13.5 1.0 O6 F:G5 3.1 14.4 1.0 O6 G:G5 3.1 12.6 1.0 K E:K217 3.5 14.1 1.0 C4 E:U6 3.8 15.4 1.0 C6 E:G5 3.8 13.8 1.0 C6 F:G5 3.8 13.3 1.0 C6 H:G5 3.8 14.5 1.0 C6 G:G5 3.8 12.6 1.0 C4 F:U6 3.8 10.8 1.0 C4 G:U6 3.9 15.7 1.0 C4 H:U6 3.9 15.3 1.0 N3 F:U6 4.0 11.9 1.0 N3 E:U6 4.0 14.5 1.0 N1 F:G5 4.0 9.9 1.0 N1 E:G5 4.1 12.1 1.0 N1 G:G5 4.1 12.2 1.0 N3 H:U6 4.1 15.0 1.0 N3 G:U6 4.1 15.6 1.0 N1 H:G5 4.2 13.5 1.0 C5 H:G5 5.0 12.4 1.0 C5 E:G5 5.0 11.9 1.0 C5 G:G5 5.0 12.0 1.0 C5 F:G5 5.0 10.9 1.0

Potassium binding site 10 out of 11 in the Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of I-Motif Rna Octaplex within 5.0Å range: probe atom residue distance (Å) B Occ F:K221 b:6.7 occ:1.00 O F:HOH233 2.5 40.6 1.0 OP2 F:U4 2.6 30.9 1.0 O F:HOH228 2.7 27.0 1.0 O H:HOH18 2.7 24.4 1.0 O2' F:U6 2.8 13.2 1.0 O3' F:U6 2.9 19.4 1.0 O2' F:G3 3.0 19.6 1.0 O F:HOH231 3.3 28.9 1.0 C2' F:U6 3.8 14.9 1.0 P F:U4 3.9 30.0 1.0 C3' F:U6 3.9 18.1 1.0 C2' F:G3 4.1 19.3 1.0 O3' F:G3 4.2 23.5 1.0 C1' F:U6 4.3 15.3 1.0 OP1 F:G5 4.3 15.9 1.0 C3' F:G3 4.4 19.7 1.0 O H:HOH136 4.7 40.7 1.0 O2' H:G5 4.8 23.2 1.0 O5' F:U4 4.8 27.1 1.0 OP1 F:U4 4.9 30.3 1.0 N2 H:G5 4.9 11.7 1.0 O F:HOH234 5.0 36.1 1.0

B.Pan, K.Shi, M.Sundaralingam. Base-Tetrad Swapping Results in Dimerization of Rna Quadruplexes: Implications For Formation of the I-Motif Rna Octaplex. Proc.Natl.Acad.Sci.Usa V. 103 3130 2006.
ISSN: ISSN 0027-8424
PubMed: 16492787
DOI: 10.1073/PNAS.0507730103