Potassium in PDB 6up0: Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin

The structure of Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin, PDB code: 6up0 was solved by R.J.Trachman, A.R.Ferre-D'amare, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.41 / 2.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.284, 66.921, 76.628, 90.00, 90.00, 90.00
R / Rfree (%)	17.4 / 21.5

The structure of Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin also contains other interesting chemical elements:

Magnesium

(Mg)

6 atoms

The binding sites of Potassium atom in the Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin (pdb code 6up0). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin, PDB code: 6up0:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin within 5.0Å range: probe atom residue distance (Å) B Occ C:K105 b:70.1 occ:1.00 O6 C:G13 2.6 76.8 1.0 O6 C:G23 2.6 76.8 1.0 O6 C:G19 2.6 71.9 1.0 O6 C:G18 2.7 68.1 1.0 O6 C:G10 2.7 76.1 1.0 O6 C:G14 2.7 69.9 1.0 O6 C:G9 2.7 76.5 1.0 O6 C:G25 2.8 71.7 1.0 C6 C:G13 3.5 75.4 1.0 C6 C:G23 3.5 72.9 1.0 C6 C:G10 3.5 76.5 1.0 C6 C:G19 3.6 72.1 1.0 C6 C:G9 3.6 76.5 1.0 C6 C:G14 3.6 71.9 1.0 N1 C:G13 3.7 74.3 1.0 C6 C:G18 3.7 73.9 1.0 N1 C:G10 3.7 71.9 1.0 C6 C:G25 3.7 73.1 1.0 N1 C:G19 3.8 68.1 1.0 N1 C:G23 3.9 69.7 1.0 N1 C:G9 3.9 74.6 1.0 N1 C:G14 3.9 73.1 1.0 N1 C:G25 4.0 74.1 1.0 N1 C:G18 4.0 79.0 1.0 C5 C:G9 4.7 77.2 1.0 C5 C:G23 4.7 67.2 1.0 C5 C:G13 4.8 73.7 1.0 C2 C:A30 4.8 77.7 1.0 C5 C:G10 4.9 80.3 1.0 C5 C:G19 4.9 74.2 1.0 O10 C:YO3104 4.9 72.4 1.0 C5 C:G14 4.9 72.0 1.0 C5 C:G18 4.9 83.4 1.0 C2 C:G13 4.9 74.2 1.0 C2 C:G10 5.0 72.1 1.0

Potassium binding site 2 out of 2 in the Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of the Mango-III Fluorescent Aptamer Bound to YO3-Biotin within 5.0Å range: probe atom residue distance (Å) B Occ D:K105 b:60.9 occ:1.00 O6 D:G18 2.6 67.0 1.0 O6 D:G23 2.7 67.4 1.0 O6 D:G9 2.7 75.9 1.0 O6 D:G19 2.7 72.8 1.0 O6 D:G10 2.7 69.0 1.0 O6 D:G13 2.7 69.9 1.0 O6 D:G14 2.8 66.2 1.0 O6 D:G25 2.8 64.5 1.0 C6 D:G9 3.4 74.4 1.0 C6 D:G18 3.6 74.0 1.0 C6 D:G19 3.6 73.2 1.0 C6 D:G23 3.6 65.6 1.0 C6 D:G13 3.6 70.3 1.0 N1 D:G9 3.6 74.0 1.0 C6 D:G10 3.6 69.1 1.0 C6 D:G14 3.7 70.4 1.0 C6 D:G25 3.7 63.8 1.0 N1 D:G19 3.7 69.4 1.0 N1 D:G13 3.8 65.8 1.0 N1 D:G25 3.9 64.3 1.0 N1 D:G14 3.9 72.2 1.0 N1 D:G18 3.9 74.1 1.0 N1 D:G10 3.9 72.9 1.0 N1 D:G23 3.9 68.2 1.0 C5 D:G9 4.7 70.7 1.0 C5 D:G23 4.8 65.3 1.0 O10 D:YO3104 4.8 71.0 1.0 C5 D:G18 4.8 77.2 1.0 C2 D:G9 4.9 72.3 1.0 C5 D:G13 4.9 72.5 1.0 C5 D:G19 4.9 71.2 1.0 C2 D:A30 4.9 74.9 1.0 C5 D:G10 4.9 68.4 1.0 C5 D:G14 5.0 70.7 1.0

R.J.Trachman, A.R.Ferre-D'amare. Rna Aptamer Fret Pair To Be Published.