Potassium in PDB 1i0p: 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt

The structure of 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt, PDB code: 1i0p was solved by V.Tereshko, C.J.Wilds, G.Minasov, T.P.Prakash, M.A.Maier, A.Howard, Z.Wawrzak, M.Manoharan, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	25.180, 44.840, 44.810, 90.00, 90.00, 90.00
R / Rfree (%)	16.1 / 17.9

The binding sites of Potassium atom in the 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt (pdb code 1i0p). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt, PDB code: 1i0p:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt within 5.0Å range: probe atom residue distance (Å) B Occ A:K21 b:33.2 occ:1.00 OP1 A:DC10 2.6 19.1 1.0 O3' A:DG9 3.2 15.3 1.0 O A:HOH148 3.3 31.7 1.0 P A:DC10 3.5 17.7 1.0 C5' A:DC10 4.1 16.2 1.0 O5' A:DC10 4.3 14.7 1.0 C3' A:DG9 4.5 13.1 1.0 OP2 A:DC10 4.8 19.5 1.0 C4' A:DG9 5.0 13.0 1.0

Potassium binding site 2 out of 3 in the 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt within 5.0Å range: probe atom residue distance (Å) B Occ A:K22 b:32.5 occ:1.00 O4 A:DT4 2.6 11.4 1.0 O A:HOH161 3.2 23.8 1.0 N6 A:DA5 3.3 12.7 1.0 O6 A:DG3 3.5 15.0 1.0 C7 A:DT4 3.6 13.4 1.0 C4 A:DT4 3.6 11.6 1.0 O A:HOH128 3.7 25.1 1.0 C6 A:DG3 3.8 13.1 1.0 N7 A:DG3 3.8 13.5 1.0 O A:HOH119 3.8 24.1 1.0 N6 B:DA17 3.9 13.2 1.0 C5 A:DG3 3.9 11.5 1.0 C5 A:DT4 4.1 11.8 1.0 C6 A:DA5 4.3 12.5 1.0 N7 A:DA5 4.5 11.0 1.0 O4 B:12616 4.6 13.3 1.0 O A:HOH185 4.6 34.2 1.0 C5 A:DA5 4.7 11.3 1.0 N1 A:DG3 4.7 12.8 1.0 C8 A:DG3 4.7 13.2 1.0 N3 A:DT4 4.8 11.2 1.0 C4 A:DG3 4.9 11.9 1.0 N6 B:DA15 5.0 13.8 1.0

Potassium binding site 3 out of 3 in the 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of 1.3 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Methyl-[Tri(Oxyethyl)], Medium K-Salt within 5.0Å range: probe atom residue distance (Å) B Occ B:K23 b:35.0 occ:1.00 C1' B:DT14 2.9 11.6 1.0 O4' B:DT14 3.0 14.9 1.0 C2' B:DT14 3.4 14.2 1.0 C4' B:DT14 3.4 16.9 1.0 O B:HOH193 3.7 38.5 1.0 C3' B:DT14 4.0 14.8 1.0 N1 B:DT14 4.3 13.0 1.0 O B:HOH24 4.4 14.0 1.0 O2 B:DT14 4.4 13.8 1.0 O B:HOH127 4.6 24.6 1.0 O3' B:DT14 4.7 17.0 1.0 C5' B:DT14 4.7 14.8 1.0 N2 B:DG13 4.7 12.9 1.0 C2 B:DT14 4.8 12.7 1.0

V.Tereshko, C.J.Wilds, G.Minasov, T.P.Prakash, M.A.Maier, A.Howard, Z.Wawrzak, M.Manoharan, M.Egli. Detection of Alkali Metal Ions in Dna Crystals Using State-of-the-Art X-Ray Diffraction Experiments. Nucleic Acids Res. V. 29 1208 2001.
ISSN: ISSN 0305-1048
PubMed: 11222771
DOI: 10.1093/NAR/29.5.1208