Potassium in PDB 8g2n: Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2

The structure of Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2, PDB code: 8g2n was solved by K.N.Martin, L.A.Yatsunyk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.78 / 1.33
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	38.332, 47.314, 87.106, 90, 90, 90
R / Rfree (%)	17.2 / 19.4

The structure of Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Potassium atom in the Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 (pdb code 8g2n). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2, PDB code: 8g2n:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 within 5.0Å range: probe atom residue distance (Å) B Occ A:K102 b:22.8 occ:1.00 O6 A:DG24 2.7 25.1 0.5 O6 A:DG5 2.7 25.1 1.0 O6 A:DG24 2.7 22.6 0.5 O6 A:DG17 2.7 24.1 1.0 O6 A:DG12 2.7 25.4 1.0 O6 A:DG16 2.7 24.0 1.0 O6 A:DG4 2.8 22.5 1.0 O6 A:DG25 2.8 24.8 1.0 O6 A:DG13 2.9 25.3 1.0 H1 A:DG24 3.4 26.9 0.5 H1 A:DG12 3.4 30.5 1.0 H1 A:DG17 3.5 29.3 1.0 H1 A:DG5 3.5 31.4 1.0 C6 A:DG12 3.5 25.1 1.0 H1 A:DG25 3.5 26.6 1.0 C6 A:DG24 3.5 22.3 0.5 H1 A:DG24 3.5 29.0 0.5 H1 A:DG13 3.5 29.4 1.0 C6 A:DG16 3.6 23.9 1.0 K A:K101 3.6 24.1 1.0 C6 A:DG24 3.6 24.7 0.5 H1 A:DG16 3.6 27.9 1.0 C6 A:DG4 3.7 21.9 1.0 C6 A:DG5 3.7 25.6 1.0 C6 A:DG17 3.7 24.2 1.0 H1 A:DG4 3.7 27.8 1.0 C6 A:DG25 3.8 23.7 1.0 N1 A:DG12 3.8 25.4 1.0 N1 A:DG24 3.8 22.4 0.5 C6 A:DG13 3.8 24.2 1.0 N1 A:DG24 3.9 24.2 0.5 N1 A:DG5 3.9 26.1 1.0 N1 A:DG17 3.9 24.4 1.0 N1 A:DG16 4.0 23.2 1.0 N1 A:DG25 4.0 22.2 1.0 N1 A:DG4 4.0 23.1 1.0 N1 A:DG13 4.0 24.5 1.0 C5 A:DG24 4.7 22.5 0.5 C5 A:DG12 4.7 26.4 1.0 C5 A:DG16 4.8 24.8 1.0 C5 A:DG4 4.8 23.2 1.0 C5 A:DG24 4.8 25.2 0.5 C5 A:DG17 5.0 24.5 1.0 C5 A:DG5 5.0 27.9 1.0

Potassium binding site 2 out of 3 in the Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 within 5.0Å range: probe atom residue distance (Å) B Occ A:K101 b:24.1 occ:1.00 O2 A:DT15 2.8 28.0 1.0 O2 A:DT14 2.8 24.4 1.0 O6 A:DG13 2.8 25.3 1.0 O6 A:DG16 2.8 24.0 1.0 O6 A:DG25 2.9 24.8 1.0 O6 A:DG4 3.0 22.5 1.0 C2 A:DT15 3.3 26.9 1.0 H3 A:DT14 3.4 29.4 1.0 H1 A:DG16 3.5 27.9 1.0 H1 A:DG4 3.5 27.8 1.0 C6 A:DG13 3.6 24.2 1.0 K A:K102 3.6 22.8 1.0 C6 A:DG25 3.6 23.7 1.0 O4' A:DT15 3.6 28.8 1.0 C6 A:DG16 3.7 23.9 1.0 C2 A:DT14 3.7 23.9 1.0 H1 A:DG13 3.8 29.4 1.0 C6 A:DG4 3.8 21.9 1.0 H1 A:DG25 3.8 26.6 1.0 N1 A:DG16 3.9 23.2 1.0 H3 A:DT15 3.9 33.0 1.0 N3 A:DT14 3.9 24.5 1.0 N3 A:DT15 3.9 27.5 1.0 N1 A:DG4 4.0 23.1 1.0 N1 A:DG13 4.0 24.5 1.0 N1 A:DT15 4.1 27.4 1.0 N1 A:DG25 4.1 22.2 1.0 H1' A:DT15 4.1 33.3 1.0 C1' A:DT15 4.2 27.7 1.0 H4' A:DT15 4.7 36.2 1.0 C5 A:DG13 4.7 25.5 1.0 C5 A:DG25 4.7 24.0 1.0 C4' A:DT15 4.8 30.1 1.0 H1' A:DT14 4.8 34.1 1.0 C5 A:DG16 4.9 24.8 1.0 N1 A:DT14 5.0 26.6 1.0 H5' A:DT15 5.0 38.0 1.0 C4 A:DT15 5.0 27.0 1.0

Potassium binding site 3 out of 3 in the Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 within 5.0Å range: probe atom residue distance (Å) B Occ A:K103 b:22.7 occ:1.00 O6 A:DG23 2.6 19.1 0.5 O6 A:DG10 2.7 22.9 1.0 O6 A:DG6 2.7 22.1 1.0 O6 A:DG18 2.8 26.2 1.0 O6 A:DG22 2.8 22.4 1.0 O6 A:DG11 2.8 22.7 1.0 O6 A:DG19 2.8 25.6 1.0 O6 A:DG7 2.9 21.1 1.0 O6 A:DG23 3.0 20.9 0.5 H1 A:DG23 3.2 22.2 0.5 H1 A:DG11 3.5 28.2 1.0 H1 A:DG10 3.5 26.5 1.0 H1 A:DG18 3.5 30.3 1.0 C6 A:DG23 3.5 19.3 0.5 O A:HOH233 3.5 26.7 1.0 H1 A:DG19 3.5 29.3 1.0 H1 A:DG6 3.5 25.3 1.0 C6 A:DG6 3.5 20.7 1.0 H1 A:DG22 3.6 28.1 1.0 C6 A:DG18 3.6 26.1 1.0 C6 A:DG10 3.6 22.5 1.0 C6 A:DG22 3.6 22.2 1.0 H1 A:DG7 3.7 24.6 1.0 C6 A:DG11 3.7 22.4 1.0 H1 A:DG23 3.7 23.8 0.5 N1 A:DG23 3.7 18.5 0.5 C6 A:DG19 3.8 25.4 1.0 C6 A:DG7 3.9 20.4 1.0 N1 A:DG6 3.9 21.1 1.0 N1 A:DG10 3.9 22.1 1.0 N1 A:DG18 3.9 25.2 1.0 N1 A:DG11 3.9 23.5 1.0 C6 A:DG23 4.0 20.1 0.5 N1 A:DG22 4.0 23.4 1.0 N1 A:DG19 4.0 24.4 1.0 N1 A:DG7 4.1 20.5 1.0 N1 A:DG23 4.2 19.8 0.5 C5 A:DG6 4.7 19.9 1.0 C5 A:DG10 4.8 22.4 1.0 C5 A:DG18 4.8 26.5 1.0 C5 A:DG23 4.8 19.0 0.5 C5 A:DG22 4.8 22.7 1.0 H3 A:DT21 4.8 41.8 1.0 H3 A:DT9 4.9 36.7 1.0 C5 A:DG11 5.0 22.2 1.0

K.N.Martin, L.A.Yatsunyk. Crystal Structure of Tetrahymena Thermophila G-Rich Dna with Novel Ligand PYDH2 To Be Published.