Potassium in PDB 6wy2: Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg

The structure of Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg, PDB code: 6wy2 was solved by B.Sekula, M.Ruszkowski, S.Mao, P.Haruehanroengra, J.Sheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.05 / 1.93
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	94.740, 30.425, 58.511, 90.00, 106.49, 90.00
R / Rfree (%)	18.7 / 21.8

The structure of Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg also contains other interesting chemical elements:

Magnesium

(Mg)

6 atoms

The binding sites of Potassium atom in the Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg (pdb code 6wy2). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg, PDB code: 6wy2:

Potassium binding site 1 out of 1 in the Crystal Structure of Rna-10MER: Ccgg(N4-Methyl-C)Gccgg


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 Rna-10MER: Ccgg(N4-Methyl-C)Gccgg within 5.0Å range: probe atom residue distance (Å) B Occ B:K101 b:41.0 occ:1.00 O2 B:C7 2.8 34.8 1.0 O2 C:B8T5 2.8 39.4 1.0 O C:HOH219 2.9 28.8 1.0 O C:HOH203 2.9 37.6 1.0 O B:HOH220 2.9 38.1 1.0 N2 C:G4 3.5 33.4 1.0 N2 B:G6 3.7 32.2 1.0 C2 C:B8T5 3.9 35.2 1.0 C2 B:C7 4.0 35.0 1.0 C1' C:B8T5 4.2 37.6 1.0 O2' B:C7 4.2 39.7 1.0 C1' B:C7 4.2 38.7 1.0 O2' C:B8T5 4.4 42.7 1.0 C2' B:C7 4.5 39.4 1.0 N1 C:B8T5 4.6 34.4 1.0 N1 B:C7 4.6 36.9 1.0 C2' C:B8T5 4.7 40.2 1.0 O4' B:C8 4.7 38.4 1.0 C2 C:G4 4.7 31.4 1.0 C2 B:G6 4.7 32.2 1.0 N3 C:B8T5 4.9 31.8 1.0 N3 B:C7 5.0 32.9 1.0

S.Mao, B.Sekula, M.Ruszkowski, S.V.Ranganathan, P.Haruehanroengra, Y.Wu, F.Shen, J.Sheng. Base Pairing, Structural and Functional Insights Into N4-Methylcytidine (M4C) and N4,N4-Dimethylcytidine (M42C) Modified Rna. Nucleic Acids Res. V. 48 10087 2020.
ISSN: ESSN 1362-4962
PubMed: 32941619
DOI: 10.1093/NAR/GKAA737