Potassium in PDB 4y1o: Oceanobacillus Iheyensis Group II Intron Domain 1

The structure of Oceanobacillus Iheyensis Group II Intron Domain 1, PDB code: 4y1o was solved by C.Zhao, K.R.Rajashankar, M.Marcia, A.M.Pyle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.25 / 2.95
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	84.345, 132.250, 84.561, 90.00, 91.87, 90.00
R / Rfree (%)	17.9 / 22.4

The structure of Oceanobacillus Iheyensis Group II Intron Domain 1 also contains other interesting chemical elements:

Magnesium

(Mg)

19 atoms

The binding sites of Potassium atom in the Oceanobacillus Iheyensis Group II Intron Domain 1 (pdb code 4y1o). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Oceanobacillus Iheyensis Group II Intron Domain 1, PDB code: 4y1o:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Oceanobacillus Iheyensis Group II Intron Domain 1


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Oceanobacillus Iheyensis Group II Intron Domain 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:K407 b:0.9 occ:1.00 OP2 A:A260 3.7 0.8 1.0 O6 A:G9 4.0 90.6 1.0 O6 A:G10 4.0 0.2 1.0 N7 A:G9 4.2 85.3 1.0 C6 A:G9 4.7 81.8 1.0 C5 A:G9 4.8 81.1 1.0 P A:A260 4.8 0.6 1.0 N7 A:G10 4.8 0.1 1.0 OP1 A:A260 4.9 0.0 1.0 C6 A:G10 5.0 0.0 1.0

Potassium binding site 2 out of 2 in the Oceanobacillus Iheyensis Group II Intron Domain 1


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Oceanobacillus Iheyensis Group II Intron Domain 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:K412 b:0.1 occ:1.00 O6 B:G10 3.7 90.0 1.0 OP2 B:A260 3.9 0.0 1.0 N7 B:G9 4.1 75.8 1.0 O6 B:G9 4.1 75.2 1.0 N7 B:G10 4.2 93.1 1.0 C6 B:G10 4.6 85.2 1.0 C5 B:G9 4.7 65.2 1.0 C6 B:G9 4.7 64.8 1.0 C5 B:G10 4.8 87.8 1.0 N4 B:C11 5.0 59.1 1.0

C.Zhao, K.R.Rajashankar, M.Marcia, A.M.Pyle. Crystal Structure of Group II Intron Domain 1 Reveals A Template For Rna Assembly. Nat.Chem.Biol. V. 11 967 2015.
ISSN: ESSN 1552-4469
PubMed: 26502156
DOI: 10.1038/NCHEMBIO.1949