Potassium in PDB 4e8v: Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+

The structure of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+, PDB code: 4e8v was solved by M.Marcia, A.M.Pyle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.91 / 4.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	88.727, 96.548, 227.673, 90.00, 90.00, 90.00
R / Rfree (%)	29.7 / 34.5

The structure of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ also contains other interesting chemical elements:

Magnesium	(Mg)	5 atoms
Barium	(Ba)	42 atoms

The binding sites of Potassium atom in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ (pdb code 4e8v). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+, PDB code: 4e8v:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K448 b:0.2 occ:1.00 O6 A:G15 3.1 0.1 1.0 N7 A:G15 3.6 0.4 1.0 C6 A:G15 3.9 0.9 1.0 C5 A:G15 4.2 0.8 1.0 N7 A:G16 4.2 0.0 1.0 O6 A:G16 4.5 0.6 1.0 O4 A:U256 4.7 0.2 1.0 C8 A:G15 4.8 0.4 1.0 O6 A:G14 4.9 0.2 1.0 C5 A:G16 4.9 0.2 1.0

Potassium binding site 2 out of 4 in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K449 b:0.7 occ:1.00 O4 A:U273 2.6 0.4 1.0 O6 A:G274 3.0 0.7 1.0 O6 A:G275 3.1 0.3 1.0 C4 A:U273 3.2 0.1 1.0 C5 A:U273 3.4 0.8 1.0 C6 A:G275 3.7 0.8 1.0 N7 A:G274 3.7 0.9 1.0 C6 A:G274 3.8 0.1 1.0 C5 A:G274 4.1 0.4 1.0 N1 A:G275 4.2 0.1 1.0 N4 A:C272 4.3 0.7 1.0 N6 A:A280 4.4 0.3 1.0 N3 A:U273 4.4 0.6 1.0 BA A:BA414 4.5 0.5 1.0 C5 A:G275 4.6 0.7 1.0 C6 A:U273 4.6 0.0 1.0 C5 A:C272 4.8 0.1 1.0 N4 A:C279 4.8 0.1 1.0 C4 A:C272 4.9 0.9 1.0

Potassium binding site 3 out of 4 in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K454 b:0.3 occ:1.00 O6 A:G80 3.4 0.8 1.0 O6 A:G79 3.6 0.8 1.0 N4 A:C102 3.8 0.4 1.0 O4 A:U103 3.8 0.9 1.0 BA A:BA426 4.0 0.7 1.0 N3 A:U103 4.0 0.3 1.0 C6 A:G80 4.3 0.4 1.0 C4 A:U103 4.3 0.0 1.0 C6 A:G79 4.4 0.2 1.0 N7 A:G80 4.6 0.8 1.0 O6 A:G81 4.8 0.2 1.0 N7 A:G79 4.8 0.9 1.0 C5 A:G80 4.8 0.8 1.0 C5 A:G79 4.9 0.4 1.0 C4 A:C102 5.0 0.5 1.0

Potassium binding site 4 out of 4 in the Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of Oceanobacillus Iheyensis Group II Intron in A Ligand-Free State in the Presence of K+ and BA2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:K457 b:0.1 occ:1.00 OP2 A:U47 4.1 0.2 1.0 O6 A:G58 4.2 0.8 1.0 N7 A:G58 4.3 0.1 1.0 OP1 A:U47 4.3 0.5 1.0 OP1 A:G46 4.6 0.0 1.0 P A:U47 4.7 0.3 1.0 C6 A:G58 4.8 0.8 1.0 C5 A:G58 4.9 0.4 1.0

M.Marcia, A.M.Pyle. Visualizing Group II Intron Catalysis Through the Stages of Splicing. Cell(Cambridge,Mass.) V. 151 497 2012.
ISSN: ISSN 0092-8674
PubMed: 23101623
DOI: 10.1016/J.CELL.2012.09.033