Potassium in PDB 5cog: Crystal Structure of Yeast IRC4

The structure of Crystal Structure of Yeast IRC4, PDB code: 5cog was solved by J.D.Taylor, S.J.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	63.60 / 1.61
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	146.570, 38.690, 67.100, 90.00, 108.59, 90.00
R / Rfree (%)	19.2 / 23.6

The structure of Crystal Structure of Yeast IRC4 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Potassium atom in the Crystal Structure of Yeast IRC4 (pdb code 5cog). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of Yeast IRC4, PDB code: 5cog:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure of Yeast IRC4


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 Yeast IRC4 within 5.0Å range: probe atom residue distance (Å) B Occ A:K203 b:37.9 occ:1.00 O A:HOH365 2.6 15.9 1.0 OD1 A:ASP34 2.7 23.2 1.0 OG1 A:THR43 2.7 13.8 1.0 O A:HOH353 2.7 26.6 1.0 CG A:ASP34 3.6 25.3 1.0 CG A:GLU46 3.6 13.2 1.0 CB A:SER45 3.6 17.7 1.0 CB A:THR43 3.6 16.5 1.0 CA A:ASP34 3.7 16.4 1.0 O A:HOH519 3.7 44.7 1.0 CB A:ASP34 3.7 17.9 1.0 CG2 A:THR43 3.8 15.0 1.0 O A:HOH392 3.9 31.3 1.0 O A:LYS33 3.9 18.5 1.0 CD A:GLU46 3.9 20.8 1.0 O A:HOH348 4.0 14.0 1.0 OE2 A:GLU46 4.0 19.6 1.0 N A:GLU46 4.0 13.1 1.0 OG A:SER45 4.1 17.4 1.0 C A:ASP34 4.5 18.3 1.0 CA A:SER45 4.5 15.1 1.0 O A:ASP34 4.6 18.5 1.0 CB A:GLU46 4.6 14.8 1.0 N A:ASP34 4.6 20.2 1.0 C A:SER45 4.6 13.9 1.0 C A:LYS33 4.6 16.7 1.0 OE1 A:GLU46 4.7 16.9 1.0 OD2 A:ASP34 4.7 24.6 1.0 N A:SER45 4.8 14.1 1.0 O A:HOH352 4.8 27.6 1.0 CA A:GLU46 4.8 14.4 1.0

Potassium binding site 2 out of 2 in the Crystal Structure of Yeast IRC4


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 Yeast IRC4 within 5.0Å range: probe atom residue distance (Å) B Occ B:K202 b:33.9 occ:1.00 OD1 B:ASP34 2.6 20.8 1.0 OG1 B:THR43 2.6 13.3 1.0 O B:HOH386 2.7 14.9 1.0 O B:HOH341 2.7 20.6 1.0 CB B:SER45 3.5 15.2 1.0 CG B:ASP34 3.6 23.8 1.0 CB B:THR43 3.6 16.4 1.0 CA B:ASP34 3.6 14.7 1.0 CG B:GLU46 3.7 16.6 1.0 O B:LYS33 3.8 12.3 1.0 CB B:ASP34 3.8 19.1 1.0 CG2 B:THR43 3.9 14.4 1.0 OG B:SER45 4.0 14.6 1.0 O B:HOH479 4.0 38.7 1.0 N B:GLU46 4.0 12.6 1.0 CD B:GLU46 4.1 19.5 1.0 OE2 B:GLU46 4.1 18.3 1.0 CA B:SER45 4.4 10.5 1.0 C B:LYS33 4.5 12.8 1.0 N B:ASP34 4.5 16.5 1.0 C B:ASP34 4.5 14.4 1.0 C B:SER45 4.6 14.1 1.0 CB B:GLU46 4.6 12.3 1.0 O B:ASP34 4.6 15.1 1.0 N B:SER45 4.7 10.6 1.0 OD2 B:ASP34 4.7 21.4 1.0 CA B:GLU46 4.8 10.5 1.0 OE1 B:GLU46 4.8 15.1 1.0 CA B:THR43 4.9 12.2 1.0 O B:HOH356 5.0 21.8 1.0

J.D.Taylor, G.Taylor, S.A.Hare, S.J.Matthews. Structures of the Dfsb Protein Family Suggest A Cationic, Helical Sibling Lethal Factor Peptide. J.Mol.Biol. V. 428 554 2016.
ISSN: ESSN 1089-8638
PubMed: 26804569
DOI: 10.1016/J.JMB.2016.01.013