Potassium in PDB 8w9c: Cryo-Em Structure of the RPD3S Complex From Budding Yeast

The structure of Cryo-Em Structure of the RPD3S Complex From Budding Yeast also contains other interesting chemical elements:

Zinc

(Zn)

7 atoms

The binding sites of Potassium atom in the Cryo-Em Structure of the RPD3S Complex From Budding Yeast (pdb code 8w9c). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Cryo-Em Structure of the RPD3S Complex From Budding Yeast, PDB code: 8w9c:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Cryo-Em Structure of the RPD3S Complex From Budding Yeast


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cryo-Em Structure of the RPD3S Complex From Budding Yeast within 5.0Å range: probe atom residue distance (Å) B Occ B:K1001 b:29.2 occ:1.00 OD2 B:ASP184 2.7 29.2 1.0 O B:HIS188 2.7 45.2 1.0 OG B:SER207 2.8 30.8 1.0 O B:ASP186 2.9 27.5 1.0 O B:ASP184 3.1 29.2 1.0 CG B:ASP184 3.5 29.2 1.0 O B:PHE208 3.6 45.2 1.0 N B:PHE208 3.6 45.2 1.0 CB B:HIS209 3.6 41.1 1.0 C B:PHE208 3.7 45.2 1.0 CB B:SER207 3.8 30.8 1.0 C B:ASP186 3.8 27.5 1.0 C B:HIS188 3.9 45.2 1.0 C B:SER207 3.9 30.8 1.0 C B:ASP184 3.9 29.2 1.0 N B:ASP186 4.0 27.5 1.0 CA B:SER207 4.0 30.8 1.0 CB B:ASP184 4.0 29.2 1.0 CA B:HIS209 4.1 41.1 1.0 N B:HIS209 4.1 41.1 1.0 CA B:ASP186 4.3 27.5 1.0 CA B:PHE208 4.3 45.2 1.0 OD1 B:ASP184 4.3 29.2 1.0 CA B:HIS189 4.4 36.2 1.0 CB B:ASP186 4.4 27.5 1.0 CG B:HIS209 4.5 41.1 1.0 ND1 B:HIS209 4.5 41.1 1.0 N B:HIS189 4.6 36.2 1.0 CA B:ASP184 4.6 29.2 1.0 N B:GLY190 4.6 33.9 1.0 O B:SER207 4.7 30.8 1.0 N B:ILE185 4.7 24.2 1.0 C B:ILE185 4.7 24.2 1.0 N B:HIS188 4.8 45.2 1.0 CA B:ILE185 4.9 24.2 1.0 C B:VAL187 4.9 34.6 1.0 N B:VAL187 4.9 34.6 1.0 CA B:HIS188 5.0 45.2 1.0 C B:HIS189 5.0 36.2 1.0

Potassium binding site 2 out of 2 in the Cryo-Em Structure of the RPD3S Complex From Budding Yeast


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cryo-Em Structure of the RPD3S Complex From Budding Yeast within 5.0Å range: probe atom residue distance (Å) B Occ B:K1002 b:23.5 occ:1.00 O B:PHE197 2.7 20.1 1.0 O B:TYR232 2.7 32.7 1.0 O B:THR200 2.8 24.0 1.0 O B:VAL203 2.8 26.7 1.0 C B:TYR232 3.8 32.7 1.0 CB B:TYR232 3.9 32.7 1.0 C B:THR200 3.9 24.0 1.0 C B:PHE197 3.9 20.1 1.0 C B:VAL203 4.0 26.7 1.0 O B:TYR198 4.1 23.0 1.0 N B:THR200 4.2 24.0 1.0 CG2 B:THR200 4.2 24.0 1.0 C B:TYR198 4.2 23.0 1.0 CA B:TYR198 4.5 23.0 1.0 CA B:TYR232 4.5 32.7 1.0 CA B:THR200 4.6 24.0 1.0 N B:TYR198 4.7 23.0 1.0 CA B:MET204 4.7 27.8 1.0 O B:GLY229 4.7 23.9 1.0 N B:THR199 4.8 21.7 1.0 CB B:ALA233 4.8 29.1 1.0 CB B:PHE197 4.8 20.1 1.0 N B:ALA233 4.8 29.1 1.0 N B:MET204 4.8 27.8 1.0 CA B:GLY229 4.9 23.9 1.0 CA B:VAL203 5.0 26.7 1.0

C.Wang, C.Chu, Z.Guo, X.Zhan. Structures and Dynamics of RPD3S Complex Bound to Nucleosome. Sci Adv V. 10 K7678 2024.
ISSN: ESSN 2375-2548
PubMed: 38598631
DOI: 10.1126/SCIADV.ADK7678