Potassium in PDB 8yz7: Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans

The structure of Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans, PDB code: 8yz7 was solved by Y.Zhao, Y.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.00
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	87.17, 87.17, 61.64, 90, 90, 120
R / Rfree (%)	20.2 / 22.6

The binding sites of Potassium atom in the Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans (pdb code 8yz7). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans, PDB code: 8yz7:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans


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 Ddri, A Crp Family Protein From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:K301 b:59.9 occ:1.00 O A:HOH445 3.4 40.1 1.0 N A:HIS155 3.5 36.4 1.0 CD2 A:HIS155 3.6 39.5 1.0 N A:GLY187 3.7 36.8 1.0 CG A:HIS155 3.8 41.9 1.0 CA A:THR154 3.8 33.3 1.0 NE2 A:HIS155 3.9 37.5 1.0 CA A:GLY187 4.0 40.5 1.0 CB A:THR154 4.1 41.6 1.0 C A:THR154 4.1 42.2 1.0 ND1 A:HIS155 4.2 36.9 1.0 CE1 A:HIS155 4.3 47.8 1.0 CB A:HIS155 4.3 38.1 1.0 O A:HOH422 4.4 38.9 1.0 CA A:HIS155 4.5 38.6 1.0 O A:ALA153 4.7 37.1 1.0 CG2 A:THR154 4.7 46.7 1.0 C A:TYR186 4.8 34.8 1.0 O A:GLY185 4.8 42.0 1.0

Potassium binding site 2 out of 3 in the Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans


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 Ddri, A Crp Family Protein From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:K302 b:85.1 occ:1.00 CZ A:ARG123 3.1 114.7 1.0 N A:LEU124 3.2 34.7 1.0 NE A:ARG123 3.3 102.0 1.0 NH2 A:ARG123 3.4 107.9 1.0 NH1 A:ARG123 3.5 114.9 1.0 CA A:ARG123 3.7 38.6 1.0 CD A:ARG123 3.8 80.8 1.0 CB A:LEU124 3.9 36.1 1.0 C A:ARG123 3.9 35.4 1.0 CB A:ARG123 4.0 48.9 1.0 CA A:LEU124 4.1 36.3 1.0 O A:HOH456 4.3 36.8 1.0 O A:HOH430 4.4 62.8 1.0 CG A:ARG123 4.6 62.6 1.0 NH1 A:ARG127 4.7 41.4 1.0 O A:HOH452 4.9 43.5 1.0 N A:ARG123 5.0 35.9 1.0

Potassium binding site 3 out of 3 in the Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Ddri, A Crp Family Protein From Deinococcus Radiodurans within 5.0Å range: probe atom residue distance (Å) B Occ A:K303 b:79.0 occ:1.00 O A:HOH404 3.1 50.1 1.0 NE A:ARG125 3.5 59.3 1.0 NH2 A:ARG125 3.8 53.2 1.0 CG1 A:ILE200 3.9 36.4 1.0 CZ A:ARG125 4.1 62.4 1.0 CG2 A:ILE200 4.2 39.7 1.0 CA A:ILE200 4.2 39.3 1.0 CB A:ILE200 4.3 42.3 1.0 CD A:ARG125 4.5 63.8 1.0 O A:ILE200 4.9 42.2 1.0

Y.Wang, J.Hu, X.Gao, Y.Cao, S.Ye, C.Chen, L.Wang, H.Xu, M.Guo, D.Zhang, R.Zhou, Y.Hua, Y.Zhao. Camp-Independent Dna Binding of the Crp Family Protein Ddri From Deinococcus Radiodurans. Mbio 14424 2024.
ISSN: ESSN 2150-7511
PubMed: 38916345
DOI: 10.1128/MBIO.01144-24