Potassium in PDB 3bnq: Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative)

The structure of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative), PDB code: 3bnq was solved by J.Kondo, E.Westhof, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.79 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	71.266, 76.056, 55.912, 90.00, 117.06, 90.00
R / Rfree (%)	22.9 / 26.9

The structure of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative) also contains other interesting chemical elements:

Bromine	(Br)	4 atoms
Strontium	(Sr)	8 atoms

The binding sites of Potassium atom in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative) (pdb code 3bnq). 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 the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative), PDB code: 3bnq:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative)


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 the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ A:K301 b:30.7 occ:1.00 O B:HOH224 2.8 29.1 1.0 O2' A:C23 2.8 28.6 1.0 O2 A:C23 2.9 26.5 1.0 O C:HOH317 2.9 30.4 1.0 O2 C:C10 2.9 29.9 1.0 O C:HOH315 3.0 25.9 1.0 C2' A:C23 3.6 33.6 1.0 N6 D:A15 3.7 31.2 1.0 N2 B:G3 3.7 25.5 1.0 C1' C:C10 3.7 28.9 1.0 C2 C:C10 3.9 30.4 1.0 C1' A:C23 3.9 30.9 1.0 O2' C:C10 3.9 25.8 1.0 C2 A:C23 4.0 32.5 1.0 O2 C:C9 4.2 30.5 1.0 N1 C:C10 4.2 29.6 1.0 O2' D:C14 4.3 35.0 1.0 C2' C:C10 4.3 27.4 1.0 N2 D:G13 4.4 25.7 1.0 N1 A:C23 4.5 28.4 1.0 C6 D:A15 4.5 33.9 1.0 O2 B:C4 4.5 25.9 1.0 N3 C:C9 4.7 32.1 1.0 N7 D:A15 4.7 39.9 1.0 O4' C:C10 4.7 26.8 1.0 C2 C:C9 4.8 35.1 1.0 O B:HOH212 4.9 28.3 1.0 C5 D:A15 4.9 34.0 1.0 N3 C:C10 4.9 26.1 1.0

Potassium binding site 2 out of 2 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative)


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 the Homo Sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SRCL2 (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ C:K301 b:31.9 occ:1.00 O2 C:C23 2.8 26.7 1.0 O B:HOH211 2.9 32.1 1.0 O D:HOH231 2.9 38.0 1.0 O2' C:C23 2.9 32.6 1.0 O2 A:C10 2.9 30.5 1.0 O A:HOH306 3.1 26.4 1.0 N2 D:G1 3.5 33.1 1.0 C2' C:C23 3.6 33.7 1.0 N6 B:A17 3.6 30.6 1.0 C1' A:C10 3.8 34.7 1.0 C1' C:C23 3.8 32.7 1.0 C2 C:C23 3.9 32.2 1.0 C2 A:C10 3.9 33.9 1.0 O2' A:C10 4.0 26.5 1.0 O2' B:C16 4.0 37.7 1.0 N1 A:C10 4.3 32.4 1.0 O2 A:C9 4.3 31.2 1.0 C2' A:C10 4.3 30.8 1.0 C6 B:A17 4.4 33.3 1.0 N1 C:C23 4.4 30.0 1.0 N2 B:G15 4.5 27.2 1.0 N7 B:A17 4.5 41.1 1.0 O2 D:C2 4.6 27.2 1.0 C5 B:A17 4.7 35.7 1.0 N3 A:C9 4.7 32.2 1.0 O4' A:C10 4.7 33.7 1.0 O D:HOH224 4.8 34.2 1.0 C2 D:G1 4.8 35.3 1.0 C2 A:C9 4.9 33.8 1.0 O2 B:C16 5.0 35.6 1.0

J.Kondo, E.Westhof. The Bacterial and Mitochondrial Ribosomal A-Site Molecular Switches Possess Different Conformational Substates Nucleic Acids Res. V. 36 2654 2008.
ISSN: ISSN 0305-1048
PubMed: 18346970
DOI: 10.1093/NAR/GKN112