Bromine in PDB 3bns: Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative)

The structure of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative), PDB code: 3bns 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)	35.39 / 1.90
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	72.670, 77.120, 56.490, 90.00, 115.68, 90.00
R / Rfree (%)	24.7 / 26

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

Potassium

(K)

2 atoms

The binding sites of Bromine atom in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative) (pdb code 3bns). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 4 binding sites of Bromine where determined in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative), PDB code: 3bns:
Jump to Bromine binding site number: 1; 2; 3; 4;

Bromine binding site 1 out of 4 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ A:Br11 b:43.5 occ:1.00 BR A:5BU11 0.0 43.5 1.0 C5 A:5BU11 1.9 41.3 1.0 C6 A:5BU11 2.9 36.2 1.0 C4 A:5BU11 2.9 40.8 1.0 O4 A:5BU11 3.2 41.1 1.0 O A:HOH43 3.5 46.3 1.0 C5 A:C10 3.6 36.2 1.0 O A:HOH30 3.6 41.4 1.0 C6 A:C10 3.7 36.2 1.0 C4 A:C10 3.7 36.7 1.0 OP2 A:5BU11 3.7 36.5 1.0 O A:HOH29 3.7 37.0 1.0 O A:HOH40 3.9 48.4 1.0 N1 A:C10 3.9 36.3 1.0 N3 A:C10 4.0 35.6 1.0 C2 A:C10 4.1 39.1 1.0 N3 A:5BU11 4.2 39.6 1.0 N1 A:5BU11 4.2 38.0 1.0 C3' A:C10 4.2 36.2 1.0 N4 A:C10 4.2 35.6 1.0 O A:HOH38 4.3 40.6 1.0 C2' A:C10 4.4 37.8 1.0 O5' A:5BU11 4.5 37.0 1.0 P A:5BU11 4.6 38.0 1.0 N4 A:C12 4.7 40.3 1.0 C2 A:5BU11 4.7 39.8 1.0 C1' A:C10 4.7 37.2 1.0 O5' A:C10 4.9 40.7 1.0 O2 A:C10 4.9 36.2 1.0 O3' A:C10 5.0 36.0 1.0

Bromine binding site 2 out of 4 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ B:Br10 b:44.5 occ:1.00 BR B:5BU10 0.0 44.5 1.0 C5 B:5BU10 1.9 38.7 1.0 C6 B:5BU10 2.8 40.4 1.0 C4 B:5BU10 2.9 40.2 1.0 O4 B:5BU10 3.2 35.4 1.0 C5 B:C9 3.6 34.5 1.0 C4 B:C9 3.7 37.0 1.0 OP2 B:5BU10 3.7 47.0 1.0 C6 B:C9 3.7 38.4 1.0 N3 B:C9 3.8 37.1 1.0 O B:HOH34 3.8 44.3 1.0 N1 B:C9 3.8 36.2 1.0 O B:HOH33 3.9 46.2 1.0 C2 B:C9 3.9 40.0 1.0 C3' B:C9 4.1 42.7 1.0 N3 B:5BU10 4.1 39.1 1.0 N1 B:5BU10 4.2 39.6 1.0 N4 B:C9 4.2 36.4 1.0 C2' B:C9 4.3 40.6 1.0 O5' B:5BU10 4.4 44.7 1.0 O B:HOH36 4.5 46.7 1.0 O5' B:C9 4.5 34.7 1.0 P B:5BU10 4.6 45.5 1.0 O2 B:C9 4.6 41.9 1.0 C1' B:C9 4.6 40.7 1.0 C2 B:5BU10 4.7 40.5 1.0 OP2 B:C9 4.8 37.4 1.0 O3' B:C9 4.8 43.7 1.0

Bromine binding site 3 out of 4 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ C:Br11 b:42.1 occ:1.00 BR C:5BU11 0.0 42.1 1.0 C5 C:5BU11 1.9 36.2 1.0 C6 C:5BU11 2.8 34.5 1.0 C4 C:5BU11 2.9 37.7 1.0 O4 C:5BU11 3.2 36.8 1.0 O C:HOH30 3.2 46.1 1.0 O C:HOH39 3.4 45.2 1.0 C5 C:C10 3.5 35.8 1.0 C6 C:C10 3.6 36.9 1.0 C4 C:C10 3.7 35.7 1.0 O C:HOH42 3.7 40.4 1.0 O C:HOH31 3.7 37.6 1.0 OP2 C:5BU11 3.8 38.5 1.0 N1 C:C10 3.9 35.0 1.0 N3 C:C10 3.9 35.0 1.0 O C:HOH43 4.0 46.2 1.0 C2 C:C10 4.0 37.8 1.0 O C:HOH40 4.1 44.4 1.0 N3 C:5BU11 4.1 34.3 1.0 N1 C:5BU11 4.2 35.0 1.0 N4 C:C10 4.3 35.0 1.0 C3' C:C10 4.3 35.9 1.0 C2' C:C10 4.4 35.5 1.0 O5' C:5BU11 4.5 34.9 1.0 N4 C:C12 4.6 37.9 1.0 P C:5BU11 4.7 36.1 1.0 C2 C:5BU11 4.7 36.9 1.0 C1' C:C10 4.7 36.6 1.0 O2 C:C10 4.8 37.5 1.0 O5' C:C10 4.9 34.9 1.0 C5 C:C12 4.9 41.2 1.0

Bromine binding site 4 out of 4 in the Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative)


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Crystal Structure of the Homo Sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant, Br-Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ D:Br9 b:51.0 occ:1.00 BR D:5BU9 0.0 51.0 1.0 C5 D:5BU9 1.9 51.9 1.0 C6 D:5BU9 2.8 51.9 1.0 C4 D:5BU9 2.9 51.0 1.0 O4 D:5BU9 3.2 50.1 1.0 C5 D:C8 3.5 43.2 1.0 OP2 D:5BU9 3.6 49.8 1.0 C6 D:C8 3.6 44.1 1.0 C4 D:C8 3.7 43.3 1.0 O D:HOH27 3.7 43.3 1.0 N1 D:C8 3.8 45.9 1.0 N3 D:C8 3.9 43.9 1.0 C2 D:C8 3.9 46.7 1.0 C3' D:C8 4.0 46.3 1.0 N3 D:5BU9 4.1 51.6 1.0 N1 D:5BU9 4.1 51.6 1.0 C2' D:C8 4.2 47.2 1.0 N4 D:C8 4.3 38.9 1.0 O5' D:C8 4.3 39.0 1.0 O5' D:5BU9 4.4 51.7 1.0 O D:HOH36 4.5 42.1 1.0 OP2 D:C8 4.5 34.2 1.0 P D:5BU9 4.5 50.0 1.0 C1' D:C8 4.5 45.2 1.0 O2 D:C8 4.7 48.8 1.0 C2 D:5BU9 4.7 53.2 1.0 O3' D:C8 4.8 48.0 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