Bromine in PDB 5lr3: Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs

The structure of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs, PDB code: 5lr3 was solved by L.Huang, D.M.J.Lilley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.17 / 1.65
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	33.300, 33.300, 120.910, 90.00, 90.00, 90.00
R / Rfree (%)	24.7 / 26.6

The binding sites of Bromine atom in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs (pdb code 5lr3). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs, PDB code: 5lr3:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Br2 b:40.9 occ:1.00 BR A:CBV2 0.0 40.9 1.0 C5 A:CBV2 1.9 41.3 1.0 C4 A:CBV2 3.0 41.9 1.0 C6 A:CBV2 3.0 41.2 1.0 N4 A:CBV2 3.2 42.0 1.0 O A:HOH118 3.3 53.4 1.0 N7 A:G1 3.5 38.9 1.0 O3P A:CBV2 3.5 45.9 1.0 O A:HOH104 3.5 51.5 1.0 C5 A:G1 3.6 39.0 1.0 C8 A:G1 3.6 37.8 1.0 C4 A:G1 3.8 38.2 1.0 N9 A:G1 3.8 37.7 1.0 O A:HOH101 3.9 39.8 1.0 C3' A:G1 4.1 38.8 1.0 C6 A:G1 4.2 39.2 1.0 N3 A:CBV2 4.3 42.4 1.0 N1 A:CBV2 4.3 41.7 1.0 C2' A:G1 4.4 38.7 1.0 O5' A:CBV2 4.5 41.3 1.0 O5' A:G1 4.5 38.2 1.0 N3 A:G1 4.6 38.5 1.0 P A:CBV2 4.6 41.2 1.0 C1' A:G1 4.6 37.4 1.0 O6 A:G1 4.7 39.5 1.0 N1 A:G1 4.8 39.4 1.0 O2P A:CBV2 4.9 52.1 1.0 O3' A:G1 4.9 39.7 1.0 N4 A:C3 4.9 45.2 1.0 C2 A:CBV2 4.9 42.3 1.0 C2 A:G1 5.0 39.1 1.0 C5 A:C3 5.0 45.2 1.0

Bromine binding site 2 out of 2 in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-U Basepairs within 5.0Å range: probe atom residue distance (Å) B Occ B:Br2 b:36.3 occ:1.00 BR B:CBV2 0.0 36.3 1.0 C5 B:CBV2 1.9 31.6 1.0 C4 B:CBV2 3.0 30.4 1.0 C6 B:CBV2 3.0 32.5 1.0 N4 B:CBV2 3.2 32.7 1.0 O2P B:CBV2 3.4 56.4 1.0 O B:HOH209 3.4 39.8 1.0 N7 B:G1 3.6 34.7 1.0 C8 B:G1 3.7 32.3 1.0 C5 B:G1 3.7 36.2 1.0 N9 B:G1 3.9 32.8 1.0 C4 B:G1 3.9 31.1 1.0 C3' B:G1 4.1 39.3 1.0 C2' B:G1 4.3 32.2 1.0 N3 B:CBV2 4.3 29.9 1.0 N1 B:CBV2 4.3 30.6 1.0 O5' B:CBV2 4.4 41.8 1.0 C6 B:G1 4.4 33.7 1.0 P B:CBV2 4.4 47.1 1.0 O5' B:G1 4.5 41.9 1.0 C1' B:G1 4.6 34.5 1.0 N3 B:G1 4.7 31.9 1.0 O3P B:CBV2 4.7 82.3 1.0 O3' B:G1 4.8 47.9 1.0 C2 B:CBV2 4.9 31.4 1.0 O6 B:G1 4.9 32.6 1.0 N1 B:G1 5.0 32.5 1.0

L.Huang, S.Ashraf, J.Wang, D.M.Lilley. Control of Box C/D Snornp Assembly By N(6)-Methylation of Adenine. Embo Rep. V. 18 1631 2017.
ISSN: ESSN 1469-3178
PubMed: 28623187
DOI: 10.15252/EMBR.201743967