Bromine in PDB 6cy2: Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U.

The structure of Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U., PDB code: 6cy2 was solved by J.M.Harp, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.40 / 1.40
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	31.500, 31.500, 85.600, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 20.5

The binding sites of Bromine atom in the Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U. (pdb code 6cy2). 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 Octamer Containing 2'-Ome, 4'Calpha-Ome U., PDB code: 6cy2:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U. within 5.0Å range: probe atom residue distance (Å) B Occ A:Br1 b:31.1 occ:0.69 BR A:CBV1 0.0 31.1 0.7 C5 A:CBV1 1.8 29.1 1.0 HN41 A:CBV1 2.4 35.7 1.0 C4 A:CBV1 2.8 30.0 1.0 C6 A:CBV1 2.8 31.5 1.0 N4 A:CBV1 2.9 29.8 1.0 O A:HOH121 3.6 31.4 1.0 HN42 A:CBV1 3.9 35.7 1.0 N3 A:CBV1 4.1 30.3 1.0 N1 A:CBV1 4.1 31.5 1.0 O5' A:CBV1 4.4 30.1 1.0 C2 A:CBV1 4.6 32.0 1.0 H3' A:CBV1 4.9 36.8 1.0

Bromine binding site 2 out of 2 in the Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U.


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Rna Octamer Containing 2'-Ome, 4'Calpha-Ome U. within 5.0Å range: probe atom residue distance (Å) B Occ B:Br1 b:25.1 occ:0.67 BR B:CBV1 0.0 25.1 0.7 C5 B:CBV1 1.8 22.3 1.0 HN41 B:CBV1 2.6 27.3 1.0 C6 B:CBV1 2.8 24.8 1.0 C4 B:CBV1 2.8 22.3 1.0 N4 B:CBV1 3.1 22.8 1.0 O B:HOH123 3.8 42.9 1.0 O B:HOH121 4.0 33.2 1.0 N1 B:CBV1 4.1 23.9 1.0 HN42 B:CBV1 4.1 27.3 1.0 O5' B:CBV1 4.1 27.4 1.0 O B:HOH108 4.1 37.7 1.0 N3 B:CBV1 4.1 22.4 1.0 O B:HOH119 4.3 35.0 1.0 C2 B:CBV1 4.6 23.2 1.0 H3' B:CBV1 4.9 28.7 1.0

J.M.Harp, D.C.Guenther, A.Bisbe, L.Perkins, S.Matsuda, G.R.Bommineni, I.Zlatev, D.J.Foster, N.Taneja, K.Charisse, M.A.Maier, K.G.Rajeev, M.Manoharan, M.Egli. Structural Basis For the Synergy of 4'- and 2'-Modifications on Sirna Nuclease Resistance, Thermal Stability and Rnai Activity. Nucleic Acids Res. V. 46 8090 2018.
ISSN: ESSN 1362-4962
PubMed: 30107495
DOI: 10.1093/NAR/GKY703