Bromine in PDB 7edt: Rna Duplex Containing Cc Mispairs

The structure of Rna Duplex Containing Cc Mispairs, PDB code: 7edt was solved by J.Kondo, Y.Tada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.27 / 1.20
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	24.296, 24.852, 28.249, 93.85, 106.02, 103.21
R / Rfree (%)	14.4 / 17.7

The structure of Rna Duplex Containing Cc Mispairs also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Bromine atom in the Rna Duplex Containing Cc Mispairs (pdb code 7edt). 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 Containing Cc Mispairs, PDB code: 7edt:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the Rna Duplex Containing Cc Mispairs


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Rna Duplex Containing Cc Mispairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Br10 b:17.0 occ:1.00 BR A:5BU10 0.0 17.0 1.0 C5 A:5BU10 1.9 11.7 1.0 C6 A:5BU10 2.8 11.1 1.0 C4 A:5BU10 2.8 10.2 1.0 O4 A:5BU10 3.1 11.0 1.0 O A:HOH560 3.2 45.1 1.0 OP2 A:5BU10 3.5 11.6 1.0 O A:HOH552 3.6 18.5 1.0 N7 A:G9 3.6 9.7 1.0 C8 A:G9 3.7 10.1 1.0 C5 A:G9 3.7 9.2 1.0 N9 A:G9 3.8 10.0 1.0 O A:HOH546 3.8 14.2 1.0 C4 A:G9 3.8 9.7 1.0 O A:HOH540 3.9 31.9 1.0 C3' A:G9 4.1 10.4 1.0 N1 A:5BU10 4.1 10.7 1.0 N3 A:5BU10 4.1 10.7 1.0 C2' A:G9 4.2 10.2 1.0 C6 A:G9 4.3 9.0 1.0 O5' A:5BU10 4.3 9.9 1.0 P A:5BU10 4.5 10.8 1.0 N3 A:G9 4.5 9.4 1.0 C1' A:G9 4.6 9.8 1.0 C2 A:5BU10 4.7 10.8 1.0 O A:HOH515 4.7 17.4 1.0 O5' A:G9 4.7 11.2 1.0 N4 A:C11 4.8 11.1 1.0 O3' A:G9 4.8 10.1 1.0 N1 A:G9 4.9 9.5 1.0 O6 A:G9 4.9 9.8 1.0 C2 A:G9 4.9 9.8 1.0

Bromine binding site 2 out of 2 in the Rna Duplex Containing Cc Mispairs


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Rna Duplex Containing Cc Mispairs within 5.0Å range: probe atom residue distance (Å) B Occ B:Br22 b:17.2 occ:1.00 BR B:5BU22 0.0 17.2 1.0 C5 B:5BU22 1.9 13.0 1.0 C6 B:5BU22 2.8 12.0 1.0 C4 B:5BU22 2.8 11.4 1.0 O4 B:5BU22 3.1 11.6 1.0 O B:HOH104 3.1 31.9 1.0 O B:HOH163 3.5 42.8 1.0 N7 B:G21 3.6 11.0 1.0 O B:HOH173 3.6 28.2 1.0 C5 B:G21 3.6 11.1 1.0 OP2 B:5BU22 3.6 15.8 1.0 O B:HOH144 3.6 19.7 1.0 C8 B:G21 3.6 12.0 1.0 C4 B:G21 3.8 11.7 1.0 N9 B:G21 3.8 11.8 1.0 O B:HOH103 3.9 41.1 1.0 C3' B:G21 4.1 12.7 1.0 N1 B:5BU22 4.1 11.7 1.0 N3 B:5BU22 4.1 11.5 1.0 C6 B:G21 4.2 11.1 1.0 C2' B:G21 4.3 12.9 1.0 O5' B:5BU22 4.4 14.0 1.0 O5' B:G21 4.4 14.2 1.0 O B:HOH132 4.5 24.9 1.0 N3 B:G21 4.5 11.4 1.0 P B:5BU22 4.5 14.7 1.0 OP2 B:G21 4.6 17.3 1.0 C1' B:G21 4.6 12.4 1.0 C2 B:5BU22 4.7 11.2 1.0 O6 B:G21 4.8 11.7 1.0 N1 B:G21 4.8 11.0 1.0 O3' B:G21 4.8 13.4 1.0 C2 B:G21 4.9 11.4 1.0

J.Kondo, Y.Tada. Rna Duplex Containing Cc Mispairs To Be Published.