Bromine in PDB 1y3o: Hiv-1 Dis Rna Subtype F- Mn Soaked

The structure of Hiv-1 Dis Rna Subtype F- Mn Soaked, PDB code: 1y3o was solved by E.Ennifar, P.Dumas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.70
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	27.341, 117.358, 94.672, 90.00, 90.00, 90.00
R / Rfree (%)	22 / 28

The structure of Hiv-1 Dis Rna Subtype F- Mn Soaked also contains other interesting chemical elements:

Manganese	(Mn)	4 atoms
Sodium	(Na)	3 atoms

The binding sites of Bromine atom in the Hiv-1 Dis Rna Subtype F- Mn Soaked (pdb code 1y3o). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Hiv-1 Dis Rna Subtype F- Mn Soaked, PDB code: 1y3o:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:Br3 b:47.0 occ:0.35 BR A:5BU3 0.0 47.0 0.3 C5 A:5BU3 1.9 52.3 1.0 C6 A:5BU3 2.8 52.0 1.0 C4 A:5BU3 2.9 53.1 1.0 O4 A:5BU3 3.2 54.1 1.0 C5 A:U2 3.5 43.1 1.0 C6 A:U2 3.6 42.8 1.0 C4 A:U2 3.7 43.0 1.0 OP2 A:5BU3 3.7 56.5 1.0 N1 A:U2 3.8 44.4 1.0 N3 A:U2 3.8 42.8 1.0 C2 A:U2 4.0 43.5 1.0 N3 A:5BU3 4.1 50.2 1.0 N1 A:5BU3 4.1 52.1 1.0 C3' A:U2 4.2 51.2 1.0 O4 A:U2 4.2 42.9 1.0 C2' A:U2 4.2 49.5 1.0 O5' A:5BU3 4.4 54.9 1.0 C1' A:U2 4.6 47.3 1.0 P A:5BU3 4.6 58.0 1.0 C2 A:5BU3 4.7 51.6 1.0 O2 A:U2 4.7 43.3 1.0 O5' A:U2 4.8 53.7 1.0 O3' A:U2 4.9 55.0 1.0

Bromine binding site 2 out of 2 in the Hiv-1 Dis Rna Subtype F- Mn Soaked


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Hiv-1 Dis Rna Subtype F- Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ B:Br3 b:37.0 occ:0.32 BR B:5BU3 0.0 37.0 0.3 C5 B:5BU3 1.9 49.1 1.0 C6 B:5BU3 2.8 49.4 1.0 C4 B:5BU3 2.9 50.5 1.0 O4 B:5BU3 3.1 53.8 1.0 C5 B:U2 3.4 47.0 1.0 C6 B:U2 3.5 48.2 1.0 OP2 B:5BU3 3.6 54.5 1.0 C4 B:U2 3.7 47.8 1.0 N1 B:U2 3.7 49.5 1.0 N3 B:U2 3.9 47.3 1.0 C2 B:U2 4.0 49.1 1.0 C3' B:U2 4.1 52.0 1.0 N3 B:5BU3 4.1 47.6 1.0 N1 B:5BU3 4.1 50.6 1.0 C2' B:U2 4.2 54.1 1.0 O4 B:U2 4.4 48.1 1.0 O5' B:5BU3 4.4 53.1 1.0 C1' B:U2 4.5 52.4 1.0 O5' B:U2 4.6 56.6 1.0 P B:5BU3 4.6 54.4 1.0 O2 B:U2 4.7 49.5 1.0 C2 B:5BU3 4.7 49.8 1.0 O3' B:U2 4.9 52.1 1.0 OP2 B:U2 4.9 57.6 1.0

E.Ennifar, P.Dumas. Polymorphism of Bulged-Out Residues in Hiv-1 Rna Dis Kissing Complex and Structure Comparison with Solution Studies. J.Mol.Biol. V. 356 771 2006.
ISSN: ISSN 0022-2836
PubMed: 16403527
DOI: 10.1016/J.JMB.2005.12.022