Bromine in PDB 1zci: Hiv-1 Dis Rna Subtype F- Monoclinic Form

The structure of Hiv-1 Dis Rna Subtype F- Monoclinic Form, PDB code: 1zci 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)	19.74 / 1.65
Space group	P 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	50.437, 31.762, 87.287, 90.00, 104.78, 90.00
R / Rfree (%)	24.2 / 25

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

Potassium

(K)

4 atoms

The binding sites of Bromine atom in the Hiv-1 Dis Rna Subtype F- Monoclinic Form (pdb code 1zci). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 4 binding sites of Bromine where determined in the Hiv-1 Dis Rna Subtype F- Monoclinic Form, PDB code: 1zci:
Jump to Bromine binding site number: 1; 2; 3; 4;

Bromine binding site 1 out of 4 in the Hiv-1 Dis Rna Subtype F- Monoclinic Form


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- Monoclinic Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Br2 b:16.5 occ:0.44 BR A:5BU2 0.0 16.5 0.4 C5 A:5BU2 1.9 18.8 1.0 C6 A:5BU2 2.8 15.3 1.0 C4 A:5BU2 2.9 17.6 1.0 O4 A:5BU2 3.2 17.3 1.0 O A:HOH64 3.5 43.1 1.0 C6 A:C1 3.5 18.8 1.0 C5 A:C1 3.6 19.3 1.0 OP2 A:5BU2 3.7 24.6 1.0 O A:HOH50 3.8 25.6 1.0 N1 A:C1 3.8 18.0 1.0 O A:HOH59 3.9 37.9 1.0 C4 A:C1 3.9 18.0 1.0 C3' A:C1 4.0 21.4 1.0 C2 A:C1 4.1 17.9 1.0 N3 A:5BU2 4.1 17.3 1.0 N1 A:5BU2 4.1 17.4 1.0 N3 A:C1 4.1 18.3 1.0 O A:HOH51 4.2 35.0 1.0 C2' A:C1 4.3 20.3 1.0 O4 A:U3 4.3 18.9 1.0 O5' A:C1 4.3 25.2 1.0 O5' A:5BU2 4.3 21.4 1.0 P A:5BU2 4.5 24.1 1.0 C1' A:C1 4.5 20.9 1.0 K A:K24 4.6 27.1 1.0 N4 A:C1 4.7 18.0 1.0 C2 A:5BU2 4.7 15.8 1.0 O3' A:C1 4.8 20.3 1.0 O2 A:C1 4.8 17.7 1.0 C5 A:U3 4.8 18.3 1.0 C4 A:U3 4.9 19.3 1.0 O4' A:C1 5.0 22.9 1.0 C4' A:C1 5.0 20.8 1.0

Bromine binding site 2 out of 4 in the Hiv-1 Dis Rna Subtype F- Monoclinic Form


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- Monoclinic Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Br2 b:18.2 occ:0.42 BR B:5BU2 0.0 18.2 0.4 C5 B:5BU2 1.9 18.7 1.0 C6 B:5BU2 2.8 18.9 1.0 C4 B:5BU2 2.9 19.6 1.0 O4 B:5BU2 3.2 21.5 1.0 O B:HOH56 3.5 29.1 1.0 C6 B:C1 3.6 22.7 1.0 C5 B:C1 3.6 23.5 1.0 OP2 B:5BU2 3.8 29.7 1.0 O B:HOH31 3.8 38.3 1.0 N1 B:C1 3.8 23.5 1.0 C4 B:C1 3.9 22.0 1.0 C3' B:C1 4.0 30.8 1.0 C2 B:C1 4.1 22.3 1.0 N1 B:5BU2 4.1 19.9 1.0 N3 B:5BU2 4.1 20.1 1.0 N3 B:C1 4.2 21.7 1.0 O B:HOH73 4.2 40.0 1.0 C2' B:C1 4.3 29.2 1.0 O4 B:U3 4.3 21.9 1.0 O5' B:C1 4.4 36.4 1.0 O5' B:5BU2 4.4 28.6 1.0 C1' B:C1 4.6 27.4 1.0 P B:5BU2 4.6 31.9 1.0 N4 B:C1 4.7 20.2 1.0 C2 B:5BU2 4.7 20.6 1.0 K B:K24 4.8 28.9 1.0 C5 B:U3 4.8 23.5 1.0 O3' B:C1 4.8 32.1 1.0 O2 B:C1 4.8 21.2 1.0 C4 B:U3 4.9 20.5 1.0 O4' B:C1 5.0 28.7 1.0 C4' B:C1 5.0 31.1 1.0

Bromine binding site 3 out of 4 in the Hiv-1 Dis Rna Subtype F- Monoclinic Form


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Hiv-1 Dis Rna Subtype F- Monoclinic Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Br2 b:16.8 occ:0.46 BR C:5BU2 0.0 16.8 0.5 C5 C:5BU2 1.9 19.2 1.0 C6 C:5BU2 2.8 16.5 1.0 C4 C:5BU2 2.9 18.4 1.0 O4 C:5BU2 3.2 17.7 1.0 O C:HOH40 3.3 39.0 1.0 C6 C:C1 3.6 19.9 1.0 O C:HOH39 3.6 32.5 1.0 C5 C:C1 3.6 18.8 1.0 OP2 C:5BU2 3.7 22.4 1.0 O C:HOH55 3.8 23.2 1.0 N1 C:C1 3.9 19.6 1.0 C4 C:C1 3.9 18.3 1.0 O C:HOH77 4.0 39.0 1.0 C3' C:C1 4.0 21.8 1.0 N1 C:5BU2 4.1 17.6 1.0 N3 C:5BU2 4.1 18.1 1.0 C2 C:C1 4.2 18.9 1.0 N3 C:C1 4.2 18.7 1.0 O4 C:U3 4.3 17.0 1.0 C2' C:C1 4.3 20.2 1.0 O5' C:5BU2 4.4 20.3 1.0 O5' C:C1 4.4 26.0 1.0 K C:K24 4.4 26.8 1.0 P C:5BU2 4.6 23.1 1.0 C1' C:C1 4.6 21.7 1.0 N4 C:C1 4.6 17.1 1.0 C2 C:5BU2 4.7 17.8 1.0 C5 C:U3 4.8 18.3 1.0 O3' C:C1 4.8 22.6 1.0 C4 C:U3 4.9 19.0 1.0 O2 C:C1 4.9 16.7 1.0

Bromine binding site 4 out of 4 in the Hiv-1 Dis Rna Subtype F- Monoclinic Form


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Hiv-1 Dis Rna Subtype F- Monoclinic Form within 5.0Å range: probe atom residue distance (Å) B Occ D:Br2 b:18.8 occ:0.43 BR D:5BU2 0.0 18.8 0.4 C5 D:5BU2 1.9 21.1 1.0 C6 D:5BU2 2.8 19.4 1.0 C4 D:5BU2 2.9 21.1 1.0 O4 D:5BU2 3.2 22.9 1.0 O D:HOH44 3.5 27.9 1.0 C6 D:C1 3.6 21.6 1.0 OP2 D:5BU2 3.7 31.3 1.0 C5 D:C1 3.7 21.8 1.0 N1 D:C1 3.8 22.6 1.0 C4 D:C1 3.9 20.8 1.0 C3' D:C1 4.0 30.1 1.0 C2 D:C1 4.0 21.9 1.0 N3 D:C1 4.1 20.6 1.0 N1 D:5BU2 4.1 20.9 1.0 N3 D:5BU2 4.1 20.4 1.0 O D:HOH36 4.2 41.9 1.0 C2' D:C1 4.2 28.0 1.0 O D:HOH50 4.3 39.1 1.0 O4 D:U3 4.4 22.6 1.0 O5' D:5BU2 4.4 30.1 1.0 O5' D:C1 4.4 35.3 1.0 C1' D:C1 4.5 26.5 1.0 P D:5BU2 4.5 32.9 1.0 N4 D:C1 4.7 20.2 1.0 O2 D:C1 4.7 20.6 1.0 C2 D:5BU2 4.7 20.0 1.0 C5 D:U3 4.7 24.3 1.0 O3' D:C1 4.8 30.7 1.0 K D:K24 4.8 27.4 1.0 C4 D:U3 4.9 23.4 1.0 O4' D:C1 5.0 28.1 1.0 C4' D:C1 5.0 30.0 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