Magnesium in PDB 1y3s: Hiv-1 Dis Rna Subtype F- Mpd Form

The structure of Hiv-1 Dis Rna Subtype F- Mpd Form, PDB code: 1y3s 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 / 2.25
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	27.243, 117.794, 94.587, 90.00, 90.00, 90.00
R / Rfree (%)	24.3 / 26.2

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

Bromine	(Br)	2 atoms
Potassium	(K)	3 atoms

The binding sites of Magnesium atom in the Hiv-1 Dis Rna Subtype F- Mpd Form (pdb code 1y3s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Hiv-1 Dis Rna Subtype F- Mpd Form, PDB code: 1y3s:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Hiv-1 Dis Rna Subtype F- Mpd Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Hiv-1 Dis Rna Subtype F- Mpd Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg25 b:50.5 occ:0.89 O A:HOH70 2.1 45.5 1.0 O B:HOH51 2.7 43.5 1.0 O B:HOH32 3.1 51.5 1.0 O6 A:G12 3.1 31.1 1.0 O4 A:U11 3.4 28.9 1.0 C4 A:U11 4.0 32.0 1.0 O6 B:G12 4.1 37.0 1.0 C6 A:G12 4.2 34.9 1.0 O A:HOH58 4.2 43.5 1.0 N4 A:C13 4.3 28.4 1.0 N7 A:G12 4.3 36.8 1.0 N4 B:C13 4.4 31.8 1.0 C5 A:U11 4.4 30.6 1.0 N6 B:A14 4.6 32.3 1.0 C5 A:G12 4.7 35.1 1.0 N3 A:U11 4.9 30.2 1.0

Magnesium binding site 2 out of 2 in the Hiv-1 Dis Rna Subtype F- Mpd Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Hiv-1 Dis Rna Subtype F- Mpd Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg25 b:65.0 occ:0.76 O B:HOH55 2.7 43.2 1.0 O B:HOH69 3.6 44.3 1.0 O B:HOH49 3.8 43.3 1.0 O B:HOH50 3.8 43.4 1.0 OP2 B:C15 4.4 41.7 1.0 K B:K26 4.5 51.3 0.7 O B:HOH67 4.6 44.1 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