Potassium 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
Magnesium	(Mg)	2 atoms

The binding sites of Potassium 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 Potassium atom.
In total 3 binding sites of Potassium where determined in the Hiv-1 Dis Rna Subtype F- Mpd Form, PDB code: 1y3s:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Hiv-1 Dis Rna Subtype F- Mpd Form


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K 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:K24 b:49.8 occ:0.79 O A:HOH30 2.2 64.0 1.0 O A:HOH40 2.7 40.1 1.0 O4 A:5BU3 2.7 46.2 1.0 O6 A:G4 3.0 39.1 1.0 O A:HOH42 3.1 60.6 1.0 C4 A:5BU3 3.5 45.1 1.0 O A:HOH32 3.9 49.8 1.0 O A:HOH71 3.9 44.8 1.0 BR A:5BU3 3.9 44.5 0.3 C6 A:G4 4.0 39.7 1.0 C5 A:5BU3 4.0 43.7 1.0 N7 A:G4 4.1 41.7 1.0 O6 A:G19 4.2 51.7 1.0 N4 A:C20 4.3 54.0 1.0 C5 A:G4 4.4 40.9 1.0 N6 A:A21 4.5 52.1 1.0 O A:HOH37 4.5 43.5 1.0 N3 A:5BU3 4.5 43.8 1.0 N4 A:C5 4.6 46.5 1.0

Potassium binding site 2 out of 3 in the Hiv-1 Dis Rna Subtype F- Mpd Form


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K 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:K24 b:67.0 occ:0.97 O6 B:G4 2.6 33.0 1.0 O B:HOH66 2.6 43.7 1.0 O4 B:5BU3 2.8 39.7 1.0 O B:HOH56 2.9 43.4 1.0 C4 B:5BU3 3.5 39.1 1.0 C6 B:G4 3.7 36.2 1.0 BR B:5BU3 3.7 43.0 0.3 C5 B:5BU3 4.0 38.6 1.0 N4 B:C20 4.1 50.8 1.0 N7 B:G4 4.2 38.8 1.0 O6 B:G19 4.2 49.3 1.0 N4 B:C5 4.2 46.1 1.0 C5 B:G4 4.3 38.7 1.0 N6 B:A21 4.4 44.4 1.0 N3 B:5BU3 4.4 37.7 1.0 N1 B:G4 4.8 36.2 1.0

Potassium binding site 3 out of 3 in the Hiv-1 Dis Rna Subtype F- Mpd Form


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Hiv-1 Dis Rna Subtype F- Mpd Form within 5.0Å range: probe atom residue distance (Å) B Occ B:K26 b:51.3 occ:0.74 O B:HOH49 2.5 43.3 1.0 O B:HOH38 2.7 43.1 1.0 O B:HOH50 2.8 43.4 1.0 O4 B:U6 2.8 45.8 1.0 O B:HOH55 2.9 43.2 1.0 O6 B:G7 2.9 40.8 1.0 O B:HOH67 3.0 44.1 1.0 C4 B:U6 3.7 48.2 1.0 O B:HOH59 3.9 43.7 1.0 C6 B:G7 4.0 42.7 1.0 C5 B:U6 4.2 48.0 1.0 N4 B:C17 4.3 36.8 1.0 N7 B:G7 4.4 44.1 1.0 MG B:MG25 4.5 65.0 0.8 N6 B:A18 4.5 45.4 1.0 C5 B:G7 4.6 43.6 1.0 N3 B:U6 4.7 48.4 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