Potassium in PDB 2oj0: Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked

The structure of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked, PDB code: 2oj0 was solved by E.Ennifar, P.Walter, P.Dumas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	7.97 / 2.60
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	42.538, 47.834, 58.681, 90.00, 90.00, 90.00
R / Rfree (%)	20 / 23

The structure of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked also contains other interesting chemical elements:

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

The binding sites of Potassium atom in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked (pdb code 2oj0). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 5 binding sites of Potassium where determined in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked, PDB code: 2oj0:
Jump to Potassium binding site number: 1; 2; 3; 4; 5;

Potassium binding site 1 out of 5 in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:K201 b:46.0 occ:0.80 N2 A:G4 3.2 14.5 1.0 O A:HOH326 3.4 31.8 1.0 C1' B:A21 3.8 20.8 1.0 O A:HOH323 3.8 36.8 1.0 C2 A:G4 4.2 16.7 1.0 N3 A:G4 4.3 17.5 1.0 O2' B:A21 4.3 18.9 1.0 N3 B:A21 4.3 24.0 1.0 O4' B:A21 4.3 21.1 1.0 N9 B:A21 4.5 21.9 1.0 C4 B:A21 4.7 22.8 1.0 C2' B:A21 4.7 20.0 1.0 O2 B:C20 4.8 14.7 1.0

Potassium binding site 2 out of 5 in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ A:K203 b:23.8 occ:0.60 O6 A:G7 2.7 14.3 1.0 O6 B:G18 2.7 23.2 1.0 O4 A:U6 2.8 24.7 1.0 N4 B:C17 3.5 11.6 1.0 C6 A:G7 3.8 13.6 1.0 C4 A:U6 3.8 22.4 1.0 C6 B:G18 3.9 23.5 1.0 N4 A:C5 4.0 19.1 1.0 N3 A:U6 4.2 22.3 1.0 O A:HOH359 4.2 48.4 1.0 MN A:MN205 4.5 38.6 0.5 N7 B:G18 4.5 23.1 1.0 C4 B:C17 4.5 14.2 1.0 C5 B:G18 4.6 22.7 1.0 N1 A:G7 4.6 11.1 1.0 O6 B:G19 4.6 20.4 1.0 C5 A:G7 4.7 13.8 1.0 O A:HOH373 4.8 26.1 1.0 O A:HOH383 4.8 27.1 1.0 N3 B:C17 4.9 16.1 1.0 N1 B:G18 5.0 22.7 1.0 N7 A:G7 5.0 14.2 1.0

Potassium binding site 3 out of 5 in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ B:K202 b:39.5 occ:1.00 O A:HOH376 3.4 27.8 1.0 O A:HOH335 3.4 31.8 1.0 O4 B:U3 3.5 11.7 1.0 O6 A:G19 3.6 14.8 1.0 O B:HOH215 3.6 36.8 1.0 O6 B:G4 3.7 22.9 1.0 N4 B:C5 4.1 15.7 1.0 N4 A:C20 4.2 14.1 1.0 O A:HOH362 4.3 17.5 1.0 C4 B:U3 4.4 12.6 1.0 O A:HOH334 4.4 31.4 1.0 C6 A:G19 4.7 13.7 1.0 C6 B:G4 4.9 21.9 1.0 C5 B:U3 4.9 12.5 1.0 N6 A:A21 5.0 12.6 1.0

Potassium binding site 4 out of 5 in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ B:K207 b:31.4 occ:1.00 O2' B:G4 2.9 17.5 1.0 C2' B:G4 4.1 18.0 1.0 C1' B:G4 4.3 18.3 1.0 O A:HOH321 4.6 25.9 1.0 O B:HOH211 4.8 18.9 1.0 N3 B:G4 5.0 22.1 1.0

Potassium binding site 5 out of 5 in the Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Crystal Structure of the Duplex Form of the Hiv-1(Lai) Rna Dimerization Initiation Site Mn Soaked within 5.0Å range: probe atom residue distance (Å) B Occ B:K208 b:24.1 occ:0.80 O2' B:G10 2.7 19.5 1.0 O3' B:G10 3.2 19.3 1.0 C2' B:G10 3.7 19.9 1.0 C3' B:G10 3.7 19.9 1.0 C4' B:G10 3.8 21.1 1.0 C5' B:C11 4.1 19.2 1.0 P B:C11 4.4 20.3 1.0 OP1 B:C11 4.4 22.8 1.0 O4' B:G10 4.5 21.4 1.0 C1' B:G10 4.6 19.8 1.0 O5' B:C11 4.7 21.6 1.0 C5' B:G10 4.9 21.6 1.0

E.Ennifar, P.Walter, P.Dumas. Cation-Dependent Cleavage of the Duplex Form of the Subtype-B Hiv-1 Rna Dimerization Initiation Site. Nucleic Acids Res. V. 38 5807 2010.
ISSN: ISSN 0305-1048
PubMed: 20460458
DOI: 10.1093/NAR/GKQ344