Potassium in PDB 3c5d: Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin

The structure of Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin, PDB code: 3c5d was solved by S.Freisz, K.Lang, R.Micura, P.Dumas, E.Ennifar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.95 / 1.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	100.086, 29.294, 59.607, 90.00, 120.84, 90.00
R / Rfree (%)	23.2 / 24.5

The binding sites of Potassium atom in the Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin (pdb code 3c5d). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin, PDB code: 3c5d:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin


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 Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin within 5.0Å range: probe atom residue distance (Å) B Occ A:K24 b:89.0 occ:1.00 O6 A:G4 2.6 43.2 1.0 O4 A:UMS3 2.7 50.7 1.0 O A:HOH74 2.7 47.4 1.0 C4 A:UMS3 3.3 52.3 1.0 C6 A:G4 3.7 43.0 1.0 C5 A:UMS3 3.8 52.6 1.0 N7 A:G4 3.9 43.9 1.0 N4 A:C5 4.2 41.0 1.0 C5 A:G4 4.2 44.0 1.0 O6 B:G19 4.3 38.3 1.0 N4 B:C20 4.3 43.1 1.0 O A:HOH45 4.3 53.8 1.0 N3 A:UMS3 4.4 52.2 1.0 N6 B:A21 4.6 48.3 1.0 N1 A:G4 4.9 42.9 1.0 C6 A:UMS3 5.0 53.3 1.0

Potassium binding site 2 out of 2 in the Crystal Structure of Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin


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 Hiv-1 Subtype F Dis Extended Duplex Rna Bound to Lividomycin within 5.0Å range: probe atom residue distance (Å) B Occ B:K26 b:70.1 occ:1.00 O6 B:G4 2.6 38.3 1.0 O A:HOH39 2.8 47.2 1.0 O4 B:UMS3 2.8 38.5 1.0 C4 B:UMS3 3.6 38.8 1.0 C6 B:G4 3.7 42.8 1.0 N4 A:C20 4.1 45.0 1.0 N7 B:G4 4.1 41.8 1.0 C5 B:UMS3 4.2 37.8 1.0 O B:HOH29 4.2 51.6 1.0 C5 B:G4 4.3 42.0 1.0 N4 B:C5 4.3 44.3 1.0 N6 A:A21 4.4 41.0 1.0 O6 A:G19 4.4 47.0 1.0 N3 B:UMS3 4.6 37.5 1.0 O A:HOH35 4.6 45.4 1.0 O A:HOH44 4.9 54.5 1.0 N1 B:G4 4.9 40.0 1.0 O4 B:U2 4.9 39.0 1.0

S.Freisz, K.Lang, R.Micura, P.Dumas, E.Ennifar. Binding of Aminoglycoside Antibiotics to the Duplex Form of the Hiv-1 Genomic Rna Dimerization Initiation Site. Angew.Chem.Int.Ed.Engl. V. 47 4110 2008.
ISSN: ISSN 0570-0833
PubMed: 18435520
DOI: 10.1002/ANIE.200800726