Sodium in PDB 258d: Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin

The structure of Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin, PDB code: 258d was solved by C.K.Smith, J.A.Brannigan, M.H.Moore, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.69 / 1.58
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	26.300, 51.980, 67.080, 90.00, 90.00, 90.00
R / Rfree (%)	18.8 / 23.7

The binding sites of Sodium atom in the Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin (pdb code 258d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin, PDB code: 258d:

Sodium binding site 1 out of 1 in the Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Factors Affecting Sequence Selectivity on Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)- Nogalamycin within 5.0Å range: probe atom residue distance (Å) B Occ B:Na30 b:19.9 occ:0.50 N7 B:DA12 2.7 15.3 1.0 OXT B:ACT32 3.1 40.1 0.5 N6 B:DA12 3.4 13.2 1.0 O B:ACT31 3.5 38.2 0.5 OXT B:ACT31 3.6 49.5 0.5 O B:ACT32 3.6 36.3 0.5 C5 B:DA12 3.6 12.2 1.0 C8 B:DA12 3.7 10.6 1.0 O4 A:NGM26 3.8 17.9 1.0 C2' B:DC11 3.8 15.6 1.0 C B:ACT32 3.8 38.5 0.5 C6 B:DA12 3.9 10.7 1.0 C B:ACT31 4.1 46.8 0.5 O5 A:NGM26 4.2 15.8 1.0 C4 B:DA12 4.9 12.4 1.0 C3' B:DC11 4.9 14.1 1.0 C6 B:DC11 4.9 15.5 1.0 N9 B:DA12 4.9 14.8 1.0 C1' B:DC11 4.9 15.4 1.0 O3' B:DC11 4.9 15.7 1.0

C.K.Smith, J.A.Brannigan, M.H.Moore. Factors Affecting Dna Sequence Selectivity of Nogalamycin Intercalation: the Crystal Structure of D(Tgtaca)2-NOGALAMYCIN2. J.Mol.Biol. V. 263 237 1996.
ISSN: ISSN 0022-2836
PubMed: 8913304
DOI: 10.1006/JMBI.1996.0572