Sodium in PDB 5eyq: Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna)

The structure of Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna), PDB code: 5eyq was solved by P.K.Mandal, G.W.Collie, B.Kauffmann, S.C.Srivastava, I.Huc, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.23 / 2.30
Space group	P n n a
Cell size a, b, c (Å), α, β, γ (°)	28.905, 68.454, 34.211, 90.00, 90.00, 90.00
R / Rfree (%)	27.2 / 35.7

The binding sites of Sodium atom in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna) (pdb code 5eyq). 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 Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna), PDB code: 5eyq:

Sodium binding site 1 out of 1 in the Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Racemic Crystal Structures of Pribnow Box Consensus Promoter Sequence (Pnna) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na101 b:59.3 occ:0.50 OP1 B:DG12 2.1 52.9 0.5 O5' B:DG12 2.2 57.2 0.5 P B:DG12 2.4 56.5 0.5 O3' B:DC11 2.7 50.4 0.5 C5' B:DG12 3.2 51.6 0.5 C5' A:DG12 3.7 38.8 0.5 OP2 B:DG12 3.9 48.4 0.5 C4' B:DG12 3.9 42.5 0.5 C3' B:DC11 4.1 50.6 0.5 C4' A:DG12 4.2 40.5 0.5 O3' A:DC11 4.5 37.8 0.5 C3' B:DG12 4.6 39.9 0.5 O B:HOH208 4.8 66.9 1.0 O4' A:DG12 4.8 38.2 0.5 C4' B:DC11 4.8 51.0 0.5 OP1 A:DG12 4.9 58.2 0.5 O5' A:DG12 5.0 39.6 0.5

P.K.Mandal, G.W.Collie, S.C.Srivastava, B.Kauffmann, I.Huc. Structure Elucidation of the Pribnow Box Consensus Promoter Sequence By Racemic Dna Crystallography. Nucleic Acids Res. V. 44 5936 2016.
ISSN: ESSN 1362-4962
PubMed: 27137886
DOI: 10.1093/NAR/GKW367