Sodium in PDB 1i0g: 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt

The structure of 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt, PDB code: 1i0g was solved by V.Tereshko, C.J.Wilds, G.Minasov, T.P.Prakash, M.A.Maier, A.Howard, Z.Wawrzak, M.Manoharan, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.45
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	24.960, 43.570, 45.400, 90.00, 90.00, 90.00
R / Rfree (%)	15.9 / 19

The structure of 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt also contains other interesting chemical elements:

Fluorine

(F)

2 atoms

The binding sites of Sodium atom in the 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt (pdb code 1i0g). 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 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt, PDB code: 1i0g:

Sodium binding site 1 out of 1 in the 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 1.45 A Structure of the A-Decamer Gcgtatacgc with A Single 2'-O-Fluoroethyl Thymine in Place of T6, Medium Na-Salt within 5.0Å range: probe atom residue distance (Å) B Occ A:Na22 b:21.5 occ:1.00 O4 A:DT4 2.7 14.7 1.0 O B:HOH159 2.8 41.8 1.0 N6 A:DA5 3.1 12.6 1.0 O A:HOH113 3.2 23.4 1.0 O A:HOH153 3.4 44.9 1.0 O A:HOH117 3.4 30.3 1.0 O A:HOH150 3.5 42.5 1.0 C7 A:DT4 3.5 13.9 1.0 C4 A:DT4 3.7 14.9 1.0 O6 A:DG3 3.9 16.9 1.0 N7 A:DG3 3.9 15.9 1.0 C5 A:DT4 4.2 14.7 1.0 C6 A:DG3 4.2 15.8 1.0 C6 A:DA5 4.2 14.0 1.0 C5 A:DG3 4.2 15.8 1.0 N6 B:DA17 4.2 13.0 1.0 N7 A:DA5 4.3 14.6 1.0 O4 B:12516 4.5 15.2 1.0 C5 A:DA5 4.6 13.3 1.0 N6 B:DA15 4.6 13.4 1.0 C8 A:DG3 4.8 15.3 1.0 O A:HOH186 4.9 28.7 1.0 N3 A:DT4 5.0 13.9 1.0 O A:HOH116 5.0 32.2 1.0

V.Tereshko, C.J.Wilds, G.Minasov, T.P.Prakash, M.A.Maier, A.Howard, Z.Wawrzak, M.Manoharan, M.Egli. Detection of Alkali Metal Ions in Dna Crystals Using State-of-the-Art X-Ray Diffraction Experiments. Nucleic Acids Res. V. 29 1208 2001.
ISSN: ISSN 0305-1048
PubMed: 11222771
DOI: 10.1093/NAR/29.5.1208