Sodium in PDB 7edt: Rna Duplex Containing Cc Mispairs

The structure of Rna Duplex Containing Cc Mispairs, PDB code: 7edt was solved by J.Kondo, Y.Tada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.27 / 1.20
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	24.296, 24.852, 28.249, 93.85, 106.02, 103.21
R / Rfree (%)	14.4 / 17.7

The structure of Rna Duplex Containing Cc Mispairs also contains other interesting chemical elements:

Bromine

(Br)

2 atoms

The binding sites of Sodium atom in the Rna Duplex Containing Cc Mispairs (pdb code 7edt). 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 Rna Duplex Containing Cc Mispairs, PDB code: 7edt:

Sodium binding site 1 out of 1 in the Rna Duplex Containing Cc Mispairs


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Rna Duplex Containing Cc Mispairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:10.5 occ:1.00 OP2 A:C7 2.3 11.0 1.0 O A:HOH537 2.4 11.8 1.0 O B:HOH134 2.4 11.4 1.0 O6 A:G8 2.5 8.8 1.0 O2' A:C6 2.5 9.8 1.0 N7 A:G8 2.6 8.8 1.0 C6 A:G8 3.1 8.3 1.0 C5 A:G8 3.1 9.1 1.0 C2' A:C6 3.4 9.6 1.0 P A:C7 3.5 10.4 1.0 O3' A:C6 3.6 9.7 1.0 O A:HOH521 3.7 13.9 1.0 C3' A:C6 3.7 9.9 1.0 C8 A:G8 3.8 8.6 1.0 O A:HOH535 4.0 21.0 1.0 N3 B:C18 4.1 10.5 1.0 O5' A:C7 4.2 9.9 1.0 O A:HOH515 4.3 17.4 1.0 O B:HOH180 4.5 24.0 1.0 N1 A:G8 4.5 8.8 1.0 O6 A:G9 4.5 9.8 1.0 C4 A:G8 4.5 9.0 1.0 O4 B:U17 4.5 9.8 1.0 O A:HOH528 4.5 18.5 1.0 N4 B:C18 4.6 11.9 1.0 OP1 A:C7 4.7 12.2 1.0 N3 B:U17 4.8 9.6 1.0 C4 B:C18 4.8 10.9 1.0 N7 A:G9 4.8 9.7 1.0 N9 A:G8 4.8 9.2 1.0 C1' A:C6 4.8 10.1 1.0 C5 A:C7 4.8 11.0 1.0 O2 B:C18 4.9 11.0 1.0 C2 B:C18 4.9 10.5 1.0 C6 A:C7 5.0 11.0 1.0

J.Kondo, Y.Tada. Rna Duplex Containing Cc Mispairs To Be Published.