Sodium in PDB 7a0s: 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I

The structure of 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I, PDB code: 7a0s was solved by E.Breiner, Z.Eyal, D.Matzov, Y.Halfon, G.Cimicata, H.Rozenberg, E.Zimmerman, A.Bashan, A.Yonath, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.67 / 3.22
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	169.995, 410.736, 697.778, 90, 90, 90
R / Rfree (%)	22.4 / 25.3

The structure of 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I also contains other interesting chemical elements:

Magnesium	(Mg)	367 atoms
Calcium	(Ca)	5 atoms
Potassium	(K)	1 atom

The binding sites of Sodium atom in the 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I (pdb code 7a0s). 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 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I, PDB code: 7a0s:

Sodium binding site 1 out of 1 in the 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I within 5.0Å range: probe atom residue distance (Å) B Occ X:Na3249 b:91.6 occ:1.00 O2 X:U1467 2.3 106.1 1.0 O4' X:A1468 2.3 98.6 1.0 O2' X:A1468 2.4 99.7 1.0 C4' X:A1468 2.5 98.5 1.0 C2' X:A1468 3.1 98.8 1.0 C1' X:A1468 3.1 98.4 1.0 C3' X:A1468 3.2 98.5 1.0 C3' X:U1467 3.5 104.5 1.0 C2 X:U1467 3.5 106.5 1.0 O3' X:A1468 3.7 99.0 1.0 C5' X:U1467 3.8 105.5 1.0 C5' X:A1468 3.8 97.8 1.0 C4' X:U1467 4.0 105.1 1.0 O5' X:A1468 4.1 97.8 1.0 O4' X:U1467 4.2 105.9 1.0 C2' X:U1467 4.2 104.7 1.0 O3' X:U1467 4.3 103.6 1.0 N3 X:U1467 4.3 107.3 1.0 N9 X:A1468 4.5 97.5 1.0 C1' X:U1467 4.6 105.6 1.0 O4 X:U1473 4.6 105.0 1.0 N1 X:U1467 4.6 106.4 1.0 N4 X:C1472 4.6 96.4 1.0 P X:A1468 4.9 97.4 1.0

E.Breiner, Z.Eyal, D.Matzov, Y.Halfon, G.Cimicata, H.Rozenberg, E.Zimmerman, A.Bashan, A.Yonath. 50S Deinococcus Radiodurans Ribosome Bounded with Mycinamicin I To Be Published.