Sodium in PDB 7dnb: Crystal Structure of Phocl Barrel

The structure of Crystal Structure of Phocl Barrel, PDB code: 7dnb was solved by Y.Wen, J.M.Lemieux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.11 / 2.81
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	46.4, 119.64, 65.26, 90, 107.66, 90
R / Rfree (%)	27.5 / 33.5

The binding sites of Sodium atom in the Crystal Structure of Phocl Barrel (pdb code 7dnb). 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 Crystal Structure of Phocl Barrel, PDB code: 7dnb:

Sodium binding site 1 out of 1 in the Crystal Structure of Phocl Barrel


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Phocl Barrel within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:2.2 occ:1.00 NE2 C:HIS96 2.1 41.0 1.0 NE2 B:HIS96 2.1 44.2 1.0 CE1 C:HIS96 2.3 40.0 1.0 OE2 C:GLU68 2.4 24.1 1.0 OE1 B:GLU68 2.4 24.6 1.0 OE2 B:GLU68 2.4 24.9 1.0 CE1 B:HIS96 2.4 45.1 1.0 CD B:GLU68 2.6 25.1 1.0 CD C:GLU68 3.2 24.1 1.0 CD2 B:HIS96 3.3 46.7 1.0 CD2 C:HIS96 3.4 38.8 1.0 OE1 C:GLU68 3.5 24.2 1.0 ND1 C:HIS96 3.6 38.9 1.0 ND1 B:HIS96 3.6 48.6 1.0 CG B:GLU68 3.8 24.1 1.0 CD1 C:LEU90 3.9 32.4 1.0 CG B:HIS96 4.1 48.2 1.0 CG C:HIS96 4.1 35.4 1.0 CD2 B:LEU90 4.2 30.0 1.0 CG B:LEU90 4.3 29.1 1.0 CD1 B:LEU90 4.5 28.7 1.0 CG C:GLU68 4.6 18.7 1.0

X.Lu, Y.Wen, S.Zhang, W.Zhang, Y.Chen, Y.Shen, J.M.Lemieux, R.E.Campbell. Improved Photocleavable Proteins with Faster and More Efficient Dissociation. Biorxiv 2020.
DOI: 10.1101/2020.12.10.419556