Sodium in PDB 5t6s: Crystal Structure of the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol

The structure of Crystal Structure of the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol, PDB code: 5t6s was solved by R.U.Kadam, I.A.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.50 / 2.36
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	67.419, 231.490, 127.850, 90.00, 96.88, 90.00
R / Rfree (%)	20.4 / 25

The structure of Crystal Structure of the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol also contains other interesting chemical elements:

Bromine

(Br)

6 atoms

The binding sites of Sodium atom in the Crystal Structure of the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol (pdb code 5t6s). 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 the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol, PDB code: 5t6s:

Sodium binding site 1 out of 1 in the Crystal Structure of the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol


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 the A/Shanghai/2/2013 (H7N9) Influenza Virus Hemagglutinin in Complex with the Antiviral Drug Arbidol within 5.0Å range: probe atom residue distance (Å) B Occ J:Na204 b:56.2 occ:1.00 OE1 J:GLU128 3.4 64.6 1.0 OE1 L:GLU128 3.9 64.6 1.0 OE1 H:GLU128 4.2 58.1 1.0 CD J:GLU128 4.5 61.6 1.0 OE2 J:GLU128 4.8 60.4 1.0 NH2 H:ARG170 4.9 63.5 1.0 NH2 J:ARG170 5.0 42.7 1.0 CD L:GLU128 5.0 61.8 1.0

R.U.Kadam, I.A.Wilson. Structural Basis of Influenza Virus Fusion Inhibition By the Antiviral Drug Arbidol. Proc. Natl. Acad. Sci. V. 114 206 2017U.S.A..
ISSN: ESSN 1091-6490
PubMed: 28003465
DOI: 10.1073/PNAS.1617020114