Sodium in PDB 5wef: Crystal Structure of the Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770)

The structure of Crystal Structure of the Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770), PDB code: 5wef was solved by G.Kumar, S.W.White, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.48 / 2.00
Space group	P 64 2 2
Cell size a, b, c (Å), α, β, γ (°)	73.878, 73.878, 127.282, 90.00, 90.00, 120.00
R / Rfree (%)	19.4 / 22.7

The structure of Crystal Structure of the Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770) also contains other interesting chemical elements:

Manganese	(Mn)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of the Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770) (pdb code 5wef). 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 Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770), PDB code: 5wef:

Sodium binding site 1 out of 1 in the Crystal Structure of the Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770)


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 Influenza Virus Pa Endonuclease (F105S Mutant) in Complex with Inhibitor 7A (Sri-29770) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na307 b:78.3 occ:1.00 O A:HOH413 3.6 42.7 1.0 C03 A:GY6303 3.9 51.6 1.0 C11 A:GY6303 4.0 49.8 1.0 C04 A:GY6303 4.1 48.3 1.0 O12 A:GY6303 4.1 43.3 1.0 O05 A:GY6303 4.3 43.0 1.0 OE2 A:GLU119 4.3 54.0 1.0 CE A:LYS134 4.3 73.1 1.0 N02 A:GY6303 4.4 56.9 1.0 N13 A:GY6303 4.5 54.4 1.0 O A:LEU106 4.5 45.6 1.0 C53 A:GY6303 4.5 82.1 1.0 O A:HOH437 4.6 60.1 1.0 OE1 A:GLU119 4.6 55.8 1.0 C07 A:GY6303 4.6 50.0 1.0 CD A:GLU119 4.6 54.2 1.0 NZ A:LYS134 4.7 72.9 1.0 C55 A:GY6303 4.7 83.4 1.0 OG A:SER105 4.9 67.5 1.0 MN A:MN302 4.9 37.1 0.5 C01 A:GY6303 5.0 60.3 1.0

D.Beylkin, G.Kumar, W.Zhou, J.Park, T.Jeevan, C.Lagisetti, R.Harfoot, R.J.Webby, S.W.White, T.R.Webb. Protein-Structure Assisted Optimization of 4,5-Dihydroxypyrimidine-6-Carboxamide Inhibitors of Influenza Virus Endonuclease. Sci Rep V. 7 17139 2017.
ISSN: ESSN 2045-2322
PubMed: 29215062
DOI: 10.1038/S41598-017-17419-6