Sodium in PDB 8p9y: Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor

The binding sites of Sodium atom in the Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor (pdb code 8p9y). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor, PDB code: 8p9y:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1310 b:40.0 occ:0.00 O32 C:XIO1307 1.9 40.0 0.0 C31 C:XIO1307 3.3 40.0 0.0 O34 C:XIO1307 4.0 40.0 0.0 C10 C:XIO1307 4.3 40.0 0.0 O35 C:XIO1307 4.8 40.0 0.0 C12 C:XIO1307 4.9 40.0 0.0 C13 C:XIO1307 5.0 40.0 0.0

Sodium binding site 2 out of 3 in the Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1311 b:40.0 occ:0.00 O94 C:XIO1307 2.0 40.0 0.0 C93 C:XIO1307 3.4 40.0 0.0 O96 C:XIO1307 4.1 40.0 0.0 C72 C:XIO1307 4.3 40.0 0.0 N71 C:XIO1307 4.8 40.0 0.0

Sodium binding site 3 out of 3 in the Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Sars-Cov-2 S Protein S:D614G Mutant in 3-Down with Binding Site of An Entry Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1308 b:40.0 occ:0.00 O67 C:XIO1307 1.9 40.0 0.0 C66 C:XIO1307 3.3 40.0 0.0 O69 C:XIO1307 4.0 40.0 0.0 C45 C:XIO1307 4.3 40.0 0.0 C47 C:XIO1307 4.9 40.0 0.0

M.Gargantilla, C.Frances, A.Adhav, A.Forcada-Nadal, B.Martinez-Gualda, O.Marti-Mari, M.L.Lopez-Redondo, R.Melero, C.Marco-Marin, N.Gougeard, C.Espinosa, A.Rubio-Del-Campo, R.Ruiz-Partida, M.D.P.Hernandez-Sierra, L.Villamayor-Belinchon, J.Bravo, J.L.Llacer, A.Marina, V.Rubio, A.San-Felix, R.Geller, M.J.Perez-Perez. C-2 Thiophenyl Tryptophan Trimers Inhibit Cellular Entry of Sars-Cov-2 Through Interaction with the Viral Spike (S) Protein. J.Med.Chem. V. 66 10432 2023.
ISSN: ISSN 0022-2623
PubMed: 37471688
DOI: 10.1021/ACS.JMEDCHEM.3C00576