Chlorine in PDB 7bei: Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab

The structure of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab, PDB code: 7bei was solved by D.Zhou, Y.Zhao, J.Ren, D.Stuart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.75 / 2.30
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	81.419, 150.709, 145.504, 90, 90, 90
R / Rfree (%)	18.4 / 23.2

The binding sites of Chlorine atom in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab (pdb code 7bei). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab, PDB code: 7bei:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl503 b:76.1 occ:1.00 O H:HOH679 2.6 62.7 1.0 O H:THR57 3.5 42.1 1.0 N H:THR57 3.5 39.6 1.0 OG1 H:THR57 3.8 44.3 1.0 CG2 E:THR415 3.9 38.4 1.0 O H:HOH673 4.1 48.0 1.0 CA H:THR56 4.2 39.4 1.0 CG2 H:THR56 4.2 38.3 1.0 C H:THR57 4.3 45.5 1.0 C H:THR56 4.3 41.4 1.0 CA H:THR57 4.4 43.1 1.0 OG1 E:THR415 4.4 44.7 1.0 CB E:THR415 4.6 43.2 1.0 CB H:THR56 4.6 39.7 1.0 OG1 H:THR56 4.7 45.0 1.0 CB H:THR57 4.7 45.1 1.0 O H:HOH622 4.8 38.2 1.0

Chlorine binding site 2 out of 5 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl504 b:79.9 occ:1.00 N H:SER17 3.4 47.5 1.0 O H:SER17 3.5 50.6 1.0 O H:HOH637 3.6 53.0 1.0 CD1 H:ILE12 3.8 53.4 1.0 CA H:GLY16 4.1 41.1 1.0 CA H:SER17 4.2 44.8 1.0 C H:SER17 4.3 46.3 1.0 C H:GLY16 4.3 48.5 1.0 CB H:SER17 4.5 46.9 1.0 CG1 H:ILE12 4.7 42.5 1.0

Chlorine binding site 3 out of 5 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl505 b:64.0 occ:1.00 O H:VAL167 3.2 47.3 1.0 N H:GLY166 3.8 41.7 1.0 N H:VAL167 3.8 39.6 1.0 O H:HOH631 3.9 49.9 1.0 CA H:GLY166 4.0 35.1 1.0 OD1 L:ASP169 4.0 60.2 1.0 C H:GLY166 4.1 51.4 1.0 O L:HOH406 4.2 57.1 1.0 CE1 H:HIS168 4.2 42.0 1.0 C H:VAL167 4.2 43.1 1.0 O H:THR164 4.4 45.5 1.0 ND1 H:HIS168 4.5 42.2 1.0 CA H:VAL167 4.6 42.7 1.0 NE2 H:HIS168 4.8 45.8 1.0 C H:SER165 4.9 47.8 1.0 O H:GLY166 5.0 43.8 1.0

Chlorine binding site 4 out of 5 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab within 5.0Å range: probe atom residue distance (Å) B Occ L:Cl302 b:68.1 occ:1.00 O L:ALA43 3.4 50.2 1.0 N L:LYS39 3.5 42.4 1.0 CA L:GLN38 3.9 46.5 1.0 CG L:LYS39 3.9 45.5 1.0 O L:GLN37 3.9 42.8 1.0 CB L:LYS42 4.0 54.0 1.0 CB L:LYS39 4.0 46.8 1.0 C L:GLN38 4.1 47.4 1.0 CB L:LYS45 4.3 51.4 1.0 OE1 L:GLN37 4.3 51.6 1.0 CA L:LYS39 4.4 51.2 1.0 C L:GLN37 4.4 40.7 1.0 N L:GLN38 4.4 43.8 1.0 CD L:LYS39 4.5 53.1 1.0 C L:ALA43 4.6 41.3 1.0 CG L:LYS42 4.7 53.6 1.0 N L:LYS45 4.7 50.1 1.0 CG L:GLN37 4.7 41.1 1.0 CD L:GLN37 4.9 49.1 1.0 C L:PRO44 5.0 44.1 1.0 CE L:LYS39 5.0 45.7 1.0

Chlorine binding site 5 out of 5 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-150 Fab within 5.0Å range: probe atom residue distance (Å) B Occ L:Cl303 b:61.6 occ:1.00 O L:HOH427 3.1 46.2 1.0 N L:GLY97 3.4 46.0 1.0 O H:HOH641 3.4 36.4 1.0 O H:HOH628 3.9 50.9 1.0 CA L:PRO96 4.0 50.8 1.0 CB L:PRO96 4.0 47.9 1.0 CE1 L:TYR98 4.1 46.8 1.0 O L:GLY97 4.1 55.6 1.0 C L:PRO96 4.1 45.4 1.0 CA L:GLY97 4.2 43.9 1.0 CE2 H:TRP47 4.2 41.9 1.0 O L:HOH420 4.3 45.7 1.0 CZ2 H:TRP47 4.4 41.4 1.0 C L:GLY97 4.4 41.5 1.0 NE1 H:TRP47 4.4 40.5 1.0 CD1 L:TYR98 4.6 48.2 1.0 CD2 H:TRP47 4.6 39.6 1.0 CZ L:TYR98 4.7 43.0 1.0 CG2 H:ILE50 4.8 33.0 1.0 CD1 H:TRP47 4.9 37.0 1.0 CH2 H:TRP47 4.9 39.2 1.0 OH L:TYR98 4.9 48.5 1.0 CD1 H:ILE50 4.9 38.5 1.0

W.Dejnirattisai, D.Zhou, H.M.Ginn, H.M.Duyvesteyn, P.Supasa, J.B.Case, Y.Zhao, T.S.Walter, A.J.Mentzer, C.Liu, B.Wang, G.C.Paesen, J.Slon-Campos, C.Lopez-Camacho, N.M.Kafai, A.L.Bailey, R.E.Chen, B.Ying, C.Thompson, J.Bolton, A.Fyfe, S.Gupta, T.K.Tan, J.Gilbert-Jaramillo, W.James, M.Knight, M.W.Carroll, D.Skelly, C.Dold, Y.Peng, R.Levin, T.Dong, A.J.Pollard, J.C.Knight, P.Klenerman, N.Temperton, D.R.Hall, M.A.Williams, N.G.Paterson, F.K.Bertram, C.A.Seibert, D.K.Clare, A.Howe, J.Raedecke, Y.Song, A.R.Townsend, K.Y.A.Huang, E.E.Fry, J.Mongkolsapaya, M.S.Diamond, J.Ren, D.I.Stuart, G.R.Screaton. The Antigenic Anatomy of Sars-Cov-2 Receptor Binding Domain Cell(Cambridge,Mass.) 2021.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2021.02.032