Chlorine in PDB 7bem: Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-269 Scfv

The structure of Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-269 Scfv, PDB code: 7bem 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)	47.05 / 2.52
Space group	P 62 2 2
Cell size a, b, c (Å), α, β, γ (°)	173.614, 173.614, 120.642, 90, 90, 120
R / Rfree (%)	21.7 / 24.7

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-269 Scfv (pdb code 7bem). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 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-269 Scfv, PDB code: 7bem:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-269 Scfv


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-269 Scfv within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl502 b:104.6 occ:1.00 N H:GLY65 3.1 87.6 1.0 O H:PHE67 3.1 66.9 1.0 CA H:GLY65 3.6 82.6 1.0 CE2 H:TYR59 4.1 67.3 1.0 CD2 H:TYR59 4.2 83.1 1.0 C H:LYS64 4.2 93.0 1.0 C H:GLY65 4.2 82.2 1.0 CZ H:TYR59 4.3 81.0 1.0 C H:PHE67 4.3 72.2 1.0 CA H:LYS64 4.4 84.5 1.0 CG H:TYR59 4.5 67.0 1.0 N H:ARG66 4.5 78.8 1.0 CE1 H:TYR59 4.5 80.2 1.0 CD1 H:TYR59 4.6 69.7 1.0 OG1 H:THR68 4.6 71.9 1.0 N H:PHE67 4.7 65.0 1.0 CG H:LYS64 4.8 102.0 1.0 O H:VAL63 4.8 80.3 1.0 OH H:TYR59 4.9 70.2 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of the Receptor Binding Domain of Sars-Cov-2 Spike Glycoprotein in Complex with Covox-269 Scfv


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-269 Scfv within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl806 b:106.7 occ:1.00 O E:HOH911 3.4 85.0 1.0 CE E:LYS378 3.6 123.4 1.0 N E:PHE377 3.7 113.7 1.0 CG E:LYS378 3.8 111.3 1.0 O E:PHE377 4.0 122.7 1.0 CA E:THR376 4.2 97.3 1.0 C E:PHE377 4.3 108.4 1.0 CD E:LYS378 4.3 114.7 1.0 O E:SER375 4.4 110.3 1.0 C E:THR376 4.5 103.9 1.0 CA E:PHE377 4.6 106.6 1.0 NZ E:LYS378 4.8 117.1 1.0 N E:LYS378 4.9 108.4 1.0 CG2 E:THR376 5.0 97.4 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