Chlorine in PDB 7nx8: Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs

The structure of Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs, PDB code: 7nx8 was solved by D.Zhou, J.Ren, D.Stuart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	80.62 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	54.843, 122.727, 213.859, 90, 90, 90
R / Rfree (%)	22.3 / 24.6

The binding sites of Chlorine atom in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs (pdb code 7nx8). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs, PDB code: 7nx8:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


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 K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1207 b:69.9 occ:1.00 NH2 A:ARG38 2.9 30.2 1.0 O A:SER62 3.3 33.3 1.0 NH2 A:ARG66 3.4 38.6 1.0 OD1 A:ASP89 3.5 31.5 1.0 OE1 A:GLU88 3.7 89.1 1.0 CB A:SER62 3.7 39.8 1.0 CZ A:ARG38 3.9 43.3 1.0 CB A:GLU88 3.9 52.2 1.0 C A:SER62 4.0 50.4 1.0 NH1 A:ARG38 4.1 36.7 1.0 O A:HOH1401 4.2 36.4 1.0 OG A:SER62 4.3 31.8 1.0 CA A:SER62 4.4 44.9 1.0 O A:HOH1323 4.5 43.3 1.0 CG A:ASP89 4.5 49.1 1.0 O A:GLU88 4.5 35.8 1.0 C A:GLU88 4.6 50.5 1.0 CZ A:ARG66 4.6 43.7 1.0 CD A:GLU88 4.6 99.4 1.0 CG1 A:VAL63 4.7 37.6 1.0 CG A:GLU88 4.9 80.9 1.0 CA A:GLU88 4.9 50.2 1.0 N A:ASP89 5.0 34.5 1.0 OD2 A:ASP89 5.0 35.2 1.0

Chlorine binding site 2 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


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 K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1208 b:37.2 occ:1.00 OH A:TYR151 2.8 27.5 1.0 N A:VAL156 3.2 31.1 1.0 CA A:PRO155 3.5 35.5 1.0 CB A:ALA174 3.6 43.0 1.0 CG A:GLU154 3.6 42.5 1.0 CZ A:TYR151 3.7 39.6 1.0 CE1 A:TYR151 3.7 35.1 1.0 C A:PRO155 3.8 40.3 1.0 CD2 A:LEU184 3.8 43.8 1.0 CG2 A:VAL156 3.9 53.5 1.0 CB A:GLU154 4.0 39.9 1.0 CB A:PRO155 4.0 32.5 1.0 O A:VAL156 4.2 33.3 1.0 CD A:GLU154 4.2 48.0 1.0 CA A:GLU154 4.3 41.6 1.0 OE2 A:GLU154 4.3 59.6 1.0 CA A:VAL156 4.3 40.9 1.0 CB A:VAL156 4.6 46.2 1.0 N A:PRO155 4.7 33.1 1.0 C A:VAL156 4.7 45.5 1.0 CA A:ALA174 4.8 47.8 1.0 O A:HOH1375 4.9 35.7 1.0 CG1 A:VAL156 4.9 49.1 1.0 N A:ALA174 4.9 30.0 1.0 O A:PRO155 5.0 27.3 1.0 CE2 A:TYR151 5.0 34.4 1.0

Chlorine binding site 3 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


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 K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1209 b:60.2 occ:1.00 O A:LYS64 3.0 35.4 1.0 NE A:ARG66 3.1 36.6 1.0 O A:SER62 3.2 33.3 1.0 C A:SER62 3.6 50.4 1.0 CD A:ARG66 3.7 43.4 1.0 C A:VAL63 3.7 47.0 1.0 N A:LYS64 3.7 40.5 1.0 CA A:VAL63 3.7 45.5 1.0 CG A:ARG66 3.8 44.9 1.0 N A:VAL63 3.9 37.8 1.0 C A:LYS64 4.0 39.0 1.0 O A:ASP61 4.0 34.5 1.0 CZ A:ARG66 4.1 43.7 1.0 NH2 A:ARG66 4.2 38.6 1.0 O A:VAL63 4.2 37.0 1.0 CA A:LYS64 4.5 47.0 1.0 CB A:ARG66 4.5 41.5 1.0 CA A:SER62 4.6 44.9 1.0 N A:ARG66 4.9 35.4 1.0

Chlorine binding site 4 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


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 K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl301 b:54.3 occ:1.00 O3 B:SO4305 3.0 47.6 1.0 O2 B:SO4305 3.1 57.7 1.0 OG B:SER32 3.1 35.0 1.0 N B:SER32 3.4 35.7 1.0 CB B:SER32 3.5 36.8 1.0 S B:SO4305 3.6 75.6 1.0 CB B:PRO30 3.7 47.2 1.0 N B:SER31 3.7 35.0 1.0 OH E:TYR449 3.7 68.4 1.0 OG B:SER31 3.9 39.4 1.0 CA B:SER32 4.1 45.7 1.0 C B:PRO30 4.1 40.9 1.0 O E:GLY496 4.1 68.1 1.0 CA B:PRO30 4.1 42.5 1.0 CE2 E:TYR449 4.2 47.5 1.0 C B:SER31 4.4 36.5 1.0 O1 B:SO4305 4.4 80.8 1.0 CZ E:TYR449 4.4 61.4 1.0 CA B:SER31 4.5 43.8 1.0 CA E:GLY496 4.6 67.4 1.0 C E:GLY496 4.8 63.5 1.0 O4 B:SO4305 4.8 57.5 1.0 CB B:SER31 4.8 42.5 1.0 O B:PRO30 4.9 30.8 1.0 O E:TYR495 4.9 43.1 1.0

Chlorine binding site 5 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


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 K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl302 b:64.8 occ:1.00 N B:ALA44 3.2 38.7 1.0 CB B:ALA44 3.5 44.0 1.0 CA B:ALA44 4.0 36.9 1.0 CA B:GLN43 4.1 45.9 1.0 C B:GLN43 4.2 48.1 1.0 CA A:GLN111 4.2 41.9 1.0 CB B:GLN43 4.3 47.1 1.0 CB A:GLN111 4.6 46.8 1.0 O A:GLY110 4.6 33.2 1.0 O B:ALA44 4.7 28.9 1.0 O A:GLN111 4.8 29.6 1.0 CG B:GLN43 4.8 47.2 1.0 C B:ALA44 4.8 37.9 1.0 O B:HOH472 4.9 46.5 1.0 C A:GLN111 5.0 40.8 1.0 N A:GLN111 5.0 34.9 1.0

Chlorine binding site 6 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl303 b:59.5 occ:1.00 N B:SER26 2.7 50.0 1.0 O B:VAL3 2.9 51.3 1.0 CB B:SER26 3.4 54.0 1.0 CA B:SER26 3.4 52.9 1.0 C B:ALA25 3.6 56.7 1.0 N B:GLN27 3.7 46.4 1.0 CA B:ALA25 3.7 49.9 1.0 CB B:ALA25 3.7 48.4 1.0 OG B:SER26 3.8 61.0 1.0 O B:HOH408 3.9 35.9 1.0 CG1 B:VAL2 4.0 61.2 1.0 N B:VAL3 4.0 40.4 1.0 C B:SER26 4.0 55.6 1.0 C B:VAL3 4.0 52.3 1.0 CA B:VAL3 4.4 47.7 1.0 NE2 B:GLN27 4.4 73.5 1.0 CB B:VAL3 4.6 54.7 1.0 CG B:GLN27 4.6 73.2 1.0 C B:VAL2 4.8 59.4 1.0 O B:ALA25 4.8 42.2 1.0 CA B:GLN27 4.8 56.9 1.0 CB B:GLN27 4.9 64.2 1.0 CA B:VAL2 4.9 58.1 1.0 CD B:GLN27 5.0 86.6 1.0

Chlorine binding site 7 out of 7 in the Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of the K417T Mutant Receptor Binding Domain of Sars- Cov-2 Spike Glycoprotein in Complex with Covox-222 and EY6A Fabs within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl304 b:58.3 occ:1.00 N B:ARG142 3.2 43.9 1.0 OH B:TYR173 3.2 45.4 1.0 CB B:PRO141 3.5 48.1 1.0 CE1 B:TYR173 3.6 48.2 1.0 CB B:ARG142 3.8 51.8 1.0 CZ B:TYR173 3.8 51.4 1.0 CA B:PRO141 3.8 44.1 1.0 C B:PRO141 4.0 47.6 1.0 CA B:ARG142 4.1 50.0 1.0 O B:HOH489 4.1 44.0 1.0 CE2 B:TYR140 4.1 47.5 1.0 CZ B:TYR140 4.2 43.2 1.0 OH B:TYR140 4.3 43.1 1.0 O B:HOH438 4.3 41.1 1.0 CD2 B:TYR140 4.7 44.6 1.0 CD1 B:TYR173 4.8 44.2 1.0 CE1 B:TYR140 4.8 49.7 1.0 CG B:PRO141 4.9 56.9 1.0 CE2 B:TYR173 4.9 53.4 1.0 CZ B:ARG142 5.0 71.9 1.0

W.Dejnirattisai, D.Zhou, P.Supasa, C.Liu, A.J.Mentzer, H.M.Ginn, Y.Zhao, H.M.Duyvesteyn, A.Tuekprakhon, R.Nutalai, B.Wang, G.C.Paesen, C.Lopez-Camacho, J.Slon-Campos, T.S.Walter, D.Skelly, F.G.Naveca, V.Nascimento, F.Nascimento, P.C.Resende, A.Pauvolid-Correa, M.M.Siqueira, C.Dold, R.Levin, T.Dong, A.J.Pollard, J.C.Knight, D.Crook, T.Lambe, E.Clutterbuck, S.Bibi, A.Flaxman, M.Bittaye, S.Belij-Rammerstorfer, S.Gilbert, M.W.Carroll, P.Klenerman, E.Barnes, S.J.Dunachie, N.G.Paterson, M.A.Williams, D.R.Hall, R.J.Hulswit, T.A.Bowden, E.E.Fry, J.Mongkolsapaya, J.Ren, D.I.Stuart, G.R.Screaton. Antibody Evasion By the P.1 Strain of Sars-Cov-2 Cell(Cambridge,Mass.) 2021.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2021.03.055