Chlorine in PDB 7amj: Structure of Sars-Cov-2 Main Protease Bound to Pd 168568.

All present enzymatic activity of Structure of Sars-Cov-2 Main Protease Bound to Pd 168568.:
2.7.7.48; 3.4.19.12; 3.4.22.69; 3.6.4.12; 3.6.4.13;

The structure of Structure of Sars-Cov-2 Main Protease Bound to Pd 168568., PDB code: 7amj was solved by S.Guenther, P.Reinke, D.Oberthuer, O.Yefanov, L.Gelisio, H.Ginn, J.Lieske, M.Domaracky, W.Brehm, A.Rahmani Mashour, T.A.White, J.Knoska, G.Penaesperanza, F.Koua, A.Tolstikova, M.Groessler, P.Fischer, V.Hennicke, H.Fleckenstein, F.Trost, M.Galchenkova, Y.Gevorkov, C.Li, S.Awel, L.X.Paulraj, N.Ullah, H.Andaleeb, N.Werner, S.Falke, W.Hinrichs, B.Alvesfranca, M.Schwinzer, H.Brognaro, M.Perbandt, H.Tidow, B.Seychell, T.Beck, S.Meier, J.J.Doyle, H.Giseler, D.Melo, I.Dunkel, T.J.Lane, A.Peck, S.Saouane, J.Hakanpaeae, J.Meyer, H.Noei, J.Boger, P.Gribbon, B.Ellinger, M.Kuzikov, M.Wolf, L.Zhang, C.Ehrt, J.Pletzer-Zelgert, J.Wollenhaupt, C.Feiler, M.Weiss, E.C.Schulz, P.Mehrabi, B.Norton-Baker, C.Schmidt, K.Lorenzen, R.Schubert, H.Han, A.Chari, Y.Fernandez Garcia, D.Turk, R.Hilgenfeld, M.Rarey, A.Zaliani, H.N.Chapman, A.Pearson, C.Betzel, A.Meents, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.92 / 1.59
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	112.682, 52.928, 44.714, 90.00, 102.89, 90.00
R / Rfree (%)	17.3 / 21

The binding sites of Chlorine atom in the Structure of Sars-Cov-2 Main Protease Bound to Pd 168568. (pdb code 7amj). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Structure of Sars-Cov-2 Main Protease Bound to Pd 168568., PDB code: 7amj:

Chlorine binding site 1 out of 1 in the Structure of Sars-Cov-2 Main Protease Bound to Pd 168568.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of Sars-Cov-2 Main Protease Bound to Pd 168568. within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl401 b:25.4 occ:0.50 H A:ALA285 2.2 27.7 1.0 HG A:LEU286 2.8 38.0 1.0 O A:HOH565 2.8 42.0 1.0 N A:ALA285 3.1 23.1 1.0 HB3 A:ALA285 3.2 32.4 1.0 H A:LEU286 3.2 22.9 1.0 HA A:SER284 3.3 26.4 1.0 OG A:SER284 3.4 20.2 0.5 HB3 A:SER284 3.6 24.2 0.5 CG A:LEU286 3.7 31.7 1.0 N A:LEU286 3.8 19.1 1.0 CA A:ALA285 3.8 23.4 1.0 CB A:ALA285 3.9 27.0 1.0 CA A:SER284 3.9 22.0 0.5 CA A:SER284 3.9 22.0 0.5 C A:SER284 4.0 23.3 1.0 HG A:SER284 4.0 24.2 0.5 C A:ALA285 4.1 24.1 1.0 HD21 A:LEU286 4.2 42.9 1.0 HD23 A:LEU286 4.2 42.9 1.0 CB A:SER284 4.2 20.2 0.5 CB A:SER284 4.2 20.2 0.5 HD12 A:LEU286 4.3 40.7 1.0 CD2 A:LEU286 4.3 35.8 1.0 HB2 A:ALA285 4.3 32.4 1.0 CD1 A:LEU286 4.4 33.9 1.0 HD11 A:LEU286 4.5 40.7 1.0 HB2 A:SER284 4.5 24.2 0.5 CB A:LEU286 4.6 30.3 1.0 OG A:SER284 4.6 20.1 0.5 HB3 A:LEU286 4.6 36.4 1.0 HB1 A:ALA285 4.7 32.4 1.0 HA A:ALA285 4.7 28.0 1.0 CA A:LEU286 4.8 24.0 1.0 OE2 A:GLU288 4.8 38.7 1.0 O A:HOH698 4.9 35.4 1.0

S.Guenther, P.Y.A., Reinke, Y., Fernandez-Garcia, J., Lieske, T.J., Lane, H.M., Ginn, F.H.M., Koua, C., Ehrt, W., Ewert, D., Oberthuer, O., Yefanov, S., Meier, K., Lorenzen, B., Krichel, J.D., Kopicki, L., Gelisio, W., Brehm, I., Dunkel, B., Seychell, H., Gieseler, B., Norton-Baker, B., Escudero-Perez, M., Domaracky, S., Saouane, A., Tolstikova, T.A., White, A., Hanle, M., Groessler, H., Fleckenstein, F., Trost, M., Galchenkova, Y., Gevorkov, C., Li, S., Awel, A.Peck, M., Barthelmess, F., Schluenzen, L.X., Paulraj, N., Werner, H., Andaleeb, N., Ullah, S., Falke, V., Srinivasan, B., Franca, M., Schwinzer, H., Brognaro, C., Rogers, D., Melo, J.J., Doyle, J., Knoska, G.E., Pena Murillo, A., Rahmani Mashhour, F., Guicking, V., Hennicke, P., Fischer, J., Hakanpaeae, J., Meyer, P., Gribbon, B., Ellinger, M., Kuzikov, M., Wolf, G., Burenkov, D., Von Stetten, G., Pompidor, I., Bento, S., Panneerselvam, I., Karpics, T.R., Schneider, M., Garcia Alai, S., Niebling, C., Guenther, C., Schmidt, R., Schubert, H., Han, J., Boger, D., Monteiro, L., Zhang, X., Sun, J., Pletzer-Zelgert, J., Wollenhaupt, C., Feiler, M., Weiss, E.C., Schulz, P., Mehrabi, K., Karnicar, A., Usenik, J., Loboda, H., Tidow, A., Chari, R., Hilgenfeld, C., Uetrecht, R., Cox, A., Zaliani, T., Beck, M., Rarey, S., Guenther, D., Turk, W., Hinrichs, H.N., Chapman, A., Pearson, C., Betzel, A.Meents. Inhibition of Sars-Cov-2 Main Protease By Allosteric Drug-Binding Biorxiv 2020.
DOI: 10.1101/2020.11.12.378422