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Chlorine in PDB 7i18: Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group

Enzymatic activity of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group

All present enzymatic activity of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group:
3.4.22.69;

Protein crystallography data

The structure of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group, PDB code: 7i18 was solved by T.Barthel, L.S.Benz, J.Wollenhaupt, M.S.Weiss, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.89 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.05, 99.28, 103.5, 90, 90, 90
R / Rfree (%) 21 / 25.5

Other elements in 7i18:

The structure of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group also contains other interesting chemical elements:

Fluorine (F) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group (pdb code 7i18). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group, PDB code: 7i18:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 7i18

Go back to Chlorine Binding Sites List in 7i18
Chlorine binding site 1 out of 2 in the Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl503

b:29.6
occ:1.00
NE2 A:GLN110 3.2 26.5 1.0
N A:GLN107 3.2 27.8 1.0
CA A:ILE106 3.6 25.7 1.0
CG A:GLN110 3.8 25.4 1.0
CB A:ILE106 3.8 25.8 1.0
CB A:GLN110 3.9 25.3 1.0
C A:ILE106 3.9 24.6 1.0
CD A:GLN110 4.0 27.6 1.0
CG A:GLN107 4.0 31.7 1.0
CB A:GLN107 4.1 31.1 1.0
CG2 A:ILE106 4.1 26.9 1.0
CA A:GLN107 4.2 29.3 1.0
O A:GLN107 4.6 28.0 1.0
O A:ARG105 4.9 33.3 1.0
N A:ILE106 4.9 26.0 1.0
C A:GLN107 4.9 29.5 1.0

Chlorine binding site 2 out of 2 in 7i18

Go back to Chlorine Binding Sites List in 7i18
Chlorine binding site 2 out of 2 in the Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Pandda Analysis Group Deposition -- Main Protease (Sars-Cov-2) in Complex with Fragment D04 From the F2X-Entry Screen in Orthorhombic Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl504

b:48.1
occ:1.00
O A:ALA129 2.6 29.5 1.0
OE2 A:GLU290 3.0 29.1 1.0
N A:LYS137 3.1 29.4 1.0
N A:ALA129 3.2 27.0 1.0
OE1 A:GLU290 3.5 26.4 1.0
NH2 B:ARG4 3.5 36.4 1.0
C A:ALA129 3.5 26.8 1.0
CD A:GLU290 3.6 29.4 1.0
CB A:CYS128 3.6 28.6 0.1
CB A:CYS128 3.6 28.6 0.1
CA A:ILE136 3.7 25.5 1.0
CA A:ALA129 3.8 27.5 1.0
CD A:ARG131 3.9 27.9 1.0
C A:ILE136 3.9 26.0 1.0
C A:CYS128 4.0 27.5 0.1
C A:CYS128 4.0 27.5 0.1
CB A:CYS128 4.0 27.0 0.3
CB A:CYS128 4.0 27.0 0.3
CB A:ILE136 4.0 26.3 1.0
CA A:CYS128 4.0 28.0 0.1
CA A:CYS128 4.0 28.0 0.1
CA A:LYS137 4.0 30.7 1.0
CB A:LYS137 4.1 36.9 1.0
CA A:CYS128 4.1 26.7 0.3
CA A:CYS128 4.1 26.7 0.3
C A:CYS128 4.1 26.7 0.3
C A:CYS128 4.1 26.7 0.3
O A:LYS137 4.2 27.1 1.0
CB A:ALA129 4.2 27.4 1.0
CG A:ARG131 4.3 28.9 1.0
CG A:LYS137 4.3 40.9 1.0
SG A:CYS128 4.4 28.7 0.3
SG A:CYS128 4.4 28.7 0.3
C A:LYS137 4.4 30.2 1.0
CZ B:ARG4 4.7 42.6 1.0
N A:MET130 4.8 26.1 1.0
SG A:CYS128 4.8 30.6 0.1
SG A:CYS128 4.8 30.6 0.1
CG2 A:ILE136 4.8 25.9 1.0
O A:THR135 4.9 26.9 1.0
CG A:GLU290 4.9 27.2 1.0
N A:ILE136 5.0 24.4 1.0
N A:ARG131 5.0 25.0 1.0

Reference:

T.Barthel, J.Wollenhaupt, L.S.Benz, P.Reincke, L.Zhang, F.Lennartz, H.Tabermann, U.Mueller, A.Meente, R.Hilgenfeld, M.S.Weiss. Orthorhombic Sars-Cov-2 Main Protease Crystals Provide Higher Success Rate in Fragment Screening To Be Published.
Page generated: Sun Jul 13 02:53:59 2025

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