Magnesium in PDB 7doi: Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.

All present enzymatic activity of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.:
2.7.7.48;

The structure of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. (pdb code 7doi). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir., PDB code: 7doi:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1004 b:62.0 occ:1.00 O A:TYR619 3.4 33.1 1.0 O5 P:HCU1201 3.4 0.5 1.0 O A:POP1003 3.5 71.2 1.0 O P:HOH1302 3.5 46.6 1.0 O4 A:POP1003 3.8 71.2 1.0 C9 P:HCU1201 3.8 0.5 1.0 OD2 A:ASP760 3.9 33.4 1.0 CB A:CYS622 4.0 37.2 1.0 O1 A:POP1003 4.2 71.2 1.0 OD1 A:ASP760 4.3 33.4 1.0 O3 P:HCU1201 4.3 0.5 1.0 P2 A:POP1003 4.3 71.2 1.0 CG A:ASP760 4.4 33.4 1.0 O P:HOH1301 4.4 48.2 1.0 P1 P:HCU1201 4.5 0.5 1.0 O A:HOH1101 4.5 30.0 1.0 OD1 A:ASP618 4.5 38.0 1.0 C A:TYR619 4.6 33.1 1.0 P1 A:POP1003 4.6 71.2 1.0 N A:CYS622 4.6 37.2 1.0 CB A:TYR619 4.9 33.1 1.0 N A:TYR619 5.0 33.1 1.0

Magnesium binding site 2 out of 4 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1005 b:34.0 occ:1.00 OD2 A:ASP761 2.7 28.6 1.0 OE2 A:GLU811 3.3 33.4 1.0 N A:SER814 3.5 32.0 1.0 CG A:ASP761 3.6 28.6 1.0 OP1 P:U20 3.6 46.3 1.0 OD1 A:ASP761 3.7 28.6 1.0 O P:HOH1301 3.7 48.2 1.0 N A:CYS813 3.8 33.1 1.0 CA A:CYS813 4.1 33.1 1.0 CG A:GLU811 4.1 33.4 1.0 CD A:GLU811 4.2 33.4 1.0 CA A:SER814 4.2 32.0 1.0 C A:CYS813 4.2 33.1 1.0 CB A:SER814 4.7 32.0 1.0 C A:PHE812 4.7 29.0 1.0 CA A:PHE812 4.9 29.0 1.0 CB A:ASP761 5.0 28.6 1.0

Magnesium binding site 3 out of 4 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1006 b:30.0 occ:1.00 OD2 A:ASP218 2.0 40.9 1.0 O4 A:POP1008 2.1 50.1 1.0 CG A:ASP218 3.0 40.9 1.0 P2 A:POP1008 3.0 50.1 1.0 O6 A:POP1008 3.1 50.1 1.0 OD1 A:ASP218 3.2 40.9 1.0 O2 A:POP1008 4.1 50.1 1.0 O5 A:POP1008 4.1 50.1 1.0 O A:POP1008 4.2 50.1 1.0 MG A:MG1007 4.2 30.0 1.0 CB A:ASP218 4.3 40.9 1.0 NZ A:LYS73 4.6 57.4 1.0 N A:GLY220 4.7 46.9 1.0 CA A:GLY220 4.7 46.9 1.0 P1 A:POP1008 4.9 50.1 1.0 OD2 A:ASP221 5.0 49.3 1.0

Magnesium binding site 4 out of 4 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Penciclovir. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1007 b:30.0 occ:1.00 OD1 A:ASN209 2.1 32.2 1.0 O6 A:POP1008 2.2 50.1 1.0 O2 A:POP1008 2.5 50.1 1.0 CG A:ASN209 3.3 32.2 1.0 OD2 A:ASP218 3.3 40.9 1.0 P1 A:POP1008 3.5 50.1 1.0 O3 A:POP1008 3.6 50.1 1.0 P2 A:POP1008 3.6 50.1 1.0 ND2 A:ASN209 3.8 32.2 1.0 OD2 A:ASP208 3.9 31.7 1.0 CG A:ASP218 4.0 40.9 1.0 O A:POP1008 4.0 50.1 1.0 MG A:MG1006 4.2 30.0 1.0 CB A:ASP218 4.2 40.9 1.0 O A:ASP208 4.2 31.7 1.0 CG A:ASP208 4.3 31.7 1.0 O4 A:POP1008 4.4 50.1 1.0 CB A:ASN209 4.5 32.2 1.0 C A:ASP208 4.6 31.7 1.0 CA A:ASN209 4.6 32.2 1.0 O5 A:POP1008 4.7 50.1 1.0 OD1 A:ASP208 4.7 31.7 1.0 N A:ASN209 4.8 32.2 1.0 O1 A:POP1008 4.8 50.1 1.0 OD1 A:ASP218 5.0 40.9 1.0 CB A:ASP208 5.0 31.7 1.0

W.Yin, X.Luan, Z.Li, Y.Xie, Z.Zhou, J.Liu, M.Gao, X.Wang, F.Zhou, Q.Wang, Q.Wang, D.Shen, Y.Zhang, G.Tian, H.Aisa, D.Wei, Y.Jiang, G.Xiao, H.Jiang, L.Zhang, X.Yu, J.Shen, S.Zhang, H.Xu. Structural Basis For Repurpose and Design of Nucleotide Drugs For Treating Covid-19 To Be Published.