Zinc in PDB 7dfg: Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Favipiravir

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

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

Fluorine	(F)	1 atom
Magnesium	(Mg)	4 atoms

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

Zinc binding site 1 out of 2 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Favipiravir


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Favipiravir within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:47.7 occ:1.00 ND1 A:HIS295 2.3 24.6 1.0 SG A:CYS306 2.4 26.3 1.0 SG A:CYS310 2.4 25.3 1.0 SG A:CYS301 2.4 27.6 1.0 O A:CYS306 3.1 26.3 1.0 CE1 A:HIS295 3.2 24.6 1.0 CB A:CYS310 3.4 25.3 1.0 CG A:HIS295 3.5 24.6 1.0 CB A:CYS306 3.6 26.3 1.0 CB A:CYS301 3.6 27.6 1.0 C A:CYS306 3.6 26.3 1.0 CB A:HIS295 3.9 24.6 1.0 CA A:CYS301 4.0 27.6 1.0 CA A:CYS306 4.0 26.3 1.0 N A:HIS295 4.2 24.6 1.0 NE2 A:HIS295 4.3 24.6 1.0 CD2 A:HIS295 4.5 24.6 1.0 N A:ILE307 4.5 24.1 1.0 CA A:HIS295 4.6 24.6 1.0 CA A:CYS310 4.6 25.3 1.0 N A:CYS310 4.7 25.3 1.0 O A:THR293 4.7 27.1 1.0 ND1 A:HIS309 4.7 23.8 1.0 N A:CYS301 4.8 27.6 1.0 O A:HIS295 4.9 24.6 1.0 N A:LEU302 5.0 29.5 1.0

Zinc binding site 2 out of 2 in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Favipiravir


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Favipiravir within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:50.2 occ:1.00 CD2 A:HIS642 2.3 29.8 1.0 SG A:CYS645 2.4 36.9 1.0 SG A:CYS487 2.4 32.7 1.0 SG A:CYS646 2.4 34.3 1.0 CG A:HIS642 3.2 29.8 1.0 CB A:CYS487 3.3 32.7 1.0 NE2 A:HIS642 3.4 29.8 1.0 CB A:CYS645 3.5 36.9 1.0 CB A:HIS642 3.5 29.8 1.0 CB A:CYS646 3.5 34.3 1.0 N A:CYS487 3.7 32.7 1.0 N A:CYS646 3.9 34.3 1.0 CA A:CYS487 4.0 32.7 1.0 CE1 A:PHE571 4.0 28.3 1.0 C A:CYS645 4.2 36.9 1.0 CA A:CYS646 4.2 34.3 1.0 NZ A:LYS532 4.2 27.8 1.0 ND1 A:HIS642 4.4 29.8 1.0 CA A:HIS642 4.4 29.8 1.0 CA A:CYS645 4.4 36.9 1.0 CE1 A:HIS642 4.5 29.8 1.0 CD1 A:PHE571 4.5 28.3 1.0 C A:GLY486 4.5 28.4 1.0 O A:HIS642 4.7 29.8 1.0 O A:CYS645 4.7 36.9 1.0 CE A:LYS532 4.7 27.8 1.0 CA A:GLY486 4.8 28.4 1.0 CZ A:PHE571 4.9 28.3 1.0 N A:CYS645 5.0 36.9 1.0 C A:HIS642 5.0 29.8 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.