Zinc in PDB 7d4f: Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Suramin

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

The binding sites of Zinc atom in the Structure of Covid-19 Rna-Dependent Rna Polymerase Bound to Suramin (pdb code 7d4f). 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 Suramin, PDB code: 7d4f:
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 Suramin


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 Suramin within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:62.2 occ:1.00 ND1 A:HIS295 2.3 39.5 1.0 SG A:CYS310 2.4 37.3 1.0 SG A:CYS306 2.4 41.2 1.0 SG A:CYS301 2.4 43.6 1.0 CE1 A:HIS295 3.2 39.5 1.0 O A:CYS306 3.2 41.2 1.0 CG A:HIS295 3.4 39.5 1.0 CB A:CYS310 3.4 37.3 1.0 CB A:CYS301 3.5 43.6 1.0 CB A:HIS295 3.7 39.5 1.0 CB A:CYS306 3.8 41.2 1.0 C A:CYS306 3.8 41.2 1.0 CA A:CYS301 3.8 43.6 1.0 N A:HIS295 4.1 39.5 1.0 CA A:CYS306 4.2 41.2 1.0 NE2 A:HIS295 4.4 39.5 1.0 CD2 A:HIS295 4.5 39.5 1.0 O A:THR293 4.5 41.5 1.0 CA A:HIS295 4.5 39.5 1.0 N A:ILE307 4.6 38.6 1.0 N A:CYS301 4.7 43.6 1.0 CA A:CYS310 4.7 37.3 1.0 N A:CYS310 4.8 37.3 1.0 O A:HIS295 4.8 39.5 1.0 N A:LEU302 4.9 44.3 1.0 O A:ASN300 4.9 42.1 1.0 ND1 A:HIS309 4.9 36.4 1.0 C A:CYS301 4.9 43.6 1.0

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


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 Suramin within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:61.8 occ:1.00 CD2 A:HIS642 2.3 44.5 1.0 SG A:CYS645 2.4 50.4 1.0 SG A:CYS646 2.4 49.4 1.0 SG A:CYS487 2.4 46.1 1.0 CG A:HIS642 3.2 44.5 1.0 CB A:CYS646 3.4 49.4 1.0 NE2 A:HIS642 3.4 44.5 1.0 CB A:CYS487 3.4 46.1 1.0 CB A:CYS645 3.5 50.4 1.0 CB A:HIS642 3.6 44.5 1.0 N A:CYS646 3.7 49.4 1.0 C A:CYS645 3.8 50.4 1.0 N A:CYS487 3.8 46.1 1.0 CA A:CYS646 4.1 49.4 1.0 O A:CYS645 4.1 50.4 1.0 CE1 A:PHE571 4.1 41.6 1.0 CA A:CYS487 4.2 46.1 1.0 CA A:CYS645 4.2 50.4 1.0 CA A:HIS642 4.4 44.5 1.0 ND1 A:HIS642 4.4 44.5 1.0 CE1 A:HIS642 4.5 44.5 1.0 CD1 A:PHE571 4.5 41.6 1.0 O A:HIS642 4.6 44.5 1.0 NZ A:LYS532 4.6 44.7 1.0 C A:GLY486 4.7 43.5 1.0 N A:CYS645 4.8 50.4 1.0 CE A:LYS532 4.8 44.7 1.0 C A:HIS642 4.9 44.5 1.0 CA A:GLY486 5.0 43.5 1.0 CZ A:PHE571 5.0 41.6 1.0

W.Yin, X.Luan, Z.Li, L.Zhang, Z.Zhou, M.Gao, X.Wang, F.Zhou, Q.Wang, Q.Wang, Y.Jiang, H.Jiang, G.Xiao, X.Yu, S.Zhang, H.Xu. Structural Basis For Repurposing A 100-Years-Old Drug Suramin For Treating Covid-19 To Be Published.