Zinc in PDB 8g6r: Porcine Epidemic Diarrhea Virus Core Polymerase Complex

The binding sites of Zinc atom in the Porcine Epidemic Diarrhea Virus Core Polymerase Complex (pdb code 8g6r). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Porcine Epidemic Diarrhea Virus Core Polymerase Complex, PDB code: 8g6r:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Porcine Epidemic Diarrhea Virus Core Polymerase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Porcine Epidemic Diarrhea Virus Core Polymerase Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:127.4 occ:1.00 ND1 A:HIS290 2.0 97.8 1.0 SG A:CYS305 2.3 91.7 1.0 SG A:CYS296 2.3 104.0 1.0 SG A:CYS301 2.3 97.5 1.0 CE1 A:HIS290 2.8 97.8 1.0 CG A:HIS290 3.1 97.8 1.0 CB A:CYS305 3.5 91.7 1.0 O A:CYS301 3.5 97.5 1.0 CB A:CYS296 3.5 104.0 1.0 CB A:HIS290 3.6 97.8 1.0 CB A:CYS301 3.8 97.5 1.0 NE2 A:HIS290 3.9 97.8 1.0 C A:CYS301 3.9 97.5 1.0 CA A:CYS296 4.0 104.0 1.0 CD2 A:HIS290 4.0 97.8 1.0 CA A:CYS301 4.4 97.5 1.0 N A:HIS290 4.5 97.8 1.0 N A:ILE302 4.6 93.9 1.0 N A:CYS296 4.7 104.0 1.0 CA A:HIS290 4.7 97.8 1.0 CA A:CYS305 4.7 91.7 1.0 N A:CYS305 4.8 91.7 1.0 CA A:ILE302 4.9 93.9 1.0 ND1 A:HIS304 5.0 91.4 1.0

Zinc binding site 2 out of 2 in the Porcine Epidemic Diarrhea Virus Core Polymerase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Porcine Epidemic Diarrhea Virus Core Polymerase Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:122.9 occ:1.00 ND1 A:HIS637 2.0 105.8 1.0 SG A:CYS641 2.3 111.4 1.0 SG A:CYS482 2.3 111.2 1.0 SG A:CYS640 2.3 110.1 1.0 CE1 A:HIS637 2.9 105.8 1.0 CG A:HIS637 3.0 105.8 1.0 CB A:CYS640 3.3 110.1 1.0 CB A:HIS637 3.4 105.8 1.0 CB A:CYS641 3.5 111.4 1.0 CB A:CYS482 3.8 111.2 1.0 N A:CYS641 3.9 111.4 1.0 NE2 A:HIS637 4.0 105.8 1.0 C A:CYS640 4.0 110.1 1.0 CD2 A:HIS637 4.1 105.8 1.0 N A:CYS482 4.2 111.2 1.0 CE1 A:TYR566 4.2 108.0 1.0 CA A:CYS640 4.2 110.1 1.0 CA A:CYS641 4.3 111.4 1.0 CA A:HIS637 4.4 105.8 1.0 CD1 A:TYR566 4.4 108.0 1.0 CA A:CYS482 4.5 111.2 1.0 O A:CYS640 4.5 110.1 1.0 OH A:TYR523 4.7 116.2 1.0 C A:GLY481 4.9 102.5 1.0 N A:CYS640 4.9 110.1 1.0 O A:HIS637 5.0 105.8 1.0

T.K.Anderson, P.J.Hoferle, K.W.Lee, J.J.Coon, R.N.Kirchdoerfer. An Alphacoronavirus Polymerase Structure Reveals Conserved Co-Factor Functions Biorxiv 2023.
ISSN: ISSN 2692-8205
DOI: 10.1101/2023.03.15.532841