Zinc in PDB 9cpo: Infectious Bronchitis Virus Core Polymerase Complex

All present enzymatic activity of Infectious Bronchitis Virus Core Polymerase Complex:
2.7.7.48; 2.7.7.50;

The binding sites of Zinc atom in the Infectious Bronchitis Virus Core Polymerase Complex (pdb code 9cpo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Infectious Bronchitis Virus Core Polymerase Complex, PDB code: 9cpo:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Infectious Bronchitis 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 Infectious Bronchitis Virus Core Polymerase Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:105.8 occ:1.00 ND1 A:HIS304 2.1 47.8 1.0 HG A:CYS319 2.2 51.1 1.0 SG A:CYS319 2.3 51.1 1.0 SG A:CYS310 2.3 47.3 1.0 SG A:CYS315 2.3 45.2 1.0 HE1 A:HIS304 2.7 47.8 1.0 CE1 A:HIS304 2.7 47.8 1.0 HG A:CYS315 2.8 45.2 1.0 HG A:CYS310 3.1 47.3 1.0 HA A:CYS310 3.2 47.3 1.0 CG A:HIS304 3.4 47.8 1.0 O A:CYS315 3.4 45.2 1.0 HB2 A:CYS319 3.5 51.1 1.0 CB A:CYS310 3.5 47.3 1.0 HB2 A:HIS304 3.5 47.8 1.0 H A:HIS304 3.5 47.8 1.0 CB A:CYS319 3.6 51.1 1.0 HB3 A:CYS310 3.7 47.3 1.0 CA A:CYS310 3.8 47.3 1.0 CB A:CYS315 3.8 45.2 1.0 CB A:HIS304 4.0 47.8 1.0 C A:CYS315 4.0 45.2 1.0 NE2 A:HIS304 4.0 47.8 1.0 HB3 A:CYS315 4.0 45.2 1.0 HB3 A:CYS319 4.0 51.1 1.0 CD2 A:HIS304 4.3 47.8 1.0 N A:HIS304 4.3 47.8 1.0 HB2 A:CYS310 4.3 47.3 1.0 H A:CYS319 4.4 51.1 1.0 HA A:LEU316 4.4 47.1 1.0 CA A:CYS315 4.4 45.2 1.0 N A:CYS310 4.5 47.3 1.0 HB2 A:CYS315 4.5 45.2 1.0 H A:SER311 4.6 45.7 1.0 HA A:CYS315 4.6 45.2 1.0 H A:CYS310 4.7 47.3 1.0 HE2 A:HIS304 4.7 47.8 1.0 CA A:HIS304 4.7 47.8 1.0 N A:LEU316 4.8 47.1 1.0 HB3 A:HIS304 4.8 47.8 1.0 HA A:TYR303 4.8 45.9 1.0 O A:HIS304 4.8 47.8 1.0 CA A:CYS319 4.8 51.1 1.0 HA A:CYS307 4.8 46.2 1.0 N A:CYS319 4.9 51.1 1.0

Zinc binding site 2 out of 2 in the Infectious Bronchitis 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 Infectious Bronchitis Virus Core Polymerase Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:82.5 occ:1.00 ND1 A:HIS650 2.1 48.7 1.0 SG A:CYS496 2.3 50.8 1.0 SG A:CYS654 2.3 55.0 1.0 SG A:CYS653 2.3 59.2 1.0 CE1 A:HIS650 3.0 48.7 1.0 HG A:CYS496 3.0 50.8 1.0 HB3 A:HIS650 3.0 48.7 1.0 HE1 A:HIS650 3.1 48.7 1.0 HG A:CYS654 3.1 55.0 1.0 CG A:HIS650 3.2 48.7 1.0 HB2 A:CYS653 3.3 59.2 1.0 HG A:CYS653 3.3 59.2 1.0 HE1 A:PHE579 3.3 46.6 1.0 CB A:CYS653 3.4 59.2 1.0 HB2 A:CYS654 3.5 55.0 1.0 CB A:HIS650 3.6 48.7 1.0 CB A:CYS654 3.6 55.0 1.0 CB A:CYS496 3.8 50.8 1.0 HB2 A:CYS496 3.8 50.8 1.0 H A:CYS496 3.9 50.8 1.0 N A:CYS654 4.0 55.0 1.0 CE1 A:PHE579 4.1 46.6 1.0 H A:CYS654 4.1 55.0 1.0 NE2 A:HIS650 4.1 48.7 1.0 C A:CYS653 4.1 59.2 1.0 HB3 A:CYS653 4.1 59.2 1.0 HB2 A:HIS650 4.2 48.7 1.0 N A:CYS496 4.2 50.8 1.0 CD2 A:HIS650 4.2 48.7 1.0 HB3 A:CYS654 4.3 55.0 1.0 CA A:CYS653 4.4 59.2 1.0 CA A:CYS654 4.4 55.0 1.0 HA2 A:GLY495 4.4 46.5 1.0 HD1 A:PHE579 4.4 46.6 1.0 HB3 A:CYS496 4.5 50.8 1.0 HA A:HIS650 4.5 48.7 1.0 HE2 A:LYS540 4.5 47.0 1.0 CA A:CYS496 4.5 50.8 1.0 HZ2 A:LYS540 4.6 47.0 1.0 O A:CYS653 4.6 59.2 1.0 HZ3 A:LYS540 4.7 47.0 1.0 CD1 A:PHE579 4.7 46.6 1.0 CA A:HIS650 4.7 48.7 1.0 H A:CYS653 4.7 59.2 1.0 HA A:CYS496 4.8 50.8 1.0 HA A:CYS654 4.8 55.0 1.0 C A:GLY495 4.8 46.5 1.0 HE2 A:HIS650 4.9 48.7 1.0 HZ A:PHE579 5.0 46.6 1.0 CZ A:PHE579 5.0 46.6 1.0 N A:CYS653 5.0 59.2 1.0 NZ A:LYS540 5.0 47.0 1.0

P.J.Hoferle, T.K.Anderson, R.N.Kirchdoerfer. A Genus-Specific NSP12 Region Impacts Polymerase Assembly in Alpha- and Gammacoronaviruses Biorxiv 2024.
ISSN: ISSN 2692-8205
DOI: 10.1101/2024.07.23.604833