Manganese in PDB 7thm: Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9

All present enzymatic activity of Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9:
2.7.7.48;

The structure of Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9 also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Manganese atom in the Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9 (pdb code 7thm). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9, PDB code: 7thm:

Manganese binding site 1 out of 1 in the Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Sars-Cov-2 NSP12/7/8 Complex with A Native N-Terminus NSP9 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1003 b:77.8 occ:1.00 OD2 A:ASP218 1.7 64.7 1.0 OD1 A:ASN209 2.1 57.4 1.0 O5 A:POP1004 2.4 77.1 1.0 CG A:ASP218 2.9 64.7 1.0 OD1 A:ASP208 3.2 53.9 1.0 CG A:ASN209 3.2 57.4 1.0 HB2 A:ASP218 3.3 64.7 1.0 CB A:ASP218 3.5 64.7 1.0 HB3 A:ASP218 3.5 64.7 1.0 HD21 A:ASN209 3.5 57.4 1.0 P2 A:POP1004 3.5 77.1 1.0 O2 A:POP1004 3.6 77.1 1.0 HE1 A:PHE35 3.7 55.0 1.0 HE2 A:TYR217 3.8 59.5 1.0 ND2 A:ASN209 3.8 57.4 1.0 O A:POP1004 3.8 77.1 1.0 OD1 A:ASP218 3.9 64.7 1.0 O6 A:POP1004 4.0 77.1 1.0 O A:ASP208 4.1 53.9 1.0 HA A:ASN209 4.2 57.4 1.0 P1 A:POP1004 4.3 77.1 1.0 CE2 A:TYR217 4.4 59.5 1.0 CG A:ASP208 4.4 53.9 1.0 CB A:ASN209 4.5 57.4 1.0 CE1 A:PHE35 4.6 55.0 1.0 HD22 A:ASN209 4.6 57.4 1.0 HH22 A:ARG116 4.6 69.9 1.0 HD2 A:TYR217 4.7 59.5 1.0 HH A:TYR217 4.7 59.5 1.0 CA A:ASN209 4.7 57.4 1.0 C A:ASP208 4.8 53.9 1.0 HB3 A:ASN209 4.8 57.4 1.0 O4 A:POP1004 4.8 77.1 1.0 HD1 A:PHE35 4.9 55.0 1.0 O1 A:POP1004 4.9 77.1 1.0 CD2 A:TYR217 4.9 59.5 1.0 CA A:ASP218 5.0 64.7 1.0

V.Tagliabracci, G.Park, A.Osinski, G.Hernandez, J.Eitson, A.Majumdar, M.Tonelli, K.Henzler-Wildman, K.Pawlowski, Z.Chen, Y.Li, J.Schoggins. The Mechanism of Rna Capping By Sars-Cov-2. Res Sq 2022.
ISSN: ESSN 2693-5015
PubMed: 35194601
DOI: 10.21203/RS.3.RS-1336910/V1