Manganese in PDB 7el9: Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex)

All present enzymatic activity of Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex):
2.7.7.48;

The structure of Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex) also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Manganese atom in the Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex) (pdb code 7el9). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex), PDB code: 7el9:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn2301 b:53.2 occ:1.00 OE1 A:GLU1381 2.2 40.1 1.0 OD1 A:ASP1188 2.3 46.8 1.0 OD2 A:ASP1330 2.6 49.5 1.0 CB A:ASP1330 3.1 49.5 1.0 CD A:GLU1381 3.1 40.1 1.0 CG A:ASP1330 3.3 49.5 1.0 OE2 A:GLU1381 3.4 40.1 1.0 CG A:ASP1188 3.4 46.8 1.0 O A:TYR1187 3.7 45.2 1.0 OD2 A:ASP1188 3.8 46.8 1.0 O A:GLU1381 3.9 40.1 1.0 O A:GLN1331 4.3 45.0 1.0 C A:TYR1187 4.3 45.2 1.0 CA A:ASP1330 4.4 49.5 1.0 C A:GLU1381 4.5 40.1 1.0 OD1 A:ASP1330 4.5 49.5 1.0 CG A:GLU1381 4.5 40.1 1.0 CB A:SER1186 4.6 40.4 1.0 N A:GLN1331 4.6 45.0 1.0 C A:SER1186 4.6 40.4 1.0 CA A:PHE1382 4.6 41.2 1.0 CB A:ASP1188 4.7 46.8 1.0 N A:TYR1187 4.7 45.2 1.0 C A:ASP1330 4.7 49.5 1.0 N A:ASP1188 4.7 46.8 1.0 CA A:ASP1188 4.8 46.8 1.0 N A:PHE1382 4.9 41.2 1.0 CB A:GLU1381 4.9 40.1 1.0 O A:SER1186 4.9 40.4 1.0 CA A:SER1186 4.9 40.4 1.0 N A:LYS1383 5.0 43.6 1.0

Manganese binding site 2 out of 2 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of Machupo Virus L Polymerase in Complex with Z Protein and 3'-Vrna (Dimeric Complex) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn2301 b:53.1 occ:1.00 OE1 D:GLU1381 2.2 40.0 1.0 OD1 D:ASP1188 2.3 46.8 1.0 OD2 D:ASP1330 2.6 49.4 1.0 CB D:ASP1330 3.1 49.4 1.0 CD D:GLU1381 3.1 40.0 1.0 CG D:ASP1330 3.3 49.4 1.0 OE2 D:GLU1381 3.4 40.0 1.0 CG D:ASP1188 3.4 46.8 1.0 O D:TYR1187 3.7 45.4 1.0 OD2 D:ASP1188 3.8 46.8 1.0 O D:GLU1381 3.9 40.0 1.0 O D:GLN1331 4.3 44.9 1.0 C D:TYR1187 4.3 45.4 1.0 CA D:ASP1330 4.4 49.4 1.0 C D:GLU1381 4.5 40.0 1.0 OD1 D:ASP1330 4.5 49.4 1.0 CG D:GLU1381 4.5 40.0 1.0 CB D:SER1186 4.6 40.6 1.0 N D:GLN1331 4.6 44.9 1.0 C D:SER1186 4.6 40.6 1.0 CA D:PHE1382 4.6 41.0 1.0 CB D:ASP1188 4.7 46.8 1.0 N D:TYR1187 4.7 45.4 1.0 C D:ASP1330 4.7 49.4 1.0 N D:ASP1188 4.7 46.8 1.0 CA D:ASP1188 4.8 46.8 1.0 N D:PHE1382 4.9 41.0 1.0 CB D:GLU1381 4.9 40.0 1.0 O D:SER1186 4.9 40.6 1.0 CA D:SER1186 4.9 40.6 1.0 N D:LYS1383 5.0 43.6 1.0

R.Peng, X.Xu, Q.Peng, Y.Shi. Cryo-Em Structures of Lassa and Machupo Virus Polymerases Complexed with Cognate Regulatory Z Proteins Identify Targets For Antivirals. Nat Microbiol 2021.
ISSN: ESSN 2058-5276