Magnesium in PDB 8v1s: Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation

All present enzymatic activity of Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation:
2.7.7.7;

The binding sites of Magnesium atom in the Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation (pdb code 8v1s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation, PDB code: 8v1s:

Magnesium binding site 1 out of 1 in the Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Herpes Simplex Virus 1 Polymerase Holoenzyme Bound to Mismatched Dna in Editing Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1301 b:48.8 occ:1.00 OD2 A:ASP471 2.0 47.8 1.0 OD1 A:ASP471 2.0 45.8 1.0 CG A:ASP471 2.2 45.0 1.0 OD1 A:ASP368 2.5 46.1 1.0 O A:TYR465 2.6 47.6 1.0 CG A:ASP368 3.4 50.1 1.0 O3' P:DC-1 3.6 93.1 1.0 OD2 A:ASP368 3.7 50.5 1.0 CB A:ASP471 3.8 38.0 1.0 C A:TYR465 3.8 42.6 1.0 C4' P:DC-1 4.1 94.9 1.0 C3' P:DC-1 4.3 95.1 1.0 C A:ASN466 4.4 41.5 1.0 CB A:ASN466 4.5 49.4 1.0 O A:ASN466 4.5 45.2 1.0 N A:ASP471 4.5 48.3 1.0 CG2 A:ILE467 4.5 30.2 1.0 CD2 A:PHE470 4.6 52.0 1.0 CB A:ASP368 4.6 44.2 1.0 N A:ILE369 4.6 36.0 1.0 N A:ILE467 4.6 33.2 1.0 CA A:ASP471 4.6 44.3 1.0 N A:TYR465 4.7 38.3 1.0 CA A:ASP368 4.7 38.8 1.0 CA A:TYR465 4.7 42.9 1.0 N A:ASN466 4.7 43.0 1.0 CA A:ASN466 4.7 45.5 1.0 O4' P:DC-1 4.8 95.7 1.0 CA A:ILE467 4.8 37.0 1.0 CB A:TYR465 4.9 49.4 1.0 O A:ILE369 5.0 56.6 1.0

S.Shankar, J.Pan, P.Yang, Y.Bian, G.Oroszlan, Z.Yu, P.Mukherjee, D.J.Filman, J.Hogle, M.Shekhar, D.M.Coen, J.Abraham. Viral Dna Polymerase Structures Reveal Mechanisms For Drug Selectivity Cell(Cambridge,Mass.) 2024.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2024.07.048