Herpes simplex virus 1 polymerase holoenzyme bound to DNA and foscarnet (pre-translocation state)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8exx
Q-score: 0.522
Shankar S, Pan J, Yang P, Bian Y, Oroszlan G, Yu Z, Mukherjee P, Filman DJ, Hogle JM, Shekhar M, Coen DM, Abraham J
Cell (2024) 187 pp. 5572-5586.e15 [ Pubmed: 39197451 DOI: doi:10.1016/j.cell.2024.07.048 ]
- Dna polymerase (133 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Magnesium ion (24 Da, Ligand)
- Primer dna (32-mer) (9 kDa, DNA from synthetic construct)
- Template dna (50-mer) (15 kDa, DNA from synthetic construct)
- Phosphonoformic acid (126 Da, Ligand)
- Dna polymerase processivity factor (36 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Herpes simplex virus 1 polymerase holoenzyme ul30:ul42 in complex with dna and foscarnet (197 kDa, Complex from Human herpesvirus 1 (strain KOS))
Herpes simplex virus 1 polymerase holoenzyme bound to DNA in both open/closed conformations
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8v1q
Q-score: 0.603
Shankar S, Pan J, Yang P, Bian Y, Oroszlan G, Yu Z, Mukherjee P, Filman DJ, Hogle JM, Shekhar M, Coen DM, Abraham J
Cell (2024) 187 pp. 5572-5586.e15 [ Pubmed: 39197451 DOI: doi:10.1016/j.cell.2024.07.048 ]
- Dna polymerase (133 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Magnesium ion (24 Da, Ligand)
- Dna polymerase processivity factor (37 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Water (18 Da, Ligand)
- Herpes simplex virus 1 polymerase holoenzyme ul30:ul42 in complex with template and primer dna strands (Complex from Human herpesvirus 1 (strain KOS))
- Template dna (15 kDa, DNA from synthetic construct)
- Primer dna (9 kDa, DNA from synthetic construct)
Herpes simplex virus 1 polymerase holoenzyme bound to DNA and DTTP in closed conformation
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8v1r
Q-score: 0.576
Shankar S, Pan J, Yang P, Bian Y, Oroszlan G, Yu Z, Mukherjee P, Filman DJ, Hogle JM, Shekhar M, Coen DM, Abraham J
Cell (2024) 187 pp. 5572-5586.e15 [ Pubmed: 39197451 DOI: doi:10.1016/j.cell.2024.07.048 ]
- Dna polymerase (133 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Herpes simplex virus 1 dna polymerase holoenzyme ul30:ul42 bound to dna and dttp (197 kDa, Complex from Human alphaherpesvirus 1 strain KOS)
- Primer dna (32-mer) (9 kDa, DNA from synthetic construct)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Template dna (50-mer) (15 kDa, DNA from synthetic construct)
- Dna polymerase processivity factor (36 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8v1t
Q-score: 0.579
Shankar S, Pan J, Yang P, Bian Y, Oroszlan G, Yu Z, Mukherjee P, Filman DJ, Hogle JM, Shekhar M, Coen DM, Abraham J
Cell (2024) 187 pp. 5572-5586.e15 [ Pubmed: 39197451 DOI: doi:10.1016/j.cell.2024.07.048 ]
- Dna polymerase (133 kDa, Protein from Human alphaherpesvirus 1 strain KOS)
- Template dna (50-mer) (15 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Primer dna (32-mer) (9 kDa, DNA from synthetic construct)
- Acyclovir triphosphate (465 Da, Ligand)
- Herpes simplex virus type 1 polymerase holoenzyme ul30:ul42 in complex with dsdna and acyclovir triphosphate (197 kDa, Complex from Human alphaherpesvirus 1 strain KOS)
- Dna polymerase processivity factor (36 kDa, Protein from Human alphaherpesvirus 1 strain KOS)