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9ja3

Herpes simplex virus type 1 polymerase machinery in complex with duplex DNA, acyclovir triphosphate and calcium ions

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA polymerase

Human herpesvirus 1 (strain 17)

UniProt G8HBE4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 DNA polymerase processivity factor × 1 （P10226） DNA (27-MER) × 1 ;DNA (5'-D(*AP*GP*GP*CP*CP*AP*TP*AP*CP*GP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*TP*AP*C)-3') ; × 1 CALCIUM ION × 3 ACYCLOVIR TRIPHOSPHATE × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
9ja3

1 assemblies

View Construct and Data Evidence
UniProt name G8HBE4_HHV11
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–1235； UniProt 1–1235

DNA polymerase processivity factor

Human herpesvirus 1 (strain 17)

UniProt P10226

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 DNA polymerase × 1 （G8HBE4） DNA (27-MER) × 1 ;DNA (5'-D(*AP*GP*GP*CP*CP*AP*TP*AP*CP*GP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*TP*AP*C)-3') ; × 1 CALCIUM ION × 3 ACYCLOVIR TRIPHOSPHATE × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1dml 1dml 1dml 1dml 8oj6 8oj7 8oja 9enp 9ja3

9 assemblies

View Construct and Data Evidence
UniProt name PAP_HHV11
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 26–513； UniProt 1–488

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id9ja3
Deposition date deposition_date2024-08-24
Structure title titleHerpes simplex virus type 1 polymerase machinery in complex with duplex DNA, acyclovir triphosphate and calcium ions
Keywords keywords;Herpes simplex virus type 1, HSV-1, UL30, UL42, DNA replication holoenzyme, DNA replication machinery, acyclovir triphosphate, DNA, Calcium, REPLICATION ;; REPLICATION
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9ja3__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9ja3__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

9ja3__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）42.68 Å
Rg (electron density)42.72 Å
Total Rg42.80 Å
Atom count11493
Residues1399
Excluded volume202050 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 9ja3__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (6)

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7. Citations (1)