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1dml

CRYSTAL STRUCTURE OF HERPES SIMPLEX UL42 BOUND TO THE C-TERMINUS OF HSV POL

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA POLYMERASE PROCESSIVITY FACTOR

Human herpesvirus 1

UniProt P10226

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE × 1 （P07917） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE × 1 （P07917） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE × 1 （P07917） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE × 1 （P07917） Consistent with protein count

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 VPAP_HHV11
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–319； UniProt 1–319 Author chain C； PDBConstruct 1–319； UniProt 1–319 Author chain E； PDBConstruct 1–319； UniProt 1–319 Author chain G； PDBConstruct 1–319； UniProt 1–319

DNA POLYMERASE

Human herpesvirus 1

UniProt P07917

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE PROCESSIVITY FACTOR × 1 （P10226） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE PROCESSIVITY FACTOR × 1 （P10226） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE PROCESSIVITY FACTOR × 1 （P10226） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 DNA POLYMERASE PROCESSIVITY FACTOR × 1 （P10226） Consistent with protein count

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

4 assemblies

View Construct and Data Evidence
UniProt name DPOL_HHV1A
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–36； UniProt 1200–1235 Author chain D； PDBConstruct 1–36； UniProt 1200–1235 Author chain F； PDBConstruct 1–36； UniProt 1200–1235 Author chain H； PDBConstruct 1–36； UniProt 1200–1235

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_id1dml
Deposition date deposition_date1999-12-14
Structure title titleCRYSTAL STRUCTURE OF HERPES SIMPLEX UL42 BOUND TO THE C-TERMINUS OF HSV POL
Keywords keywordsherpes simplex virus, dna synthesis, sliding clamps, PCNA, processivity, DNA BINDING PROTEIN-TRANSFERASE COMPLEX; DNA BINDING PROTEIN/TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION
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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.

1dml__assembly_1__model_1

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

Download this curve (.dat)

1dml__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1dml__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）21.70 Å
Rg (electron density)20.53 Å
Total Rg21.41 Å
Atom count2322
Residues303
Excluded volume41494 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1dml__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1dml__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 1dml__assembly_3__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 1dml__assembly_4__model_1 dimeric （2） 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 (2)

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6. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd1dmla1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmla2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmlc1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmlc2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmle1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmle2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmlg1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor
Domain ID domain_idd1dmlg2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.131 — DNA clamp
Superfamily Superfamily superfamilyd.131.1 — DNA clamp
Family Family familyd.131.1.2 — DNA polymerase processivity factor

CATH v4.4 (4 domains)

Domain ID domain_id1dmlA00
Class class3 — Alpha Beta
Architecture architecture70 — Box
Topology topology10 — Proliferating Cell Nuclear Antigen
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1dmlC00
Class class3 — Alpha Beta
Architecture architecture70 — Box
Topology topology10 — Proliferating Cell Nuclear Antigen
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1dmlE00
Class class3 — Alpha Beta
Architecture architecture70 — Box
Topology topology10 — Proliferating Cell Nuclear Antigen
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1dmlG00
Class class3 — Alpha Beta
Architecture architecture70 — Box
Topology topology10 — Proliferating Cell Nuclear Antigen
Homologous superfamily homologous superfamily10 —
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7. Citations (1)