› 6m5u

Electron Microscopy
3.8Å resolution

The coordinates of the monomeric terminase complex in the presence of the ADP-BeF3

Released:
DOI: 10.2210/pdb6m5u/pdb
PDB entry 6m5u coloured by chain, front view.
PDB entry 6m5u coloured by chain, side view.
PDB entry 6m5u coloured by chain, top view.
Source organism: Human alphaherpesvirus 1 strain 17
Primary publication:
Architecture of the herpesvirus genome-packaging complex and implications for DNA translocation.
Yang Y, Yang P, Wang N, Chen Z, Su D, Zhou ZH, Rao Z, Wang X
OpenAccess logo Protein Cell 11 339-351 (2020)
PMID: 32328903
Related structures: EMD-30093

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137584 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Tripartite terminase subunit 3 Chain: A
Molecule details ›
Chain: A
Length: 694 amino acids
Theoretical weight: 76.5 KDa
Source organism: Human alphaherpesvirus 1 strain 17
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P04295 (Residues: 35-728; Coverage: 94%)
Gene names: TRM3, UL15
Sequence domains:
Tripartite terminase subunit 1 Chain: B
Molecule details ›
Chain: B
Length: 774 amino acids
Theoretical weight: 84.51 KDa
Source organism: Human alphaherpesvirus 1 strain 17
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P10212 (Residues: 2-775; Coverage: 99%)
Gene names: TRM1, UL28
Sequence domains: Herpesvirus processing and transport protein
Tripartite terminase subunit 2 Chain: C
Molecule details ›
Chain: C
Length: 118 amino acids
Theoretical weight: 13.18 KDa
Source organism: Human alphaherpesvirus 1 strain 17
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P10217 (Residues: 12-129; Coverage: 91%)
Gene names: TRM2, UL33
Sequence domains: Herpesvirus UL33-like protein

Ligands and Environments

4 bound ligands:
Ligand ADP 1 x ADP
Ligand BEF 1 x BEF
Ligand MG 1 x MG
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-30093
Expression system: Spodoptera frugiperda

Quick links

Citations

8 review citations

Phase separation in genome organization across evolution.
Feric et al. (2021)
7 more

1 mention without citation

Synergistic antiviral activity of Lactobacillus acidophilus and Glycyrrhiza glabra against Herpes Simplex-1 Virus (HSV-1) and Vesicular Stomatitis Virus (VSV): experimental and In Silico insights.
Elebeedy et al. (2023)