› 7etj

Electron Microscopy
4Å resolution

C5 portal vertex in the partially-enveloped virion capsid

Released:
DOI: 10.2210/pdb7etj/pdb
PDB entry 7etj coloured by chain, front view.
PDB entry 7etj coloured by chain, side view.
PDB entry 7etj coloured by chain, top view.
Source organism: Human betaherpesvirus 5
Primary publication:
Structural basis for genome packaging, retention, and ejection in human cytomegalovirus.
Li Z, Pang J, Dong L, Yu X
OpenAccess logo Nat Commun 12 4538 (2021)
PMID: 34315863
Related structures: EMD-31298

Function and Biology Details

Reaction catalysed: 
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 115-mer (preferred)
PDBe Complex ID:
PDB-CPX-227997 (preferred)
Entry contents:
8 distinct polypeptide molecules
Macromolecules (8 distinct):
Capsid triplex subunit 2 Chains: I, h, n, o
Molecule details ›
Chains: I, h, n, o
Length: 306 amino acids
Theoretical weight: 34.64 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: Q6RXF2 (Residues: 1-306; Coverage: 100%)
Gene names: HHV5gp080, UL85
Sequence domains: Herpesvirus VP23 like capsid protein
Peptidase C76 domain-containing protein Chains: H, P
Molecule details ›
Chains: H, P
Length: 2241 amino acids
Theoretical weight: 253.54 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: A0A3G6XL22 (Residues: 1-2241; Coverage: 100%)
Sequence domains: Herpesvirus tegument protein, N-terminal conserved region
UL46 Chains: g, m
Molecule details ›
Chains: g, m
Length: 290 amino acids
Theoretical weight: 33.07 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: Q6RXH2 (Residues: 1-290; Coverage: 100%)
Gene names: HHV5gp051, UL46
Sequence domains: Herpesvirus capsid shell protein VP19C
Capsid vertex component 1 Chain: M
Molecule details ›
Chain: M
Length: 594 amino acids
Theoretical weight: 68.57 KDa
Source organism: Human betaherpesvirus 5
UL77 protein Chains: N, O
Molecule details ›
Chains: N, O
Length: 642 amino acids
Theoretical weight: 71.27 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: A0A3G6XKK5 (Residues: 1-642; Coverage: 100%)
Sequence domains: Herpesvirus UL25 family
ORFL92C_UL32 Chain: 1
Molecule details ›
Chain: 1
Length: 1048 amino acids
Theoretical weight: 112.83 KDa
Source organism: Human betaherpesvirus 5
Small capsomere-interacting protein Chains: R, S, T, i, j
Molecule details ›
Chains: R, S, T, i, j
Length: 75 amino acids
Theoretical weight: 8.5 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: A8T7C4 (Residues: 1-75; Coverage: 100%)
Gene names: SCP, UL48A
Sequence domains: Small capsid protein of Herpesviridae
UL86 Chains: B, C, D, Y, Z, a
Molecule details ›
Chains: B, C, D, Y, Z, a
Length: 1370 amino acids
Theoretical weight: 154.05 KDa
Source organism: Human betaherpesvirus 5
UniProt:
  • Canonical: A0A1U8QPG3 (Residues: 1-1370; Coverage: 100%)
Gene name: UL86
Sequence domains: Herpes virus major capsid protein

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4Å
Relevant EMDB volumes: EMD-31298

Quick links

Citations

3 review citations

The human cytomegalovirus decathlon: Ten critical replication events provide opportunities for restriction.
Turner et al. (2022)
2 more