› 6ppd

Electron Microscopy
3.7Å resolution

Kaposi's sarcoma-associated herpesvirus (KSHV), C1 penton vertex register, CATC-absent structure

Released:
DOI: 10.2210/pdb6ppd/pdb
PDB entry 6ppd coloured by chain, front view.
PDB entry 6ppd coloured by chain, side view.
PDB entry 6ppd coloured by chain, top view.
Source organism: Human herpesvirus 8 strain GK18
Primary publication:
DNA-Packing Portal and Capsid-Associated Tegument Complexes in the Tumor Herpesvirus KSHV.
Gong D, Dai X, Jih J, Liu YT, Bi GQ, Sun R, Zhou ZH
Cell 178 1329-1343.e12 (2019)
PMID: 31447177
Related structures: EMD-20433

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexadecamer (preferred)
PDBe Complex ID:
PDB-CPX-111691 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Small capsomere-interacting protein Chains: 0, 1, 2, 3, A
Molecule details ›
Chains: 0, 1, 2, 3, A
Length: 170 amino acids
Theoretical weight: 18.6 KDa
Source organism: Human herpesvirus 8 strain GK18
UniProt:
  • Canonical: Q2HR63 (Residues: 1-170; Coverage: 100%)
Gene names: ORF65, SCP
Sequence domains: Gammaherpesvirus capsid protein
Major capsid protein Chains: 4, S, T, W, X
Molecule details ›
Chains: 4, S, T, W, X
Length: 1376 amino acids
Theoretical weight: 153.57 KDa
Source organism: Human herpesvirus 8 strain GK18
UniProt:
  • Canonical: Q2HRA7 (Residues: 1-1376; Coverage: 100%)
Gene names: MCP, ORF25
Sequence domains: Herpes virus major capsid protein
Triplex capsid protein 1 Chains: 5, b
Molecule details ›
Chains: 5, b
Length: 331 amino acids
Theoretical weight: 36.37 KDa
Source organism: Human herpesvirus 8 strain GK18
UniProt:
  • Canonical: F5H8Y5 (Residues: 1-331; Coverage: 100%)
Gene names: ORF62, TRX1
Sequence domains: Herpesvirus capsid shell protein VP19C
Putative minor capsid protein Chains: 6, 7, c, d
Molecule details ›
Chains: 6, 7, c, d
Length: 305 amino acids
Theoretical weight: 34.28 KDa
Source organism: Human herpesvirus 8 strain GK18
UniProt:
  • Canonical: C7E5A9 (Residues: 1-305; Coverage: 100%)
Gene names: HHV8GK18_gp30, ORF26
Sequence domains: Herpesvirus VP23 like capsid protein

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.7Å
Relevant EMDB volumes: EMD-20433

Quick links

Citations

4 review citations

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

8 mentions without citation

A review on recent advances in mass spectrometry analysis of harmful contaminants in food.
Sun et al. (2023)
7 more