6odm

Electron Microscopy
4.3Å resolution

Herpes simplex virus type 1 (HSV-1) portal vertex-adjacent capsid/CATC, asymmetric unit

Released:
Related structures: EMD-9860

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:

Structure analysis Details

Assembly composition:
hetero nonadecamer (preferred)
Entry contents:
7 distinct polypeptide molecules
Macromolecules (7 distinct):
Major capsid protein Chains: S, T, W, X
Molecule details ›
Chains: S, T, W, X
Length: 1374 amino acids
Theoretical weight: 149.3 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: H9E925 (Residues: 1-1374; Coverage: 100%)
Gene names: HHV1gp028, MCP, UL19
Sequence domains: Herpes virus major capsid protein
Small capsomere-interacting protein Chains: E, F, L, P
Molecule details ›
Chains: E, F, L, P
Length: 112 amino acids
Theoretical weight: 12.11 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: Q25BW6 (Residues: 1-112; Coverage: 100%)
Gene names: HHV1gp052, SCP, UL35, hmpv205_0036, hmpv206_0036, hmpv207_0035, hmpv208_0036, hmpv213_0033, hmpv214_0036
Sequence domains: Herpesvirus UL35 family
Triplex capsid protein 1 Chains: 5, D
Molecule details ›
Chains: 5, D
Length: 465 amino acids
Theoretical weight: 50.37 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: Q1T724 (Residues: 1-465; Coverage: 100%)
Gene names: HHV1gp056, TRX1, UL38, VP19C
Sequence domains: Herpesvirus capsid shell protein VP19C
Triplex capsid protein 2 Chains: 6, 7, A, H
Molecule details ›
Chains: 6, 7, A, H
Length: 318 amino acids
Theoretical weight: 34.3 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: G8H8D9 (Residues: 1-318; Coverage: 100%)
Gene names: HHV1gp030, TRX2, UL18, hmpv207_0017, hmpv213_0017, hmpv214_0018
Sequence domains: Herpesvirus VP23 like capsid protein
Capsid vertex component 1 Chain: C
Molecule details ›
Chain: C
Length: 703 amino acids
Theoretical weight: 74.77 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: F8REV0 (Residues: 1-703; Coverage: 100%)
Gene names: CVC1, HHV1gp024, UL17
Sequence domains: Herpesvirus UL17 protein
Capsid vertex component 2 Chains: G, K
Molecule details ›
Chains: G, K
Length: 580 amino acids
Theoretical weight: 62.75 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: D3YPI2 (Residues: 1-580; Coverage: 100%)
Gene names: CVC2, HHV1gp036, UL25, hmpv205_0025, hmpv208_0025, hmpv214_0025
Sequence domains: Herpesvirus UL25 family
Large tegument protein deneddylase Chains: B, O
Molecule details ›
Chains: B, O
Length: 3094 amino acids
Theoretical weight: 329.18 KDa
Source organism: Human alphaherpesvirus 1 strain KOS
UniProt:
  • Canonical: I1UYK0 (Residues: 1-3108; Coverage: 100%)
Gene name: UL36
Sequence domains:

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.3Å
Relevant EMDB volumes: EMD-9860