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Human cytomegalovirus portal vertex, virion configuration 1 (VC1)

Electron Microscopy
3.5Å resolution
PDB entry 8tep coloured by chain, front view.
PDB entry 8tep coloured by chain, side view.
PDB entry 8tep coloured by chain, top view.
Source organism: Human herpesvirus 5 strain AD169
Assembly composition:
hetero 26-mer (preferred)
Entry contents: 9 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero 26-mer
Accessible surface area: 561533.14 Å2
Buried surface area: 158126.22 Å2
Dissociation area: 1,479.64 Å2
Dissociation energy (ΔGdiss): -0.42 kcal/mol
Dissociation entropy (TΔSdiss): 15.08 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-272419

Macromolecules

Large tegument protein deneddylase
Chains: A, C
Length: 2241 amino acids
Theoretical weight: 253.54 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16785 (Residues: 1-2241; Coverage: 100%)
Gene name: UL48
Pfam: Herpesvirus tegument protein, N-terminal conserved region
Large tegument protein deneddylase in PDB entry 8tep, assembly 1, front view.
Large tegument protein deneddylase in PDB entry 8tep, assembly 1, side view.
Large tegument protein deneddylase in PDB entry 8tep, assembly 1, top view.
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Inner tegument protein
Chains: B, D
Length: 983 amino acids
Theoretical weight: 110.23 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16784 (Residues: 1-983; Coverage: 100%)
Gene name: UL47
Pfam: Herpes virus tegument protein U30
Inner tegument protein in PDB entry 8tep, assembly 1, front view.
Inner tegument protein in PDB entry 8tep, assembly 1, side view.
Inner tegument protein in PDB entry 8tep, assembly 1, top view.
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Capsid vertex component 2
Chains: E, F
Length: 642 amino acids
Theoretical weight: 71.27 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16726 (Residues: 1-642; Coverage: 100%)
Gene names: CVC2, UL77
Pfam: Herpesvirus UL25 family
Capsid vertex component 2 in PDB entry 8tep, assembly 1, front view.
Capsid vertex component 2 in PDB entry 8tep, assembly 1, side view.
Capsid vertex component 2 in PDB entry 8tep, assembly 1, top view.
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Capsid vertex component 1
Chain: G
Length: 594 amino acids
Theoretical weight: 68.57 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16799 (Residues: 1-594; Coverage: 100%)
Gene names: CVC1, UL93
Pfam: Herpesvirus UL17 protein
Capsid vertex component 1 in PDB entry 8tep, assembly 1, front view.
Capsid vertex component 1 in PDB entry 8tep, assembly 1, side view.
Capsid vertex component 1 in PDB entry 8tep, assembly 1, top view.
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Major capsid protein
Chains: H, I, J, K, L, M
Length: 1370 amino acids
Theoretical weight: 154.05 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16729 (Residues: 1-1370; Coverage: 100%)
Gene names: MCP, UL86
Pfam: Herpes virus major capsid protein
Major capsid protein in PDB entry 8tep, assembly 1, front view.
Major capsid protein in PDB entry 8tep, assembly 1, side view.
Major capsid protein in PDB entry 8tep, assembly 1, top view.
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Small capsomere-interacting protein
Chains: N, O, P, Q, R, S
Length: 75 amino acids
Theoretical weight: 8.5 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: Q7M6N6 (Residues: 1-75; Coverage: 100%)
Gene names: SCP, UL48A
Pfam: Small capsid protein of Herpesviridae
Small capsomere-interacting protein in PDB entry 8tep, assembly 1, front view.
Small capsomere-interacting protein in PDB entry 8tep, assembly 1, side view.
Small capsomere-interacting protein in PDB entry 8tep, assembly 1, top view.
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Triplex capsid protein 1
Chains: T, W
Length: 290 amino acids
Theoretical weight: 33.07 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16783 (Residues: 1-290; Coverage: 100%)
Gene names: TRX1, UL46
Pfam: Herpesvirus capsid shell protein VP19C
Triplex capsid protein 1 in PDB entry 8tep, assembly 1, front view.
Triplex capsid protein 1 in PDB entry 8tep, assembly 1, side view.
Triplex capsid protein 1 in PDB entry 8tep, assembly 1, top view.
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Triplex capsid protein 2
Chains: U, V, X, Y
Length: 306 amino acids
Theoretical weight: 34.64 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P16728 (Residues: 1-306; Coverage: 100%)
Gene names: TRX2, UL85
Pfam: Herpesvirus VP23 like capsid protein
Triplex capsid protein 2 in PDB entry 8tep, assembly 1, front view.
Triplex capsid protein 2 in PDB entry 8tep, assembly 1, side view.
Triplex capsid protein 2 in PDB entry 8tep, assembly 1, top view.
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Large structural phosphoprotein
Chain: Z
Length: 1048 amino acids
Theoretical weight: 112.83 KDa
Source organism: Human herpesvirus 5 strain AD169
UniProt:
  • Canonical: P08318 (Residues: 1-1048; Coverage: 100%)
Gene name: UL32
Pfam: Herpesvirus large structural phosphoprotein UL32
Large structural phosphoprotein in PDB entry 8tep, assembly 1, front view.
Large structural phosphoprotein in PDB entry 8tep, assembly 1, side view.
Large structural phosphoprotein in PDB entry 8tep, assembly 1, top view.
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