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Crystal structure of the Prototype Foamy Virus (PFV) N224H mutant intasome in complex with magnesium and Dolutegravir (S/GSK1349572)

X-ray diffraction
2.55Å resolution
PDB entry 3s3o coloured by chain, front view.
PDB entry 3s3o coloured by chain, side view.
PDB entry 3s3o coloured by chain, top view.
Source organism: Human spumaretrovirus
Assembly composition:
hetero octamer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Ribonuclease H and DNA
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Multimeric state: hetero octamer
Accessible surface area: 56713.09 Å2
Buried surface area: 29067.63 Å2
Dissociation area: 3,201.84 Å2
Dissociation energy (ΔGdiss): 12.2 kcal/mol
Dissociation entropy (TΔSdiss): 26.96 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-116862

Macromolecules

Integrase
Chains: A, B
Length: 395 amino acids
Theoretical weight: 44.48 KDa
Source organism: Human spumaretrovirus
Expression system: Escherichia coli
UniProt:
  • Canonical: P14350 (Residues: 752-1143; Coverage: 34%)
Gene name: pol
Pfam:
InterPro:
CATH:
Integrase in PDB entry 3s3o, assembly 1, front view.
Integrase in PDB entry 3s3o, assembly 1, side view.
Integrase in PDB entry 3s3o, assembly 1, top view.
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DNA chain C
Name: 5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP*TP*CP*GP*CP*A)-3'
Representative chains: C
Source organism: Human spumaretrovirus [11963]
Expression system: Not provided
Length: 19 nucleotides
Theoretical weight: 5.83 KDa
5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP*TP*CP*GP*CP*A)-3' in PDB entry 3s3o, assembly 1, front view.
5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP*TP*CP*GP*CP*A)-3' in PDB entry 3s3o, assembly 1, side view.
5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP*TP*CP*GP*CP*A)-3' in PDB entry 3s3o, assembly 1, top view.
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DNA chain D
Name: 5'-D(*TP*GP*CP*GP*AP*AP*AP*TP*TP*CP*CP*AP*TP*GP*AP*CP*A)-3'
Representative chains: D
Source organism: Human spumaretrovirus [11963]
Expression system: Not provided
Length: 17 nucleotides
Theoretical weight: 5.2 KDa
5'-D(*TP*GP*CP*GP*AP*AP*AP*TP*TP*CP*CP*AP*TP*GP*AP*CP*A)-3' in PDB entry 3s3o, assembly 1, front view.
5'-D(*TP*GP*CP*GP*AP*AP*AP*TP*TP*CP*CP*AP*TP*GP*AP*CP*A)-3' in PDB entry 3s3o, assembly 1, side view.
5'-D(*TP*GP*CP*GP*AP*AP*AP*TP*TP*CP*CP*AP*TP*GP*AP*CP*A)-3' in PDB entry 3s3o, assembly 1, top view.
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