X-ray diffraction
2.02Å resolution

Structural basis for the recognition between HIV-1 integrase and LEDGF/p75


Function and Biology Details

Reactions catalysed:
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.
3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid
Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus.
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero octamer
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Integrase Chains: A, B
Molecule details ›
Chains: A, B
Length: 166 amino acids
Theoretical weight: 18.19 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli BL21(DE3)
  • Canonical: P12497 (Residues: 1197-1359; Coverage: 11%)
Gene name: gag-pol
Sequence domains: Integrase core domain
Structure domains: Ribonuclease H-like superfamily/Ribonuclease H
PC4 and SFRS1-interacting protein Chains: C, D
Molecule details ›
Chains: C, D
Length: 98 amino acids
Theoretical weight: 11.29 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
  • Canonical: O75475 (Residues: 346-442; Coverage: 18%)
Gene names: DFS70, LEDGF, PSIP1, PSIP2
Structure domains: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X26C
Spacegroup: C2
Unit cell:
a: 122.421Å b: 60.593Å c: 71.126Å
α: 90° β: 109.06° γ: 90°
R R work R free
0.183 0.181 0.226
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli BL21