5xn1

X-ray diffraction
2.45Å resolution

HIV-1 reverse transcriptase Q151M:DNA:entecavir-triphosphate ternary complex

Released:

Function and Biology Details

Reactions catalysed:
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
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.
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-119399 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (4 distinct):
Reverse transcriptase/ribonuclease H Chains: A, C
Molecule details ›
Chains: A, C
Length: 557 amino acids
Theoretical weight: 64.03 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli
UniProt:
  • Canonical: P12497 (Residues: 588-1142; Coverage: 39%)
Gene name: gag-pol
Sequence domains:
p51 RT Chains: B, D
Molecule details ›
Chains: B, D
Length: 444 amino acids
Theoretical weight: 51.86 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli
UniProt:
  • Canonical: P12497 (Residues: 588-1015; Coverage: 30%)
Gene name: gag-pol
Sequence domains:
38-MER DNA aptamer Chains: E, F
Molecule details ›
Chains: E, F
Length: 38 nucleotides
Theoretical weight: 11.72 KDa

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, FRU
3 bound ligands:
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: R3
Unit cell:
a: 284.707Å b: 284.707Å c: 95.793Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.19 0.188 0.227
Expression system: Escherichia coli