PDBe 6b19

Electron Microscopy
4.5Å resolution

Architecture of HIV-1 reverse transcriptase initiation complex core

Released:

Function and Biology Details

Reactions catalysed:
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.
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
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct RNA molecule
1 distinct DNA/RNA hybrid molecule
Macromolecules (4 distinct):
Reverse transcriptase/ribonuclease H Chain: A
Molecule details ›
Chain: A
Length: 570 amino acids
Theoretical weight: 65.56 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli
UniProt:
  • Canonical: P03366 (Residues: 600-1159; Coverage: 39%)
Gene name: gag-pol
Sequence domains:
p51 RT Chain: B
Molecule details ›
Chain: B
Length: 442 amino acids
Theoretical weight: 51.59 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli
UniProt:
  • Canonical: P03366 (Residues: 600-1039; Coverage: 30%)
Gene name: gag-pol
Sequence domains:
RNA genome fragment Chain: C
Molecule details ›
Chain: C
Length: 101 nucleotides
Theoretical weight: 32.62 KDa
Sequence domains: HIV primer binding site (PBS)
tRNA lysine3 Chain: D
Molecule details ›
Chain: D
Length: 77 nucleotides
Theoretical weight: 24.72 KDa
Sequence domains: tRNA

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.5Å
Relevant EMDB volumes: EMD-7031
Expression system: Escherichia coli