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+1 extended HIV-1 reverse transcriptase initiation complex core (pre-translocation state)

Electron Microscopy
4.1Å resolution
PDB entry 6waz coloured by chain, front view.
PDB entry 6waz coloured by chain, side view.
PDB entry 6waz coloured by chain, top view.
Source organisms:
Assembly composition:
hetero tetramer (preferred)
Entry contents: 2 distinct polypeptide molecules
1 distinct RNA molecule
1 distinct DNA/RNA hybrid molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Protease and RNA
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Multimeric state: hetero tetramer
Accessible surface area: 54678.51 Å2
Buried surface area: 9917.08 Å2
Dissociation area: 1,202.46 Å2
Dissociation energy (ΔGdiss): 7.2 kcal/mol
Dissociation entropy (TΔSdiss): 13.65 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-249588

Macromolecules

Reverse transcriptase/ribonuclease H
Chain: A
Length: 562 amino acids
Theoretical weight: 64.71 KDa
Source organism: Human immunodeficiency virus type 1 BH10
Expression system: Escherichia coli
UniProt:
  • Canonical: P03366 (Residues: 600-1159; Coverage: 39%)
Gene name: gag-pol
Pfam:
InterPro:
Reverse transcriptase/ribonuclease H in PDB entry 6waz, assembly 1, front view.
Reverse transcriptase/ribonuclease H in PDB entry 6waz, assembly 1, side view.
Reverse transcriptase/ribonuclease H in PDB entry 6waz, assembly 1, top view.
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p51 RT
Chain: B
Length: 442 amino acids
Theoretical weight: 51.59 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Escherichia coli
UniProt:
  • Canonical: P04585 (Residues: 588-1027; Coverage: 31%)
Gene name: gag-pol
Pfam:
InterPro:
p51 RT in PDB entry 6waz, assembly 1, front view.
p51 RT in PDB entry 6waz, assembly 1, side view.
p51 RT in PDB entry 6waz, assembly 1, top view.
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RNA chain C
Name: HIV-1 viral RNA genome fragment
Representative chains: C
Length: 101 nucleotides
Theoretical weight: 32.62 KDa
Rfam: HIV primer binding site (PBS)
HIV-1 viral RNA genome fragment in PDB entry 6waz, assembly 1, front view.
HIV-1 viral RNA genome fragment in PDB entry 6waz, assembly 1, side view.
HIV-1 viral RNA genome fragment in PDB entry 6waz, assembly 1, top view.
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DNA/RNA hybrid chain D
Name: tRNA lysine 3
Representative chains: D
Length: 77 nucleotides
Theoretical weight: 24.72 KDa
Rfam: tRNA
tRNA lysine 3 in PDB entry 6waz, assembly 1, front view.
tRNA lysine 3 in PDB entry 6waz, assembly 1, side view.
tRNA lysine 3 in PDB entry 6waz, assembly 1, top view.
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