6rwn

Electron Microscopy
3.1Å resolution

SIVrcm intasome in complex with dolutegravir

Released:

Function and Biology Details

Reactions catalysed:
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

Assembly composition:
hetero hexadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120581 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Pol protein Chains: A, B, C, D, E, F, I, J, K, L, M, N
Molecule details ›
Chains: A, B, C, D, E, F, I, J, K, L, M, N
Length: 290 amino acids
Theoretical weight: 32.73 KDa
Source organism: Simian immunodeficiency virus
Expression system: Escherichia coli
UniProt:
  • Canonical: E1ANT8 (Residues: 735-1023; Coverage: 28%)
Gene name: pol
Sequence domains:
DNA (5'-D(*AP*AP*CP*TP*GP*GP*TP*AP*GP*AP*GP*AP*TP*TP*TP*TP*TP*CP*TP*TP*AP*GP*C)-3') Chains: Q, S
Molecule details ›
Chains: Q, S
Length: 33 nucleotides
Theoretical weight: 10.13 KDa
Source organism: Simian immunodeficiency virus
Expression system: synthetic construct
DNA (5'-D(P*GP*CP*TP*AP*AP*GP*AP*AP*AP*AP*AP*TP*CP*TP*CP*TP*AP*CP*CP*A)-3') Chains: T, W
Molecule details ›
Chains: T, W
Length: 30 nucleotides
Theoretical weight: 9.22 KDa
Source organism: Simian immunodeficiency virus
Expression system: synthetic construct

Ligands and Environments

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.1Å
Relevant EMDB volumes: EMD-10043
Expression systems:
  • Escherichia coli
  • synthetic construct