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X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA

X-ray diffraction
1.949Å resolution
PDB entry 5i4a coloured by chain, front view.
PDB entry 5i4a coloured by chain, side view.
PDB entry 5i4a coloured by chain, top view.
Source organisms:
Assembly composition:
hetero dimer (preferred)
Entry contents: 1 distinct polypeptide molecule
1 distinct RNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Protein argonaute and RNA
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Multimeric state: hetero dimer
Accessible surface area: 31559.81 Å2
Buried surface area: 0.0 Å2
Dissociation area: 0 Å2
Dissociation energy (ΔGdiss): 0 kcal/mol
Dissociation entropy (TΔSdiss): 0 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-124753
Assembly 2
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Assembly Name: Protein argonaute and RNA
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Multimeric state: hetero dimer
Accessible surface area: 31038.71 Å2
Buried surface area: 0.0 Å2
Dissociation area: 0 Å2
Dissociation energy (ΔGdiss): 0 kcal/mol
Dissociation entropy (TΔSdiss): 0 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-124753

Macromolecules

Protein argonaute
Chains: A, C
Length: 642 amino acids
Theoretical weight: 76.19 KDa
Source organism: Marinitoga piezophila KA3
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: H2J4R4 (Residues: 2-639; Coverage: 100%)
Gene names: Marpi_0405, ago
InterPro:
Protein argonaute in PDB entry 5i4a, assembly 1, front view.
Protein argonaute in PDB entry 5i4a, assembly 1, side view.
Protein argonaute in PDB entry 5i4a, assembly 1, top view.
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RNA chains B, D
Name: RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*U)-3')
Representative chains: B, D
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 21 nucleotides
Theoretical weight: 6.54 KDa
RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*U)-3') in PDB entry 5i4a, assembly 1, front view.
RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*U)-3') in PDB entry 5i4a, assembly 1, side view.
RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*U)-3') in PDB entry 5i4a, assembly 1, top view.
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