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Structure of the Rrp6-Rrp47-Mtr4 interaction

X-ray diffraction
2.4Å resolution
PDB entry 4wfd coloured by chain, front view.
PDB entry 4wfd coloured by chain, side view.
PDB entry 4wfd coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Assembly composition:
hetero trimer (preferred)
Entry contents: 3 distinct polypeptide molecules

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Assemblies

Assembly 1
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Multimeric state: hetero trimer
Accessible surface area: 10905.76 Å2
Buried surface area: 8680.86 Å2
Dissociation area: 766.07 Å2
Dissociation energy (ΔGdiss): 6.51 kcal/mol
Dissociation entropy (TΔSdiss): 8.34 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-153725
Assembly 2 (preferred)
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Multimeric state: hetero trimer
Accessible surface area: 10628.88 Å2
Buried surface area: 7476.24 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-153725
Assembly 3
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Multimeric state: hetero trimer
Accessible surface area: 10268.38 Å2
Buried surface area: 7188.84 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-153725

Macromolecules

Exosome complex exonuclease RRP6
Chains: A, D, G
Length: 115 amino acids
Theoretical weight: 12.86 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: Q12149 (Residues: 1-111; Coverage: 15%)
Gene names: RRP6, UNC733, YOR001W
Pfam: PMC2NT (NUC016) domain
InterPro: Exosome-associated factor Rrp6, N-terminal
Exosome complex exonuclease RRP6 in PDB entry 4wfd, assembly 2, front view.
Exosome complex exonuclease RRP6 in PDB entry 4wfd, assembly 2, side view.
Exosome complex exonuclease RRP6 in PDB entry 4wfd, assembly 2, top view.
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Exosome complex protein LRP1
Chains: B, E, H
Length: 103 amino acids
Theoretical weight: 12.02 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P38801 (Residues: 1-103; Coverage: 56%)
Gene names: LRP1, RRP47, YC1D, YHR081W
Pfam: Sas10/Utp3/C1D family
InterPro:
Exosome complex protein LRP1 in PDB entry 4wfd, assembly 2, front view.
Exosome complex protein LRP1 in PDB entry 4wfd, assembly 2, side view.
Exosome complex protein LRP1 in PDB entry 4wfd, assembly 2, top view.
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ATP-dependent RNA helicase DOB1
Chains: C, F, I
Length: 20 amino acids
Theoretical weight: 2.31 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Not provided
UniProt:
  • Canonical: P47047 (Residues: 1-19; Coverage: 2%)
Gene names: DOB1, J1158, MTR4, YJL050W
ATP-dependent RNA helicase DOB1 in PDB entry 4wfd, assembly 2, front view.
ATP-dependent RNA helicase DOB1 in PDB entry 4wfd, assembly 2, side view.
ATP-dependent RNA helicase DOB1 in PDB entry 4wfd, assembly 2, top view.
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