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TitleCrystal structure of the Varkud satellite ribozyme.
Journal, issue, pagesNat Chem Biol, Vol. 11, Issue 11, Page 840-846, Year 2015
Publish dateSep 28, 2015
AuthorsNikolai B Suslov / Saurja DasGupta / Hao Huang / James R Fuller / David M J Lilley / Phoebe A Rice / Joseph A Piccirilli /
PubMed AbstractThe Varkud satellite (VS) ribozyme mediates rolling-circle replication of a plasmid found in the Neurospora mitochondrion. We report crystal structures of this ribozyme from Neurospora intermedia at ...The Varkud satellite (VS) ribozyme mediates rolling-circle replication of a plasmid found in the Neurospora mitochondrion. We report crystal structures of this ribozyme from Neurospora intermedia at 3.1 Å resolution, which revealed an intertwined dimer formed by an exchange of substrate helices. In each protomer, an arrangement of three-way helical junctions organizes seven helices into a global fold that creates a docking site for the substrate helix of the other protomer, resulting in the formation of two active sites in trans. This mode of RNA-RNA association resembles the process of domain swapping in proteins and has implications for RNA regulation and evolution. Within each active site, adenine and guanine nucleobases abut the scissile phosphate, poised to serve direct roles in catalysis. Similarities to the active sites of the hairpin and hammerhead ribozymes highlight the functional importance of active-site features, underscore the ability of RNA to access functional architectures from distant regions of sequence space, and suggest convergent evolution.
External linksNat Chem Biol / PubMed:26414446 / PubMed Central
MethodsSAS (X-ray synchrotron) / X-ray diffraction
Resolution3.07 Å
Structure data

SASDAC9:
Varkud Satellite (VS) ribozyme in Tris (Varkud Satellite (VS) ribozyme, G638A)
Method: SAXS/SANS

PDB-4r4p:
Crystal Structure of the VS ribozyme-A756G mutant
Method: X-RAY DIFFRACTION / Resolution: 3.07 Å

PDB-4r4v:
Crystal structure of the VS ribozyme - G638A mutant
Method: X-RAY DIFFRACTION / Resolution: 3.07 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-HOH:
WATER / Water

ChemComp-K:
Unknown entry

Source
  • neurospora (fungus)
KeywordsRNA / Dimer

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