The complete VS ribozyme in solution studied by small-angle X-ray scattering.
We have used small-angle X-ray solution scattering to obtain ab initio shape reconstructions of the complete VS ribozyme. The ribozyme occupies an electron density envelope with an irregular shape, into which helical sections have been fitted. The ribozyme is built around a core comprising a near-coaxial stack of three helices, organized by two three-way helical junctions. An additional three-way junction formed by an auxiliary helix directs the substrate stem-loop, juxtaposing the cleavage site with an internal loop to create the active complex. This is consistent with the current view of the probable mechanism of trans-esterification in which adenine and guanine nucleobases contributed by the interacting loops combine in general acid-base catalysis.
Lipfert
Jan
J
Department of Physics, Geballe Laboratory of Advanced Materials, Stanford University, Stanford, CA 94305, USA.
Ouellet
Jonathan
J
Norman
David G
DG
Doniach
Sebastian
S
Lilley
David M J
DM
D001483:Base Sequence; D002021:Buffers; D020134:Catalytic Domain; D004722:Endoribonucleases / Q000737:chemistry*; D008274:Magnesium / Q000378:metabolism / Q000494:pharmacology; D008958:Models, Molecular; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D016337:RNA, Catalytic / Q000737:chemistry*; D053838:Scattering, Small Angle; D014961:X-Ray Diffraction
D002021:Buffers; D016337:RNA, Catalytic; D004722:Endoribonucleases; C438195:varkud satellite ribozyme; D008274:Magnesium
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