title: Controlling a substrate-binding geometry of ribonucleopeptide receptor.
abstract: We describe here a novel strategy to create a ribonucleopeptide (RNP) receptor with defined substrate-binding geometry. RNP library was generated by introducing randomized nucleotide sequences in the RNA subunit of the structurally well-defined complex of RRE-RNA and the Rev peptide by a structure-based design. ATP-binding RNP receptors were selected from the RNP library by in vitro selection. The ATP-binding RNP receptors had RNA sequences varying in the location of the consensus sequence within the randomized nucleotide region. Each RNA subunit was expected to form a ligand-binding pocket with a unique geometry to the N-terminal of the Rev peptide. We have developed a selection strategy to select an ATP-binding receptor with a defined binding geometry by utilizing an ATP-Rev peptide conjugate.
authors.affiliation: Institute of Advanced Energy, Kyoto university, Uji, Kyoto 611-0011, Japan.
authors.forename: Masatora
authors.initials: M
authors.lastname: Fukuda
authors.forename: Shun
authors.initials: S
authors.lastname: Nakano
authors.forename: Takashi
authors.initials: T
authors.lastname: Morii
mesh_terms: D000255:Adenosine Triphosphate / Q000378:metabolism*; D001483:Base Sequence; D001665:Binding Sites; D016384:Consensus Sequence; D015723:Gene Library; D015694:Gene Products, rev / Q000737:chemistry; D008024:Ligands; D009690:Nucleic Acid Conformation; D010455:Peptides / Q000737:chemistry* / Q000378:metabolism; D012313:RNA / Q000737:chemistry* / Q000378:metabolism
chemical_list: D015694:Gene Products, rev; D008024:Ligands; D010455:Peptides; D012313:RNA; D000255:Adenosine Triphosphate