title: Conformation of the TAR RNA-arginine complex by NMR spectroscopy.
abstract: The messenger RNAs of human immunodeficiency virus-1 (HIV-1) have an RNA hairpin structure, TAR, at their 5' ends that contains a six-nucleotide loop and a three-nucleotide bulge. The conformations of TAR RNA and of TAR with an arginine analog specifically bound at the binding site for the viral protein, Tat, were characterized by nuclear magnetic resonance (NMR) spectroscopy. Upon arginine binding, the bulge changes conformation, and essential nucleotides for binding, U23 and A27.U38, form a base-triple interaction that stabilizes arginine hydrogen bonding to G26 and phosphates. Specificity in the arginine-TAR interaction appears to be derived largely from the structure of the RNA.
authors.affiliation: Department of Chemistry, Massachusetts Institute of Technology, Cambridge 02139.
authors.forename: J D
authors.initials: JD
authors.lastname: Puglisi
authors.forename: R
authors.initials: R
authors.lastname: Tan
authors.forename: B J
authors.initials: BJ
authors.lastname: Calnan
authors.forename: A D
authors.initials: AD
authors.lastname: Frankel
authors.forename: J R
authors.initials: JR
authors.lastname: Williamson
mesh_terms: D001120:Arginine / Q000378:metabolism*; D001483:Base Sequence; D001665:Binding Sites; D015696:Gene Products, tat / Q000378:metabolism; D015497:HIV-1 / Q000235:genetics*; D006860:Hydrogen Bonding; D009682:Magnetic Resonance Spectroscopy / Q000379:methods; D008958:Models, Molecular; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D012333:RNA, Messenger / Q000737:chemistry* / Q000378:metabolism; D012367:RNA, Viral / Q000737:chemistry* / Q000378:metabolism; D016601:RNA-Binding Proteins / Q000737:chemistry* / Q000378:metabolism; D054322:tat Gene Products, Human Immunodeficiency Virus; D000099253:Trans-Activation Responsive RNA-Binding Protein
chemical_list: D001120:Arginine; D015696:Gene Products, tat; D012333:RNA, Messenger; D012367:RNA, Viral; D016601:RNA-Binding Proteins; D054322:tat Gene Products, Human Immunodeficiency Virus; D000099253:Trans-Activation Responsive RNA-Binding Protein