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Molecular basis for RNA kink-turn recognition by the h15.5K small RNP protein.
Szewczak LB, Gabrielsen JS, Degregorio SJ, Strobel SA, Steitz JA.
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The interaction between box C/D small nucleolar (sno)RNAs and the 15.5K protein nucleates snoRNP assembly. Many eukaryotic snoRNAs contain two potential binding sites for this protein, only one of which appears to be utilized in vivo. The binding site conforms to the consensus for a kink-turn motif. We have investigated the molecular basis for selection of one potential site over the other using in vitro mobility shift assays and nucleotide analog interference mapping of Xenopus U25 snoRNA and of a circularly permuted form. We find that preferential binding of human 15.5K is not dependent on the proximity of RNA ends, but instead appears to require a structural context beyond the kink-turn itself. Direct analysis of the energetic contributions to binding made by 18 functional groups within the kink-turn identified both backbone atoms and base functionalities as key for interaction. An intramolecular RNA-RNA contact via a 2'-hydroxyl may supercede a putative Type I A-minor interaction in stabilizing the RNA-protein complex.
Batey,
Structural and energetic analysis of RNA recognition by a universally conserved protein from the signal recognition particle.
2001, Pubmed
Batey,
Structural and energetic analysis of RNA recognition by a universally conserved protein from the signal recognition particle.
2001,
Pubmed Bevilacqua,
Minor-groove recognition of double-stranded RNA by the double-stranded RNA-binding domain from the RNA-activated protein kinase PKR.
1996,
Pubmed Cahill,
Site-specific cross-linking analyses reveal an asymmetric protein distribution for a box C/D snoRNP.
2002,
Pubmed
,
Xenbase Cochrane,
Probing RNA structure and function by nucleotide analog interference mapping.
2004,
Pubmed Cojocaru,
The snRNP 15.5K protein folds its cognate K-turn RNA: a combined theoretical and biochemical study.
2005,
Pubmed Darzacq,
Processing of intron-encoded box C/D small nucleolar RNAs lacking a 5',3'-terminal stem structure.
2000,
Pubmed Decatur,
RNA-guided nucleotide modification of ribosomal and other RNAs.
2003,
Pubmed Galardi,
Purified box C/D snoRNPs are able to reproduce site-specific 2'-O-methylation of target RNA in vitro.
2002,
Pubmed Goody,
The kink-turn motif in RNA is dimorphic, and metal ion-dependent.
2004,
Pubmed Henras,
RNA structure and function in C/D and H/ACA s(no)RNPs.
2004,
Pubmed Hirose,
Splicing-dependent and -independent modes of assembly for intron-encoded box C/D snoRNPs in mammalian cells.
2003,
Pubmed Kiss-László,
Sequence and structural elements of methylation guide snoRNAs essential for site-specific ribose methylation of pre-rRNA.
1998,
Pubmed Kiss-László,
Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs.
1996,
Pubmed Klein,
The kink-turn: a new RNA secondary structure motif.
2001,
Pubmed Kuhn,
Archaeal ribosomal protein L7 is a functional homolog of the eukaryotic 15.5kD/Snu13p snoRNP core protein.
2002,
Pubmed Matsumura,
Biochemical characterization of the kink-turn RNA motif.
2003,
Pubmed Moore,
Site-specific modification of pre-mRNA: the 2'-hydroxyl groups at the splice sites.
1992,
Pubmed Moore,
Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA.
2004,
Pubmed Nicoloso,
Intron-encoded, antisense small nucleolar RNAs: the characterization of nine novel species points to their direct role as guides for the 2'-O-ribose methylation of rRNAs.
1996,
Pubmed Niewmierzycka,
S-Adenosylmethionine-dependent methylation in Saccharomyces cerevisiae. Identification of a novel protein arginine methyltransferase.
1999,
Pubmed Nissen,
RNA tertiary interactions in the large ribosomal subunit: the A-minor motif.
2001,
Pubmed Nottrott,
Functional interaction of a novel 15.5kD [U4/U6.U5] tri-snRNP protein with the 5' stem-loop of U4 snRNA.
1999,
Pubmed Ochs,
Fibrillarin: a new protein of the nucleolus identified by autoimmune sera.
1985,
Pubmed
,
Xenbase Omer,
In vitro reconstitution and activity of a C/D box methylation guide ribonucleoprotein complex.
2002,
Pubmed Rashid,
Functional requirement for symmetric assembly of archaeal box C/D small ribonucleoprotein particles.
2003,
Pubmed Ryder,
Chemical probing of RNA by nucleotide analog interference mapping.
2000,
Pubmed Strobel,
Defining the chemical groups essential for Tetrahymena group I intron function by nucleotide analog interference mapping.
1997,
Pubmed Szewczak,
Exclusive interaction of the 15.5 kD protein with the terminal box C/D motif of a methylation guide snoRNP.
2002,
Pubmed
,
Xenbase Szewczak,
A minor groove RNA triple helix within the catalytic core of a group I intron.
1998,
Pubmed Tollervey,
Temperature-sensitive mutations demonstrate roles for yeast fibrillarin in pre-rRNA processing, pre-rRNA methylation, and ribosome assembly.
1993,
Pubmed Tran,
Efficient RNA 2'-O-methylation requires juxtaposed and symmetrically assembled archaeal box C/D and C'/D' RNPs.
2003,
Pubmed Tycowski,
Modification of U6 spliceosomal RNA is guided by other small RNAs.
1998,
Pubmed
,
Xenbase Tycowski,
A small nucleolar RNA requirement for site-specific ribose methylation of rRNA in Xenopus.
1996,
Pubmed
,
Xenbase Vidovic,
Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment.
2000,
Pubmed Villa,
Processing of the intron-encoded U18 small nucleolar RNA in the yeast Saccharomyces cerevisiae relies on both exo- and endonucleolytic activities.
1998,
Pubmed Watkins,
Conserved stem II of the box C/D motif is essential for nucleolar localization and is required, along with the 15.5K protein, for the hierarchical assembly of the box C/D snoRNP.
2002,
Pubmed Watkins,
A common core RNP structure shared between the small nucleoar box C/D RNPs and the spliceosomal U4 snRNP.
2000,
Pubmed Weinstein,
Guided tours: from precursor snoRNA to functional snoRNP.
1999,
Pubmed Wong,
A double-filter method for nitrocellulose-filter binding: application to protein-nucleic acid interactions.
1993,
Pubmed Xia,
Identification of specific nucleotide sequences and structural elements required for intronic U14 snoRNA processing.
1997,
Pubmed
