2001
SITE SPECIFIC INCORPORATION OF 6-AZAURIDINE INTO THE GENOMIC HDV RIBOZYME ACTIVE SITE
Oyelere A, Strobel S. SITE SPECIFIC INCORPORATION OF 6-AZAURIDINE INTO THE GENOMIC HDV RIBOZYME ACTIVE SITE. Nucleosides Nucleotides & Nucleic Acids 2001, 20: 1851-1858. PMID: 11719998, DOI: 10.1081/ncn-100107196.Peer-Reviewed Original ResearchAn efficient ligation reaction promoted by a Varkud Satellite ribozyme with extended 5′- and 3′-termini
Jones F, Ryder S, Strobel S. An efficient ligation reaction promoted by a Varkud Satellite ribozyme with extended 5′- and 3′-termini. Nucleic Acids Research 2001, 29: 5115-5120. PMID: 11812844, PMCID: PMC97611, DOI: 10.1093/nar/29.24.5115.Peer-Reviewed Original ResearchpH-dependent conformational flexibility within the ribosomal peptidyl transferase center.
Muth G, Chen L, Kosek A, Strobel S. pH-dependent conformational flexibility within the ribosomal peptidyl transferase center. RNA 2001, 7: 1403-15. PMID: 11680845, PMCID: PMC1370184.Peer-Reviewed Original ResearchInvestigation of adenosine base ionization in the hairpin ribozyme by nucleotide analog interference mapping.
Ryder S, Oyelere A, Padilla J, Klostermeier D, Millar D, Strobel S. Investigation of adenosine base ionization in the hairpin ribozyme by nucleotide analog interference mapping. RNA 2001, 7: 1454-63. PMID: 11680850, PMCID: PMC1370189.Peer-Reviewed Original ResearchExploring the mechanism of the peptidyl transfer reaction by chemical footprinting.
Strobel S, Muth G, Chen L. Exploring the mechanism of the peptidyl transfer reaction by chemical footprinting. Cold Spring Harbor Symposia On Quantitative Biology 2001, 66: 109-17. PMID: 12762013, DOI: 10.1101/sqb.2001.66.109.Peer-Reviewed Original Research
2000
A chemical phylogeny of group I introns based upon interference mapping of a bacterial ribozyme11Edited by D. Draper
Strauss-Soukup J, Strobel S. A chemical phylogeny of group I introns based upon interference mapping of a bacterial ribozyme11Edited by D. Draper. Journal Of Molecular Biology 2000, 302: 339-358. PMID: 10970738, DOI: 10.1006/jmbi.2000.4056.Peer-Reviewed Original Research
1999
Nucleotide Analog Interference Mapping of the Hairpin Ribozyme: Implications for Secondary and Tertiary Structure Formation
Ryder S, Strobel S. Nucleotide Analog Interference Mapping of the Hairpin Ribozyme: Implications for Secondary and Tertiary Structure Formation. Journal Of Molecular Biology 1999, 291: 295-311. PMID: 10438622, DOI: 10.1006/jmbi.1999.2959.Peer-Reviewed Original ResearchMeSH KeywordsBase SequenceBinding SitesMolecular Sequence DataNucleic Acid ConformationRibonucleotidesRNA, CatalyticConceptsNucleotide analog interference mappingLoop AMinor groove edgeTertiary structure formationProper foldingThree-dimensional structureHairpin ribozymeNucleotide conservationNMR structureLoop BInterference mappingTertiary interactionsLoop B.Purine nucleotidesBiochemical evidenceRibozymeIntact ribozyme
1998
A minor groove RNA triple helix within the catalytic core of a group I intron
Szewczak A, Ortoleva-Donnelly L, Ryder S, Moncoeur E, Strobel S. A minor groove RNA triple helix within the catalytic core of a group I intron. Nature Structural & Molecular Biology 1998, 5: 1037-1042. PMID: 9846872, DOI: 10.1038/4146.Peer-Reviewed Original ResearchN2-Methylguanosine is iso-energetic with guanosine in RNA duplexes and GNRA tetraloops
Rife J, Cheng C, Moore P, Strobel S. N2-Methylguanosine is iso-energetic with guanosine in RNA duplexes and GNRA tetraloops. Nucleic Acids Research 1998, 26: 3640-3644. PMID: 9685477, PMCID: PMC147776, DOI: 10.1093/nar/26.16.3640.Peer-Reviewed Original ResearchConceptsM2GGNRA tetraloopRNA duplexesG substitutionSecondary structural stabilityHypermethylated regionsRNA structureNatural RNAPossible functionsRNAWatson-Crick pairsTetraloopNucleotidesN2-methylguanosineRibosomesRRNADuplexMethylationThermodynamic consequencesSubstitutionWide varietyDuplex stabilityPairsFunctionGuanosineThe chemical basis of adenosine conservation throughout the Tetrahymena ribozyme.
Ortoleva-Donnelly L, Szewczak A, Gutell R, Strobel S. The chemical basis of adenosine conservation throughout the Tetrahymena ribozyme. RNA 1998, 4: 498-519. PMID: 9582093, PMCID: PMC1369635, DOI: 10.1017/s1355838298980086.Peer-Reviewed Original Research
1996
Three recognition events at the branch‐site adenine.
Query C, Strobel S, Sharp P. Three recognition events at the branch‐site adenine. The EMBO Journal 1996, 15: 1392-1402. PMID: 8635472, PMCID: PMC450044, DOI: 10.1002/j.1460-2075.1996.tb00481.x.Peer-Reviewed Original ResearchExocyclic Amine of the Conserved G·U Pair at the Cleavage Site of the Tetrahymena Ribozyme Contributes to 5‘-Splice Site Selection and Transition State Stabilization †
Strobel S, Cech T. Exocyclic Amine of the Conserved G·U Pair at the Cleavage Site of the Tetrahymena Ribozyme Contributes to 5‘-Splice Site Selection and Transition State Stabilization †. Biochemistry 1996, 35: 1201-1211. PMID: 8573575, DOI: 10.1021/bi952244f.Peer-Reviewed Original Research
1995
Minor Groove Recognition of the Conserved G⋅U Pair at the Tetrahymena ribozyme Reaction Site
Strobel S, Cech T. Minor Groove Recognition of the Conserved G⋅U Pair at the Tetrahymena ribozyme Reaction Site. Science 1995, 267: 675-679. PMID: 7839142, DOI: 10.1126/science.7839142.Peer-Reviewed Original ResearchThe branch site adenosine is recognized differently for the two steps of pre-mRNA splicing.
Query C, Strobel S, Sharp P. The branch site adenosine is recognized differently for the two steps of pre-mRNA splicing. Nucleic Acids Symposium Series 1995, 224-5. PMID: 8643377.Peer-Reviewed Original Research
1994
The 2,6-diaminopurine riboside.5-methylisocytidine wobble base pair: an isoenergetic substitution for the study of G.U pairs in RNA.
Strobel S, Cech T, Usman N, Beigelman L. The 2,6-diaminopurine riboside.5-methylisocytidine wobble base pair: an isoenergetic substitution for the study of G.U pairs in RNA. Biochemistry 1994, 33: 13824-35. PMID: 7524665, DOI: 10.1021/bi00250a037.Peer-Reviewed Original ResearchTranslocation of an RNA duplex on a ribozyme
Strobel S, Cech T. Translocation of an RNA duplex on a ribozyme. Nature Structural & Molecular Biology 1994, 1: 13-17. PMID: 7544680, DOI: 10.1038/nsb0194-13.Peer-Reviewed Original Research
1993
Tertiary interactions with the internal guide sequence mediate docking of the P1 helix into the catalytic core of the Tetrahymena ribozyme.
Strobel S, Cech T. Tertiary interactions with the internal guide sequence mediate docking of the P1 helix into the catalytic core of the Tetrahymena ribozyme. Biochemistry 1993, 32: 13593-604. PMID: 7504953, DOI: 10.1021/bi00212a027.Peer-Reviewed Original ResearchA novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes
MacDonald M, Ambrose C, Duyao M, Myers R, Lin C, Srinidhi L, Barnes G, Taylor S, James M, Groot N, MacFarlane H, Jenkins B, Anderson M, Wexler N, Gusella J, Bates G, Baxendale S, Hummerich H, Kirby S, North M, Youngman S, Mott R, Zehetner G, Sedlacek Z, Poustka A, Frischauf A, Lehrach H, Buckler A, Church D, Doucette-Stamm L, O'Donovan M, Riba-Ramirez L, Shah M, Stanton V, Strobel S, Draths K, Wales J, Dervan P, Housman D, Altherr M, Shiang R, Thompson L, Fielder T, Wasmuth J, Tagle D, Valdes J, Elmer L, Allard M, Castilla L, Swaroop M, Blanchard K, Collins F, Snell R, Holloway T, Gillespie K, Datson N, Shaw D, Harper P. A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes. Cell 1993, 72: 971-983. PMID: 8458085, DOI: 10.1016/0092-8674(93)90585-e.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SequenceBase SequenceChromosomes, Human, Pair 4Cloning, MolecularExonsGene ExpressionGenesHumansHuntington DiseaseMolecular Sequence DataMutationOligodeoxyribonucleotidesPedigreePolymerase Chain ReactionPolymorphism, GeneticRepetitive Sequences, Nucleic AcidRestriction MappingRNA, MessengerConceptsDisease genesTrinucleotide repeatsUnstable DNA segmentDisease chromosomesFragile X syndromeNew genesNovel genesSpino-bulbar muscular atrophyDNA segmentsHuntington's disease geneDominant phenotypeKD proteinGenesChromosomesLinkage disequilibriumHD chromosomesX syndromeHuntington's disease chromosomesRepeatsHaplotype analysisDisease familiesPolymorphic trinucleotide repeatHD mutationMyotonic dystrophyExons
1991
Site-Specific Cleavage of Human Chromosome 4 Mediated by Triple-Helix Formation
Strobel S, Doucette-Stamm L, Riba L, Housman D, Dervan P. Site-Specific Cleavage of Human Chromosome 4 Mediated by Triple-Helix Formation. Science 1991, 254: 1639-1642. PMID: 1836279, DOI: 10.1126/science.1836279.Peer-Reviewed Original ResearchConceptsHuman chromosome 4Human chromosomesChromosome 4Disease genesTriple helix formationEntire candidate regionSpecific DNA segmentsCandidate gene lociSite-specific cleavageGigabase pairsHuman genomeEnzymatic cleavageRecognition motifDNA segmentsGene locusGenomic DNAHuntington's disease geneHuman geneticsTarget siteChromosomesSized fragmentsCandidate regionsCleavageGenomePhysical isolationSingle-site enzymatic cleavage of yeast genomic DNA mediated by triple helix formation
Strobel S, Dervan P. Single-site enzymatic cleavage of yeast genomic DNA mediated by triple helix formation. Nature 1991, 350: 172-174. PMID: 1848684, DOI: 10.1038/350172a0.Peer-Reviewed Original ResearchConceptsTriple helix formationGenomic DNABase pairsYeast genomic DNAHelix formationSequence-specific DNALarge genomic DNAGenomic libraryMegabase pairsPhysical mappingEnzymatic cleavageRecognition motifSpecificity of bindingChromosomal DNARestriction endonuclease digestionManageable fragmentsRecognition sequenceGenetic markersDNA showRestriction enzymesQuantitative cleavageLarge DNADNAEndonuclease digestionChromosomes