Daniel Herschlag
Publications
- Fundamental Challenges in Mechanistic Enzymology: Progress toward Understanding the Rate Enhancements of Enzymes. Biochemistry. 2013
- Ground state destabilization from a positioned general base in the ketosteroid isomerase active site. Biochemistry. 2013; (6): 1074-81
- Structural ensemble and microscopic elasticity of freely diffusing DNA by direct measurement of fluctuations. Proc Natl Acad Sci U S A. 2013; (16): E1444-51
- A role for a single-stranded junction in RNA binding and specificity by the Tetrahymena group I ribozyme. J Am Chem Soc. 2012; (4): 1910-3
- Electrostatics of nucleic acid folding under conformational constraint. J Am Chem Soc. 2012; (10): 4607-14
- Exploring purine N7 interactions via atomic mutagenesis: the group I ribozyme as a case study. RNA. 2012; (6): 1222-9
- High-resolution analysis of Zn(2+) coordination in the alkaline phosphatase superfamily by EXAFS and x-ray crystallography. J Mol Biol. 2012; (1): 102-17
- Metal-ion rescue revisited: biochemical detection of site-bound metal ions important for RNA folding. RNA. 2012; (6): 1123-41
- Quantitative, directional measurement of electric field heterogeneity in the active site of ketosteroid isomerase. Proc Natl Acad Sci U S A. 2012; (6): E299-308
- Robust design and optimization of retroaldol enzymes. Protein Sci. 2012; (5): 717-26
- Salt dependence of the radius of gyration and flexibility of single-stranded DNA in solution probed by small-angle x-ray scattering. Phys Rev E Stat Nonlin Soft Matter Phys. 2012; (2 Pt 1): 021901
- Single Molecule Analysis Research Tool (SMART): an integrated approach for analyzing single molecule data. PLoS One. 2012; (2): e30024
- Thermodynamic evidence for negative charge stabilization by a catalytic metal ion within an RNA active site. ACS Chem Biol. 2012; (2): 294-9
- 2'-Fluoro substituents can mimic native 2'-hydroxyls within structured RNA. Chem Biol. 2011; (8): 949-54
- Biological phosphoryl-transfer reactions: understanding mechanism and catalysis. Annu Rev Biochem. 2011: 669-702
- Evaluating the catalytic contribution from the oxyanion hole in ketosteroid isomerase. J Am Chem Soc. 2011; (50): 20052-5
- Identification of RNA recognition elements in the Saccharomyces cerevisiae transcriptome. Nucleic Acids Res. 2011; (4): 1501-9
- Implications of molecular heterogeneity for the cooperativity of biological macromolecules. Nat Struct Mol Biol. 2011; (6): 732-4
- Isotope-edited FTIR of alkaline phosphatase resolves paradoxical ligand binding properties and suggests a role for ground-state destabilization. J Am Chem Soc. 2011; (30): 11621-31
- Removal of covalent heterogeneity reveals simple folding behavior for P4-P6 RNA. J Biol Chem. 2011; (22): 19872-9
- Structure-function analysis from the outside in: long-range tertiary contacts in RNA exhibit distinct catalytic roles. Biochemistry. 2011; (40): 8733-55
- Tightening of active site interactions en route to the transition state revealed by single-atom substitution in the guanosine-binding site of the Tetrahymena group I ribozyme. J Am Chem Soc. 2011; (20): 7791-800
- A rearrangement of the guanosine-binding site establishes an extended network of functional interactions in the Tetrahymena group I ribozyme active site. Biochemistry. 2010; (12): 2753-62
- Decomposition of vibrational shifts of nitriles into electrostatic and hydrogen-bonding effects. J Am Chem Soc. 2010; (37): 12811-3
- Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding. RNA. 2010; (4): 708-19
- Dissecting the paradoxical effects of hydrogen bond mutations in the ketosteroid isomerase oxyanion hole. Proc Natl Acad Sci U S A. 2010; (5): 1960-5
- Hydrogen bonding in the active site of ketosteroid isomerase: electronic inductive effects and hydrogen bond coupling. Biochemistry. 2010; (48): 10339-48
- Measuring the energetic coupling of tertiary contacts in RNA folding using single molecule fluorescence resonance energy transfer. Methods Enzymol. 2010: 205-20
- Multiple native states reveal persistent ruggedness of an RNA folding landscape. Nature. 2010; (7281): 681-4
- Multiple unfolding events during native folding of the Tetrahymena group I ribozyme. J Mol Biol. 2010; (5): 1067-77
- Origins of catalysis by computationally designed retroaldolase enzymes. Proc Natl Acad Sci U S A. 2010; (11): 4937-42
- The ligand-free state of the TPP riboswitch: a partially folded RNA structure. J Mol Biol. 2010; (1): 153-65
- Biophysical, chemical, and functional probes of RNA structure, interactions and folding: Part A. Preface. Methods Enzymol. 2009: xv
- Coarse-grained modeling of large RNA molecules with knowledge-based potentials and structural filters. RNA. 2009; (2): 189-99
- Concordant regulation of translation and mRNA abundance for hundreds of targets of a human microRNA. PLoS Biol. 2009; (11): e1000238
- Determining the catalytic role of remote substrate binding interactions in ketosteroid isomerase. Proc Natl Acad Sci U S A. 2009; (34): 14271-5
- Do conformational biases of simple helical junctions influence RNA folding stability and specificity? RNA. 2009; (12): 2195-205
- Evaluating the potential for halogen bonding in the oxyanion hole of ketosteroid isomerase using unnatural amino acid mutagenesis. ACS Chem Biol. 2009; (4): 269-73
- Fluorescence polarization anisotropy to measure RNA dynamics. Methods Enzymol. 2009: 287-302
- Hydrogen bond coupling in the ketosteroid isomerase active site. Biochemistry. 2009; (29): 6932-9
- Hydrogen bond dynamics in the active site of photoactive yellow protein. Proc Natl Acad Sci U S A. 2009; (23): 9232-7
- Metal ion-based RNA cleavage as a structural probe. Methods Enzymol. 2009: 91-106
- Methods of site-specific labeling of RNA with fluorescent dyes. Methods Enzymol. 2009: 47-68
- Motions of the substrate recognition duplex in a group I intron assessed by site-directed spin labeling. J Am Chem Soc. 2009; (9): 3136-7
- Probing nucleic acid-ion interactions with buffer exchange-atomic emission spectroscopy. Methods Enzymol. 2009: 375-89
- Probing the dynamics of the P1 helix within the Tetrahymena group I intron. J Am Chem Soc. 2009; (27): 9571-8
- RNA. Preface. Methods Enzymol. 2009: xvii
- Riboswitch conformations revealed by small-angle X-ray scattering. Methods Mol Biol. 2009: 141-59
- Structure and function converge to identify a hydrogen bond in a group I ribozyme active site. Angew Chem Int Ed Engl. 2009; (39): 7171-5
- The far reaches of enzymology. Nat Chem Biol. 2009; (8): 516-20
- Use of phosphorothioates to identify sites of metal-ion binding in RNA. Methods Enzymol. 2009: 311-33
- A repulsive field: advances in the electrostatics of the ion atmosphere. Curr Opin Chem Biol. 2008; (6): 619-25
- Arginine coordination in enzymatic phosphoryl transfer: evaluation of the effect of Arg166 mutations in Escherichia coli alkaline phosphatase. Biochemistry. 2008; (29): 7663-72
- Comparative enzymology in the alkaline phosphatase superfamily to determine the catalytic role of an active-site metal ion. J Mol Biol. 2008; (5): 1174-89
- Coupling between ATP binding and DNA cleavage by DNA topoisomerase II: A unifying kinetic and structural mechanism. J Biol Chem. 2008; (25): 17463-76
- Critical assessment of nucleic acid electrostatics via experimental and computational investigation of an unfolded state ensemble. J Am Chem Soc. 2008; (37): 12334-41
- Direct measurement of tertiary contact cooperativity in RNA folding. J Am Chem Soc. 2008; (19): 6085-7
- Diverse RNA-binding proteins interact with functionally related sets of RNAs, suggesting an extensive regulatory system. PLoS Biol. 2008; (10): e255
- Functional identification of ligands for a catalytic metal ion in group I introns. Biochemistry. 2008; (26): 6883-94
- Promiscuous sulfatase activity and thio-effects in a phosphodiesterase of the alkaline phosphatase superfamily. Biochemistry. 2008; (48): 12853-9
- Semiautomated and rapid quantification of nucleic acid footprinting and structure mapping experiments. Nat Protoc. 2008; (9): 1395-401
- Structural inference of native and partially folded RNA by high-throughput contact mapping. Proc Natl Acad Sci U S A. 2008; (11): 4144-9
- Systematic identification of mRNAs recruited to argonaute 2 by specific microRNAs and corresponding changes in transcript abundance. PLoS One. 2008; (5): e2126
- Testing geometrical discrimination within an enzyme active site: constrained hydrogen bonding in the ketosteroid isomerase oxyanion hole. J Am Chem Soc. 2008; (41): 13696-708
- Unwinding RNA's secrets: advances in the biology, physics, and modeling of complex RNAs. Curr Opin Struct Biol. 2008; (3): 305-14
- DNA topoisomerase II selects DNA cleavage sites based on reactivity rather than binding affinity. Nucleic Acids Res. 2007; (11): 3764-73
- Do ligand binding and solvent exclusion alter the electrostatic character within the oxyanion hole of an enzymatic active site? J Am Chem Soc. 2007; (40): 12104-5
- Evaluation of ion binding to DNA duplexes using a size-modified Poisson-Boltzmann theory. Biophys J. 2007; (9): 3202-9
- Kinetic isotope effects for alkaline phosphatase reactions: implications for the role of active-site metal ions in catalysis. J Am Chem Soc. 2007; (31): 9789-98
- Low specificity of metal ion binding in the metal ion core of a folded RNA. RNA. 2007; (8): 1205-13
- Measuring the folding transition time of single RNA molecules. Biophys J. 2007; (9): 3275-83
- Modulation of individual steps in group I intron catalysis by a peripheral metal ion. RNA. 2007; (10): 1656-67
- Probing the origin of the compromised catalysis of E. coli alkaline phosphatase in its promiscuous sulfatase reaction. J Am Chem Soc. 2007; (17): 5760-5
- Probing the role of a secondary structure element at the 5'- and 3'-splice sites in group I intron self-splicing: the tetrahymena L-16 ScaI ribozyme reveals a new role of the G.U pair in self-splicing. Biochemistry. 2007; (16): 4861-75
- Quantitative and comprehensive decomposition of the ion atmosphere around nucleic acids. J Am Chem Soc. 2007; (48): 14981-8
- Structural transitions and thermodynamics of a glycine-dependent riboswitch from Vibrio cholerae. J Mol Biol. 2007; (5): 1393-406
- Alkaline phosphatase mono- and diesterase reactions: comparative transition state analysis. J Am Chem Soc. 2006; (4): 1293-303
- Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid. Science. 2006; (5801): 1001-4
- Genome-wide identification of mRNAs associated with the translational regulator PUMILIO in Drosophila melanogaster. Proc Natl Acad Sci U S A. 2006; (12): 4487-92
- Interdomain communication in DNA topoisomerase II. DNA binding and enzyme activation. J Biol Chem. 2006; (33): 23395-404
- Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins. Proc Natl Acad Sci U S A. 2006; (16): 6190-5
- Structural and functional comparisons of nucleotide pyrophosphatase/phosphodiesterase and alkaline phosphatase: implications for mechanism and evolution. Biochemistry. 2006; (32): 9788-803
- Testing electrostatic complementarity in enzyme catalysis: hydrogen bonding in the ketosteroid isomerase oxyanion hole. PLoS Biol. 2006; (4): e99
- The paradoxical behavior of a highly structured misfolded intermediate in RNA folding. J Mol Biol. 2006; (2): 531-44
- Alkaline phosphatase catalysis is ultrasensitive to charge sequestered between the active site zinc ions. J Am Chem Soc. 2005; (26): 9314-5
- Determining the Mg2+ stoichiometry for folding an RNA metal ion core. J Am Chem Soc. 2005; (23): 8272-3
- Dissecting eukaryotic translation and its control by ribosome density mapping. Nucleic Acids Res. 2005; (8): 2421-32
- Functional identification of catalytic metal ion binding sites within RNA. PLoS Biol. 2005; (9): e277
- Probing counterion modulated repulsion and attraction between nucleic acid duplexes in solution. Proc Natl Acad Sci U S A. 2005; (4): 1035-40
- Promiscuous catalysis by the tetrahymena group I ribozyme. J Am Chem Soc. 2005; (17): 6160-1
- SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments. RNA. 2005; (3): 344-54
- Structural specificity conferred by a group I RNA peripheral element. Proc Natl Acad Sci U S A. 2005; (29): 10176-81
- A base triple in the Tetrahymena group I core affects the reaction equilibrium via a threshold effect. RNA. 2004; (11): 1730-9
- Do electrostatic interactions with positively charged active site groups tighten the transition state for enzymatic phosphoryl transfer? J Am Chem Soc. 2004; (38): 11814-9
- Extensive association of functionally and cytotopically related mRNAs with Puf family RNA-binding proteins in yeast. PLoS Biol. 2004; (3): E79
- Principles of RNA compaction: insights from the equilibrium folding pathway of the P4-P6 RNA domain in monovalent cations. J Mol Biol. 2004; (5): 1195-206
- Spatial distribution of competing ions around DNA in solution. Phys Rev Lett. 2004; (24): 248103
- Adenosine 5'-O-(3-thio)triphosphate (ATPgammaS) is a substrate for the nucleotide hydrolysis and RNA unwinding activities of eukaryotic translation initiation factor eIF4A. RNA. 2003; (10): 1180-7
- Challenges in enzyme mechanism and energetics. Annu Rev Biochem. 2003: 517-71
- Counterion distribution around DNA probed by solution X-ray scattering. Phys Rev Lett. 2003; (18): 188103
- Exploration of the transition state for tertiary structure formation between an RNA helix and a large structured RNA. J Mol Biol. 2003; (5): 1011-26
- Extraordinarily slow binding of guanosine to the Tetrahymena group I ribozyme: implications for RNA preorganization and function. Proc Natl Acad Sci U S A. 2003; (5): 2300-5
- Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2003; (7): 3889-94
- The fastest global events in RNA folding: electrostatic relaxation and tertiary collapse of the Tetrahymena ribozyme. J Mol Biol. 2003; (2): 311-9
- Widespread cytoplasmic mRNA transport in yeast: identification of 22 bud-localized transcripts using DNA microarray analysis. Proc Natl Acad Sci U S A. 2003; (20): 11429-34
- Alkaline phosphatase revisited: hydrolysis of alkyl phosphates. Biochemistry. 2002; (9): 3207-25
- Dissection of a metal-ion-mediated conformational change in Tetrahymena ribozyme catalysis. RNA. 2002; (7): 861-72
- Environmental effects on phosphoryl group bonding probed by vibrational spectroscopy: implications for understanding phosphoryl transfer and enzymatic catalysis. J Am Chem Soc. 2002; (38): 11295-306
- Exploring the folding landscape of a structured RNA. Proc Natl Acad Sci U S A. 2002; (1): 155-60
- Precision and functional specificity in mRNA decay. Proc Natl Acad Sci U S A. 2002; (9): 5860-5
- Probing the Tetrahymena group I ribozyme reaction in both directions. Biochemistry. 2002; (37): 11171-83
- RNA simulations: probing hairpin unfolding and the dynamics of a GNRA tetraloop. J Mol Biol. 2002; (4): 493-506
- Rapid compaction during RNA folding. Proc Natl Acad Sci U S A. 2002; (7): 4266-71
- Chemical rescue of phosphoryl transfer in a cavity mutant: a cautionary tale for site-directed mutagenesis. Biochemistry. 2001; (2): 403-13
- Comparison of the hammerhead cleavage reactions stimulated by monovalent and divalent cations. RNA. 2001; (4): 537-45
- Defining the catalytic metal ion interactions in the Tetrahymena ribozyme reaction. Biochemistry. 2001; (17): 5161-71
- Functional interrelationships in the alkaline phosphatase superfamily: phosphodiesterase activity of Escherichia coli alkaline phosphatase. Biochemistry. 2001; (19): 5691-9
- Probing the folding landscape of the Tetrahymena ribozyme: commitment to form the native conformation is late in the folding pathway. J Mol Biol. 2001; (5): 839-51
- Role of SRP RNA in the GTPase cycles of Ffh and FtsY. Biochemistry. 2001; (50): 15224-33
- A single-molecule study of RNA catalysis and folding. Science. 2000; (5473): 2048-51
- An unconventional origin of metal-ion rescue and inhibition in the Tetrahymena group I ribozyme reaction. RNA. 2000; (6): 795-813
- Role of 4.5S RNA in assembly of the bacterial signal recognition particle with its receptor. Science. 2000; (5471): 1640-3
- Small angle X-ray scattering reveals a compact intermediate in RNA folding. Nat Struct Biol. 2000; (5): 367-70
- The P5abc peripheral element facilitates preorganization of the tetrahymena group I ribozyme for catalysis. Biochemistry. 2000; (10): 2639-51
- The role of the cleavage site 2'-hydroxyl in the Tetrahymena group I ribozyme reaction. Chem Biol. 2000; (2): 85-96
- Use of duplex rigidity for stability and specificity in RNA tertiary structure. Biochemistry. 2000; (20): 6183-9
- A new heat shock protein that binds nucleic acids. J Biol Chem. 1999; (1): 249-56
- Assembly of an exceptionally stable RNA tertiary interface in a group I ribozyme. Biochemistry. 1999; (10): 2982-90
- Catalytic promiscuity and the evolution of new enzymatic activities. Chem Biol. 1999; (4): R91-R105
- Characterization of a local folding event of the Tetrahymena group I ribozyme: effects of oligonucleotide substrate length, pH, and temperature on the two substrate binding steps. Biochemistry. 1999; (43): 14192-204
- Effects of oligonucleotide length and atomic composition on stimulation of the ATPase activity of translation initiation factor elF4A. RNA. 1999; (9): 1210-21
- Hydrogen bonding in enzymatic catalysis: analysis of energetic contributions. Methods Enzymol. 1999: 246-76
- Identification of the hammerhead ribozyme metal ion binding site responsible for rescue of the deleterious effect of a cleavage site phosphorothioate. Biochemistry. 1999; (43): 14363-78
- Impaired transition state complementarity in the hydrolysis of O-arylphosphorothioates by protein-tyrosine phosphatases. Biochemistry. 1999; (37): 12111-23
- Kinetic dissection of fundamental processes of eukaryotic translation initiation in vitro. EMBO J. 1999; (23): 6705-17
- New pathways in folding of the Tetrahymena group I RNA enzyme. J Mol Biol. 1999; (5): 1155-67
- Nucleophilic activation by positioning in phosphoryl transfer catalyzed by nucleoside diphosphate kinase. Biochemistry. 1999; (15): 4701-11
- Probing the role of metal ions in RNA catalysis: kinetic and thermodynamic characterization of a metal ion interaction with the 2'-moiety of the guanosine nucleophile in the Tetrahymena group I ribozyme. Biochemistry. 1999; (34): 10958-75
- Protonated 2'-aminoguanosine as a probe of the electrostatic environment of the active site of the Tetrahymena group I ribozyme. Biochemistry. 1999; (34): 10976-88
- Specificity from steric restrictions in the guanosine binding pocket of a group I ribozyme. RNA. 1999; (2): 158-66
- Stereospecificity of reactions catalyzed by HIV-1 integrase. J Biol Chem. 1999; (47): 33480-7
- Three metal ions at the active site of the Tetrahymena group I ribozyme. Proc Natl Acad Sci U S A. 1999; (22): 12299-304
- A core folding model for catalysis by the hammerhead ribozyme accounts for its extraordinary sensitivity to abasic mutations. Biochemistry. 1998; (42): 14765-75
- Direct demonstration of the catalytic role of binding interactions in an enzymatic reaction. Biochemistry. 1998; (28): 9902-11
- Ribozyme crevices and catalysis. Nature. 1998; (6702): 548-9
- Structure-function relationships in the hammerhead ribozyme probed by base rescue. RNA. 1998; (11): 1332-46
- The DEAD box protein eIF4A. 1. A minimal kinetic and thermodynamic framework reveals coupled binding of RNA and nucleotide. Biochemistry. 1998; (8): 2180-93
- The DEAD box protein eIF4A. 2. A cycle of nucleotide and RNA-dependent conformational changes. Biochemistry. 1998; (8): 2194-206
- Effects of divalent metal ions on individual steps of the Tetrahymena ribozyme reaction. Biochemistry. 1997; (27): 8293-303
- Involvement of a specific metal ion in the transition of the hammerhead ribozyme to its catalytic conformation. J Biol Chem. 1997; (43): 26822-6
- Mechanistic aspects of enzymatic catalysis: lessons from comparison of RNA and protein enzymes. Annu Rev Biochem. 1997: 19-59
- Quantitating tertiary binding energies of 2' OH groups on the P1 duplex of the Tetrahymena ribozyme: intrinsic binding energy in an RNA enzyme. Biochemistry. 1997; (9): 2465-77
- Use of intrinsic binding energy for catalysis by an RNA enzyme. Proc Natl Acad Sci U S A. 1997; (16): 8497-502
- Isolation of a local tertiary folding transition in the context of a globally folded RNA. Nat Struct Biol. 1996; (8): 701-10
- Mechanistic investigations of a ribozyme derived from the Tetrahymena group I intron: insights into catalysis and the second step of self-splicing. Biochemistry. 1996; (18): 5796-809
- Ras-catalyzed hydrolysis of GTP: a new perspective from model studies. Proc Natl Acad Sci U S A. 1996; (16): 8160-6
- Rescue of abasic hammerhead ribozymes by exogenous addition of specific bases. Proc Natl Acad Sci U S A. 1996; (21): 11522-7
- Specificity of hammerhead ribozyme cleavage. EMBO J. 1996; (14): 3751-7
- The change in hydrogen bond strength accompanying charge rearrangement: implications for enzymatic catalysis. Proc Natl Acad Sci U S A. 1996; (25): 14474-9
- The energetics of hydrogen bonds in model systems: implications for enzymatic catalysis. Science. 1996; (5258): 97-101
- pH dependencies of the Tetrahymena ribozyme reveal an unconventional origin of an apparent pKa. Biochemistry. 1996; (5): 1560-70
- Mapping the transition state for ATP hydrolysis: implications for enzymatic catalysis. Chem Biol. 1995; (11): 729-39
- RNA chaperones and the RNA folding problem. J Biol Chem. 1995; (36): 20871-4
- The nature of the transition state for enzyme-catalyzed phosphoryl transfer. Hydrolysis of O-aryl phosphorothioates by alkaline phosphatase. Biochemistry. 1995; (38): 12255-64
- Use of binding energy by an RNA enzyme for catalysis by positioning and substrate destabilization. Proc Natl Acad Sci U S A. 1995; (9): 3668-72
- A kinetic and thermodynamic framework for the hammerhead ribozyme reaction. Biochemistry. 1994; (11): 3374-85
- An RNA chaperone activity of non-specific RNA binding proteins in hammerhead ribozyme catalysis. EMBO J. 1994; (12): 2913-24
- Comparison of pH dependencies of the Tetrahymena ribozyme reactions with RNA 2'-substituted and phosphorothioate substrates reveals a rate-limiting conformational step. Biochemistry. 1994; (17): 5291-7
- Dissection of the role of the conserved G.U pair in group I RNA self-splicing. Biochemistry. 1994; (46): 13864-79
- Escherichia coli proteins, including ribosomal protein S12, facilitate in vitro splicing of phage T4 introns by acting as RNA chaperones. Genes Dev. 1994; (13): 1575-88
- Catalysis of the hydrolysis of phosphorylated pyridines by alkaline phosphatase has little or no dependence on the pKa of the leaving group. Biochemistry. 1993; (34): 8737-41
- Contributions of 2'-hydroxyl groups of the RNA substrate to binding and catalysis by the Tetrahymena ribozyme. An energetic picture of an active site composed of RNA. Biochemistry. 1993; (32): 8299-311
- Guanosine binding to the Tetrahymena ribozyme: thermodynamic coupling with oligonucleotide binding. Proc Natl Acad Sci U S A. 1993; (18): 8362-6
- Protein enhancement of hammerhead ribozyme catalysis. Science. 1993; (5130): 99-102
- Synergism in transcriptional activation: a kinetic view. Genes Dev. 1993; (2): 173-9
- The importance of being ribose at the cleavage site in the Tetrahymena ribozyme reaction. Biochemistry. 1993; (32): 8312-21
- Evidence for processivity and two-step binding of the RNA substrate from studies of J1/2 mutants of the Tetrahymena ribozyme. Biochemistry. 1992; (5): 1386-99
- Mutations at the guanosine-binding site of the Tetrahymena ribozyme also affect site-specific hydrolysis. Nucleic Acids Res. 1992; (24): 6613-9
- RNA catalysis by a group I ribozyme. Developing a model for transition state stabilization. J Biol Chem. 1992; (25): 17479-82
- Implications of ribozyme kinetics for targeting the cleavage of specific RNA molecules in vivo: more isn't always better. Proc Natl Acad Sci U S A. 1991; (16): 6921-5
- Mutations in a nonconserved sequence of the Tetrahymena ribozyme increase activity and specificity. Cell. 1991; (5): 1007-19
- Ribozyme-catalyzed and nonenzymatic reactions of phosphate diesters: rate effects upon substitution of sulfur for a nonbridging phosphoryl oxygen atom. Biochemistry. 1991; (20): 4844-54
- Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site. Biochemistry. 1990; (44): 10159-71
- Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 2. Kinetic description of the reaction of an RNA substrate that forms a mismatch at the active site. Biochemistry. 1990; (44): 10172-80
- Catalysis of the hydrolysis of phosphorylated pyridines by Mg(OH)+: a possible model for enzymatic phosphoryl transfer. Biochemistry. 1990; (21): 5172-9
- DNA cleavage catalysed by the ribozyme from Tetrahymena. Nature. 1990; (6265): 405-9
- Nucleophiles of High Reactivity in Phosphoryl Transfer Reactions: α-Effect Compounds and Fluoride Ion. J. Am. Chem. Soc.. 1990: 1951-1956
- The Effect of Mg2+, Hydrogen Bonding and Steric Factors on Rate and Equilibrium Constants for Phosphoryl Transfer between Carboxylate Ions and Pyridines. J. Am. Chem. Soc.. 1990: 1942-1950
- Evidence That Metaphosphate is Not an Intermediate in Solvolysis Reactions in Aqueous Solution J. Am. Chem. Soc.. 1989: 7579-7586
- Phosphoryl Transfer to Oxyanions: The Nature of the Transition State and Electrostatic Repulsion. J. Am. Chem. Soc.. 1989: 7587-7596
- The Role of Induced Fit and Conformational Changes of Enzymes in Specificity and Catalysis. Bioorganic Chemistry. 1988: 62-96
- The Effect of Divalent Metal Ions on the Rate and Transition State Structure of Phosphoryl Transfer Reactions. J. Am. Chem. Soc.. 1987: 4665-4674
- Decreasing Reactivity with Increasing Nucleophile Basicity. The Effect of Solvation on βnuc for Phosphoryl Transfer to Amines J. Am. Chem. Soc.. 1986: 479
- Pyrophosphate Formation from Acetyl Phosphate and Orthophosphate Anions in Concentrated Aqueous Salt Solutions Does Not Provide Evidence for a Metaphosphate Intermediate J. Am. Chem. Soc.. 1986: 7938
- Galactofuranosyl-containing glycopeptide of Penicillium charlesii. Vacuum ultraviolet circular dichroism. Int J Pept Protein Res. 1983; (1): 16-20
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