Search Results - "Fedor, Martha J"

Comparative enzymology and structural biology of RNA self-cleavage by Fedor, Martha J

“…Self-cleaving hammerhead, hairpin, hepatitis delta virus, and glmS ribozymes comprise a family of small catalytic RNA motifs that catalyze the same reversible…”
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The glmS riboswitch integrates signals from activating and inhibitory metabolites in vivo by Fedor, Martha J, Watson, Peter Y

“…Riboswitches are RNA elements that provide feedback regulation of metabolic genes upon ligand binding. The glmS riboswitch is also a ribozyme, self-cleaving…”
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mRNA secondary structures fold sequentially but exchange rapidly in vivo by Mahen, Elisabeth M, Watson, Peter Y, Cottrell, Joseph W, Fedor, Martha J

“…RNAs adopt defined structures to perform biological activities, and conformational transitions among alternative structures are critical to virtually all…”
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Structure and function of the hairpin ribozyme by Fedor, Martha J

“…The hairpin ribozyme belongs to the family of small catalytic RNAs that cleave RNA substrates in a reversible reaction that generates 2′,3′-cyclic phosphate…”
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Direct measurement of the ionization state of an essential guanine in the hairpin ribozyme by Fedor, Martha J, Liu, Lu, Cottrell, Joseph W, Scott, Lincoln G

“…Active site guanines are critical for self-cleavage reactions of several ribozymes, but their precise functions in catalysis are unclear. To learn whether…”
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Role of an Active Site Guanine in Hairpin Ribozyme Catalysis Probed by Exogenous Nucleobase Rescue by Kuzmin, Yaroslav I, Da Costa, Carla P, Fedor, Martha J

“…The hairpin ribozyme is a small catalytic RNA with reversible phosphodiester cleavage activity. Biochemical and structural studies exclude a requirement for…”
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Kinetics and Thermodynamics Make Different Contributions to RNA Folding In Vitro and in Yeast by Mahen, Elisabeth M., Harger, Jason W., Calderon, Elise M., Fedor, Martha J.

“…RNAs somehow adopt specific functional structures despite the capacity to form alternative nonfunctional structures with similar stabilities. We analyzed RNA…”
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Functional Analysis of Hairpin Ribozyme Active Site Architecture by Cottrell, Joseph W., Kuzmin, Yaroslav I., Fedor, Martha J.

“…The hairpin ribozyme is a small catalytic motif found in plant satellite RNAs where it catalyzes a reversible self-cleavage reaction during processing of…”
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The ydaO motif is an ATP-sensing riboswitch in Bacillus subtilis by Watson, Peter Y, Fedor, Martha J

“…Riboswitches—RNA motifs that regulate gene expression in response to binding of specific ligands—have been identified for many small-molecule metabolites. An…”
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The catalytic diversity of RNAs by Fedor, Martha J, Williamson, James R

“…The natural RNA enzymes catalyse phosphate-group transfer and peptide-bond formation. Initially, metal ions were proposed to supply the chemical versatility…”
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The glmS Ribozyme Cofactor is a General Acid–Base Catalyst by Viladoms, Júlia, Fedor, Martha J

“…The glmS ribozyme is the first natural self-cleaving ribozyme known to require a cofactor. The d-glucosamine-6-phosphate (GlcN6P) cofactor has been proposed to…”
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An Active-Site Guanine Participates in glmS Ribozyme Catalysis in Its Protonated State by Viladoms, Júlia, Scott, Lincoln G, Fedor, Martha J

“…Active-site guanines that occupy similar positions have been proposed to serve as general base catalysts in hammerhead, hairpin, and glmS ribozymes, but no…”
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The pH Dependence of Hairpin Ribozyme Catalysis Reflects Ionization of an Active Site Adenine by Cottrell, Joseph W., Scott, Lincoln G., Fedor, Martha J.

“…Understanding how self-cleaving ribozymes mediate catalysis is crucial in light of compelling evidence that human and bacterial gene expression can be…”
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Kinetics of intermolecular cleavage by hammerhead ribozymes by Fedor, Martha J, Uhlenbeck, Olke C

“…The hammerhead catalytic RNA effects cleavage of the phosphodiester backbone of RNA through a transesterification mechanism that generates products with…”
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A DEAD-box RNA helicase promotes thermodynamic equilibration of kinetically trapped RNA structures in vivo by Ruminski, Dana J, Watson, Peter Y, Mahen, Elisabeth M, Fedor, Martha J

“…RNAs must assemble into specific structures in order to carry out their biological functions, but in vitro RNA folding reactions produce multiple misfolded…”
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Alternative Splicing Minireview Series: Combinatorial Control Facilitates Splicing Regulation of Gene Expression and Enhances Genome Diversity by Fedor, Martha J.

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The role of metal ions in RNA catalysis by Fedor, Martha J

“…Understanding the catalytic mechanisms of RNA enzymes remains an important and intriguing challenge — one that has grown in importance since the recent…”
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Role of an Active Site Adenine in Hairpin Ribozyme Catalysis by Kuzmin, Yaroslav I., Da Costa, Carla P., Cottrell, Joseph W., Fedor, Martha J.

“…The hairpin ribozyme is a small catalytic RNA that accelerates reversible cleavage of a phosphodiester bond. Structural and mechanistic studies suggest that…”
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8-Azaguanine Reporter of Purine Ionization States in Structured RNAs by Da Costa, Carla P, Fedor, Martha J, Scott, Lincoln G

“…The fluorescent nucleotide analogue 8-azaguanosine-5‘-triphosphate (8azaGTP) is prepared easily by in vitro enzymatic synthesis methods. 8azaGTP is an…”
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Tertiary Structure Stabilization Promotes Hairpin Ribozyme Ligation by Fedor, Martha J

“…The hairpin ribozyme catalyzes a reversible RNA cleavage reaction that participates in processing intermediates of viral satellite RNA replication in plants. A…”
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