Joseph Piccirilli to RNA
This is a "connection" page, showing publications Joseph Piccirilli has written about RNA.
Connection Strength
8.786
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Structural Basis for Fluorescence Activation by Pepper RNA. ACS Chem Biol. 2022 07 15; 17(7):1866-1875.
Score: 0.530
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Affinity maturation of a portable Fab-RNA module for chaperone-assisted RNA crystallography. Nucleic Acids Res. 2018 03 16; 46(5):2624-2635.
Score: 0.394
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Specific Recognition of a Single-Stranded RNA Sequence by a Synthetic Antibody Fragment. J Mol Biol. 2016 10 09; 428(20):4100-4114.
Score: 0.354
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Crystal structure of the Varkud satellite ribozyme. Nat Chem Biol. 2015 Nov; 11(11):840-6.
Score: 0.332
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Origins of life: RNA made in its own mirror image. Nature. 2014 Nov 20; 515(7527):347-8.
Score: 0.312
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A G-quadruplex-containing RNA activates fluorescence in a GFP-like fluorophore. Nat Chem Biol. 2014 Aug; 10(8):686-91.
Score: 0.304
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Chemical origins of life: Prebiotic RNA unstuck. Nat Chem. 2013 May; 5(5):360-2.
Score: 0.281
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Automated solid-phase synthesis of RNA oligonucleotides containing a nonbridging phosphorodithioate linkage via phosphorothioamidites. J Org Chem. 2012 Nov 02; 77(21):9889-92.
Score: 0.271
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Metal-ion rescue revisited: biochemical detection of site-bound metal ions important for RNA folding. RNA. 2012 Jun; 18(6):1123-41.
Score: 0.262
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Synthesis of 2'-N-methylamino-2'-deoxyguanosine and 2'-N,N-dimethylamino-2'-deoxyguanosine and their incorporation into RNA by phosphoramidite chemistry. J Org Chem. 2011 Nov 04; 76(21):8718-25.
Score: 0.252
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Synthesis, properties, and applications of oligonucleotides containing an RNA dinucleotide phosphorothiolate linkage. Acc Chem Res. 2011 Dec 20; 44(12):1257-69.
Score: 0.250
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2'-amino-modified ribonucleotides as probes for local interactions within RNA. Methods Enzymol. 2009; 468:107-25.
Score: 0.221
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Separation of RNA phosphorothioate oligonucleotides by HPLC. Methods Enzymol. 2009; 468:289-309.
Score: 0.221
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Synthesis of pyridine, pyrimidine and pyridinone C-nucleoside phosphoramidites for probing cytosine function in RNA. J Org Chem. 2009 Nov 06; 74(21):8021-30.
Score: 0.221
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Synthetic antibodies for specific recognition and crystallization of structured RNA. Proc Natl Acad Sci U S A. 2008 Jan 08; 105(1):82-7.
Score: 0.194
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Synthesis of 2'-C-alpha-(hydroxyalkyl) and 2'-C-alpha-alkylcytidine phosphoramidites: analogues for probing solvent interactions with RNA. J Org Chem. 2007 Feb 16; 72(4):1198-210.
Score: 0.183
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The mechanism of RNA strand scission: an experimental measure of the Brønsted coefficient, beta nuc. Angew Chem Int Ed Engl. 2007; 46(20):3714-7.
Score: 0.181
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Nucleotide analogues to investigate RNA structure and function. Curr Opin Chem Biol. 2005 Dec; 9(6):585-93.
Score: 0.167
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Functional Relevance of CASP16 Nucleic Acid Predictions as Evaluated by Structure Providers. Proteins. 2026 Jan; 94(1):51-78.
Score: 0.165
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Mechanistic studies of small molecule ligands selective to RNA single G bulges. Nucleic Acids Res. 2025 Jun 20; 53(12).
Score: 0.163
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RNA-Puzzles Round V: blind predictions of 23 RNA structures. Nat Methods. 2025 Feb; 22(2):399-411.
Score: 0.157
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An atomic mutation cycle for exploring RNA's 2'-hydroxyl group. J Am Chem Soc. 2004 Oct 27; 126(42):13578-9.
Score: 0.156
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Synthesis of the phosphoramidite derivatives of 2'-deoxy-2'-C-alpha-methylcytidine and 2'-deoxy-2'-C-alpha-hydroxymethylcytidine: analogues for chemical dissection of RNA's 2'-hydroxyl group. J Org Chem. 2004 Jul 09; 69(14):4751-9.
Score: 0.153
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A packing-density metric for exploring the interior of folded RNA molecules. Angew Chem Int Ed Engl. 2004 Jun 07; 43(23):3033-7.
Score: 0.152
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New strategies for exploring RNA's 2'-OH expose the importance of solvent during group II intron catalysis. Chem Biol. 2004 Feb; 11(2):237-46.
Score: 0.148
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2'-mercaptonucleotide interference reveals regions of close packing within folded RNA molecules. J Am Chem Soc. 2003 Aug 20; 125(33):10012-8.
Score: 0.144
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A general and efficient approach to synthesize the phosphoramidites of 5'-18O labeled purine nucleosides. Nucleosides Nucleotides Nucleic Acids. 2023; 42(11):930-943.
Score: 0.141
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Sub-3-Å cryo-EM structure of RNA enabled by engineered homomeric self-assembly. Nat Methods. 2022 05; 19(5):576-585.
Score: 0.131
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Structural basis for substrate binding and catalysis by a self-alkylating ribozyme. Nat Chem Biol. 2022 04; 18(4):376-384.
Score: 0.129
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Synthesis of Oligoribonucleotides Containing a 2'-Amino-5'-S-phosphorothiolate Linkage. J Org Chem. 2021 10 01; 86(19):13231-13244.
Score: 0.126
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Branched kissing loops for the construction of diverse RNA homooligomeric nanostructures. Nat Chem. 2020 03; 12(3):249-259.
Score: 0.112
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An Ontology for Facilitating Discussion of Catalytic Strategies of RNA-Cleaving Enzymes. ACS Chem Biol. 2019 06 21; 14(6):1068-1076.
Score: 0.107
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Hachimoji DNA and RNA: A genetic system with eight building blocks. Science. 2019 02 22; 363(6429):884-887.
Score: 0.105
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Kinetic Isotope Effect Analysis of RNA 2'-O-Transphosphorylation. Methods Enzymol. 2017; 596:433-457.
Score: 0.095
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Structural Basis for Substrate Helix Remodeling and Cleavage Loop Activation in the Varkud Satellite Ribozyme. J Am Chem Soc. 2017 07 19; 139(28):9591-9597.
Score: 0.094
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Synthesizing topological structures containing RNA. Nat Commun. 2017 03 31; 8:14936.
Score: 0.092
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Isotope effect analyses provide evidence for an altered transition state for RNA 2'-O-transphosphorylation catalyzed by Zn(2+). Chem Commun (Camb). 2016 Mar 25; 52(24):4462-5.
Score: 0.086
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Origin of life. RNA seeks its maker. Nature. 1995 Aug 17; 376(6541):548-9.
Score: 0.082
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A Crystal Structure of a Functional RNA Molecule Containing an Artificial Nucleobase Pair. Angew Chem Int Ed Engl. 2015 Aug 17; 54(34):9853-6.
Score: 0.082
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Integration of kinetic isotope effect analyses to elucidate ribonuclease mechanism. Biochim Biophys Acta. 2015 Nov; 1854(11):1801-8.
Score: 0.081
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Effect of Zn2+ binding and enzyme active site on the transition state for RNA 2'-O-transphosphorylation interpreted through kinetic isotope effects. Biochim Biophys Acta. 2015 Nov; 1854(11):1795-800.
Score: 0.080
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Synthesis of 2'-O-photocaged ribonucleoside phosphoramidites. Nucleosides Nucleotides Nucleic Acids. 2015; 34(2):114-29.
Score: 0.079
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Altered (transition) states: mechanisms of solution and enzyme catalyzed RNA 2'-O-transphosphorylation. Curr Opin Chem Biol. 2014 Aug; 21:96-102.
Score: 0.076
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Experimental and computational analysis of the transition state for ribonuclease A-catalyzed RNA 2'-O-transphosphorylation. Proc Natl Acad Sci U S A. 2013 Aug 06; 110(32):13002-7.
Score: 0.071
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Characterization of the reaction path and transition states for RNA transphosphorylation models from theory and experiment. Angew Chem Int Ed Engl. 2012 Jan 16; 51(3):647-51.
Score: 0.063
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A C-nucleotide base pair: methylpseudouridine-directed incorporation of formycin triphosphate into RNA catalyzed by T7 RNA polymerase. Biochemistry. 1991 Oct 22; 30(42):10350-6.
Score: 0.063
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2'-Fluoro substituents can mimic native 2'-hydroxyls within structured RNA. Chem Biol. 2011 Aug 26; 18(8):949-54.
Score: 0.063
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The ribotoxin restrictocin recognizes its RNA substrate by selective engagement of active site residues. Biochemistry. 2011 Apr 12; 50(14):3004-13.
Score: 0.061
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Kinetic isotope effects for RNA cleavage by 2'-O- transphosphorylation: nucleophilic activation by specific base. J Am Chem Soc. 2010 Aug 25; 132(33):11613-21.
Score: 0.058
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Enzymatic incorporation of a new base pair into DNA and RNA extends the genetic alphabet. Nature. 1990 Jan 04; 343(6253):33-7.
Score: 0.056
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Electrostatic interactions guide the active site face of a structure-specific ribonuclease to its RNA substrate. Biochemistry. 2008 Aug 26; 47(34):8912-8.
Score: 0.051
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Structural inference of native and partially folded RNA by high-throughput contact mapping. Proc Natl Acad Sci U S A. 2008 Mar 18; 105(11):4144-9.
Score: 0.049
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Natural selection, protein engineering, and the last riboorganism: rational model building in biochemistry. Cold Spring Harb Symp Quant Biol. 1987; 52:53-63.
Score: 0.045
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A systematic, ligation-based approach to study RNA modifications. RNA. 2006 Nov; 12(11):2025-33.
Score: 0.044
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Synthesis of 2'-C-difluoromethylribonucleosides and their enzymatic incorporation into oligonucleotides. J Org Chem. 2005 Sep 30; 70(20):7902-10.
Score: 0.042
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A potential role for RNA aminoacylation prior to its role in peptide synthesis. Proc Natl Acad Sci U S A. 2024 08 27; 121(35):e2410206121.
Score: 0.038
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Unraveling RNA Conformation Dynamics in Mitochondrial Encephalomyopathy, Lactic Acidosis, and Stroke-like Episode Syndrome with Solid-State Nanopores. ACS Nano. 2024 07 02; 18(26):17240-17250.
Score: 0.038
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Rapid Kinetics of Pistol Ribozyme: Insights into Limits to RNA Catalysis. Biochemistry. 2023 07 04; 62(13):2079-2092.
Score: 0.035
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Dissociative Transition State in Hepatitis Delta Virus Ribozyme Catalysis. J Am Chem Soc. 2023 02 08; 145(5):2830-2839.
Score: 0.035
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The L-platform/L-scaffold framework: a blueprint for RNA-cleaving nucleic acid enzyme design. RNA. 2020 02; 26(2):111-125.
Score: 0.028
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Metal ion catalysis during group II intron self-splicing: parallels with the spliceosome. Genes Dev. 1999 Jul 01; 13(13):1729-41.
Score: 0.027
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Evidence for a group II intron-like catalytic triplex in the spliceosome. Nat Struct Mol Biol. 2014 May; 21(5):464-471.
Score: 0.019
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RNA catalysis by a group I ribozyme. Developing a model for transition state stabilization. J Biol Chem. 1992 Sep 05; 267(25):17479-82.
Score: 0.017
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Abortive products as initiating nucleotides during transcription by T7 RNA polymerase. Biochemistry. 1991 Oct 22; 30(42):10343-9.
Score: 0.016