Joseph Piccirilli to Models, Molecular
This is a "connection" page, showing publications Joseph Piccirilli has written about Models, Molecular.
Connection Strength
1.809
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The SARS-CoV-2 Programmed -1 Ribosomal Frameshifting Element Crystal Structure Solved to 2.09 Å Using Chaperone-Assisted RNA Crystallography. ACS Chem Biol. 2021 08 20; 16(8):1469-1481.
Score: 0.128
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Synthetic Antibody Binding to a Preorganized RNA Domain of Hepatitis C Virus Internal Ribosome Entry Site Inhibits Translation. ACS Chem Biol. 2020 01 17; 15(1):205-216.
Score: 0.114
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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: 0.101
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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: 0.096
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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: 0.091
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Reverse transcriptases lend a hand in splicing catalysis. Nat Struct Mol Biol. 2016 06 07; 23(6):507-9.
Score: 0.090
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Enzyme transition states from theory and experiment. Biochim Biophys Acta. 2015 Nov; 1854(11):1727-8.
Score: 0.085
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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: 0.064
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The mechanism of peptidyl transfer catalysis by the ribosome. Annu Rev Biochem. 2011; 80:527-55.
Score: 0.061
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A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination. Nat Struct Mol Biol. 2011 Jan; 18(1):100-6.
Score: 0.061
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Linkage between substrate recognition and catalysis during cleavage of sarcin/ricin loop RNA by restrictocin. Biochemistry. 2007 Nov 06; 46(44):12744-56.
Score: 0.049
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A second divalent metal ion in the group II intron reaction center. Chem Biol. 2007 Jun; 14(6):607-12.
Score: 0.048
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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: 0.043
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Functional Relevance of CASP16 Nucleic Acid Predictions as Evaluated by Structure Providers. Proteins. 2026 Jan; 94(1):51-78.
Score: 0.042
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RNA-Puzzles Round V: blind predictions of 23 RNA structures. Nat Methods. 2025 Feb; 22(2):399-411.
Score: 0.040
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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: 0.039
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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: 0.039
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Synthesis of the phosphoramidite derivative of 2'-deoxy-2'-C-beta-methylcytidine. J Org Chem. 2003 Aug 22; 68(17):6799-802.
Score: 0.037
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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: 0.037
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The Positively Charged Active Site of the Bacterial Toxin RelE Causes a Large Shift in the General Base pKa. Biochemistry. 2020 05 05; 59(17):1665-1671.
Score: 0.029
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The role of the cleavage site 2'-hydroxyl in the Tetrahymena group I ribozyme reaction. Chem Biol. 2000 Feb; 7(2):85-96.
Score: 0.029
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Branched kissing loops for the construction of diverse RNA homooligomeric nanostructures. Nat Chem. 2020 03; 12(3):249-259.
Score: 0.029
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Comparison of the Structures and Mechanisms of the Pistol and Hammerhead Ribozymes. J Am Chem Soc. 2019 05 15; 141(19):7865-7875.
Score: 0.027
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Kinetic Isotope Effect Analysis of RNA 2'-O-Transphosphorylation. Methods Enzymol. 2017; 596:433-457.
Score: 0.024
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RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme. RNA. 2017 05; 23(5):655-672.
Score: 0.023
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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: 0.021
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Transition State Features in the Hepatitis Delta Virus Ribozyme Reaction Revealed by Atomic Perturbations. J Am Chem Soc. 2015 Jul 22; 137(28):8973-82.
Score: 0.021
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Integration of kinetic isotope effect analyses to elucidate ribonuclease mechanism. Biochim Biophys Acta. 2015 Nov; 1854(11):1801-8.
Score: 0.021
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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: 0.021
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Molecular basis of mycobacterial lipid antigen presentation by CD1c and its recognition by aß T cells. Proc Natl Acad Sci U S A. 2014 Oct 28; 111(43):E4648-57.
Score: 0.020
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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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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: 0.018
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Recognition of guanosine by dissimilar tRNA methyltransferases. RNA. 2012 Sep; 18(9):1687-701.
Score: 0.017
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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: 0.016
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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 May 25; 133(20):7791-800.
Score: 0.016
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Isoform-specific monobody inhibitors of small ubiquitin-related modifiers engineered using structure-guided library design. Proc Natl Acad Sci U S A. 2011 May 10; 108(19):7751-6.
Score: 0.016
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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: 0.016
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Nascent peptide in the ribosome exit tunnel affects functional properties of the A-site of the peptidyl transferase center. Mol Cell. 2011 Feb 04; 41(3):321-30.
Score: 0.015
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Sin resolvase catalytic activity and oligomerization state are tightly coupled. J Mol Biol. 2010 Nov 19; 404(1):16-33.
Score: 0.015
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A rearrangement of the guanosine-binding site establishes an extended network of functional interactions in the Tetrahymena group I ribozyme active site. Biochemistry. 2010 Mar 30; 49(12):2753-62.
Score: 0.015
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Crystal structure of the catalytic core of an RNA-polymerase ribozyme. Science. 2009 Nov 27; 326(5957):1271-5.
Score: 0.014
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Structure and function converge to identify a hydrogen bond in a group I ribozyme active site. Angew Chem Int Ed Engl. 2009; 48(39):7171-5.
Score: 0.013
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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: 0.013
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Functional identification of ligands for a catalytic metal ion in group I introns. Biochemistry. 2008 Jul 01; 47(26):6883-94.
Score: 0.013
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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: 0.013
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Modulation of individual steps in group I intron catalysis by a peripheral metal ion. RNA. 2007 Oct; 13(10):1656-67.
Score: 0.012
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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: 0.012
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The electrostatic character of the ribosomal surface enables extraordinarily rapid target location by ribotoxins. Nat Struct Mol Biol. 2006 May; 13(5):436-43.
Score: 0.011
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Investigation of the proposed interdomain ribose zipper in hairpin ribozyme cleavage using 2'-modified nucleosides. Biochemistry. 2000 May 30; 39(21):6410-21.
Score: 0.007
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Structures of normal single-stranded DNA and deoxyribo-3'-S-phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli. Biochemistry. 1999 Jan 12; 38(2):696-704.
Score: 0.007