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Featherston AL, Kwon Y, Pompeo MM, Engl OD, Leahy DK, Miller SJ. Catalytic asymmetric and stereodivergent oligonucleotide synthesis. Science 2021; 371:702-707. [PMID: 33574208 DOI: 10.1126/science.abf4359] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Accepted: 01/13/2021] [Indexed: 12/14/2022]
Abstract
We report the catalytic stereocontrolled synthesis of dinucleotides. We have demonstrated, for the first time to our knowledge, that chiral phosphoric acid (CPA) catalysts control the formation of stereogenic phosphorous centers during phosphoramidite transfer. Unprecedented levels of diastereodivergence have also been demonstrated, enabling access to either phosphite diastereomer. Two different CPA scaffolds have proven to be essential for achieving stereodivergence: peptide-embedded phosphothreonine-derived CPAs, which reinforce and amplify the inherent substrate preference, and C2-symmetric BINOL-derived CPAs, which completely overturn this stereochemical preference. The presently reported catalytic method does not require stoichiometric activators or chiral auxiliaries and enables asymmetric catalysis with readily available phosphoramidites. The method was applied to the stereocontrolled synthesis of diastereomeric dinucleotides as well as cyclic dinucleotides, which are of broad interest in immuno-oncology as agonists of the stimulator of interferon genes (STING) pathway.
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Affiliation(s)
| | - Yongseok Kwon
- Department of Chemistry, Yale University, New Haven, CT 06520, USA
| | - Matthew M Pompeo
- Department of Chemistry, Yale University, New Haven, CT 06520, USA
| | - Oliver D Engl
- Process Chemistry Development, Takeda Pharmaceuticals International Co., Cambridge, MA 02139, USA
| | - David K Leahy
- Process Chemistry Development, Takeda Pharmaceuticals International Co., Cambridge, MA 02139, USA.
| | - Scott J Miller
- Department of Chemistry, Yale University, New Haven, CT 06520, USA.
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Ad O, Hoffman KS, Cairns AG, Featherston AL, Miller SJ, Söll D, Schepartz A. Translation of Diverse Aramid- and 1,3-Dicarbonyl-peptides by Wild Type Ribosomes in Vitro. ACS Cent Sci 2019; 5:1289-1294. [PMID: 31403077 PMCID: PMC6661870 DOI: 10.1021/acscentsci.9b00460] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2019] [Indexed: 05/21/2023]
Abstract
Here, we report that wild type Escherichia coli ribosomes accept and elongate precharged initiator tRNAs acylated with multiple benzoic acids, including aramid precursors, as well as malonyl (1,3-dicarbonyl) substrates to generate a diverse set of aramid-peptide and polyketide-peptide hybrid molecules. This work expands the scope of ribozyme- and ribosome-catalyzed chemical transformations, provides a starting point for in vivo translation engineering efforts, and offers an alternative strategy for the biosynthesis of polyketide-peptide natural products.
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Affiliation(s)
- Omer Ad
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Kyle S. Hoffman
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Andrew G. Cairns
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Aaron L. Featherston
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Scott J. Miller
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
- E-mail:
| | - Dieter Söll
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
- E-mail:
| | - Alanna Schepartz
- Department
of Chemistry and Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
- E-mail:
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Featherston AL, Shugrue CR, Mercado BQ, Miller SJ. Phosphothreonine (pThr)-Based Multifunctional Peptide Catalysis for Asymmetric Baeyer-Villiger Oxidations of Cyclobutanones. ACS Catal 2019; 9:242-252. [PMID: 31007966 DOI: 10.1021/acscatal.8b04132] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Biologically inspired phosphothreonine (pThr)-embedded peptides that function as chiral Brønsted acid catalysts for enantioselective Baeyer-Villiger oxidations (BV) of cyclobutanones with aqueous H2O2 are reported herein. Complementary to traditional BINOL-derived chiral phosphoric acids (CPAs), the functional diversity of the peptidic scaffold provides the opportunity for multiple points of contact with substrates via hydrogen bonding, and the ease of peptide synthesis facilitates rapid diversification of the catalyst structure, such that numerous unique peptide-based CPA catalysts have been prepared. Utilizing a hypothesis-driven design, we identified a pThr-based catalyst that contains an N-acylated diaminopropionic acid (Dap) residue, which achieves high enantioselectivity with catalyst loadings as low as 0.5 mol%. The power of peptide-based multi-site binding is further exemplified through reversal in the absolute stereochemical outcome upon repositioning of the substrate-directing group (ortho- to meta). Modifications to the i+3 residue (LDap to LPhe) lead to an observed enantiodivergence without inversion of any stereogenic center on the peptide catalyst, due to noncovalent interactions. Structure-selectivity and 1H-1H-ROESY studies revealed that the proposed hydrogen bonding interactions are essential for high levels of enantioinduction. The ability for the phosphopeptides to operate as multifunctional oxidation catalysts expands the scope of pThr catalysts and provides a framework for the future selective diversification of more complex substrates, including natural products.
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Affiliation(s)
- Aaron L. Featherston
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Christopher R. Shugrue
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Brandon Q. Mercado
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Scott J. Miller
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
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Shugrue CR, Featherston AL, Lackner RM, Lin A, Miller SJ. Divergent Stereoselectivity in Phosphothreonine (pThr)-Catalyzed Reductive Aminations of 3-Amidocyclohexanones. J Org Chem 2018; 83:4491-4504. [PMID: 29547285 DOI: 10.1021/acs.joc.8b00207] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Phosphothreonine (pThr)-embedded peptide catalysts are found to mediate the reductive amination of 3-amidocyclohexanones with divergent selectivity. The choice of peptide sequence can be used to alter the diastereoselectivity to favor either the cis-product or trans-product, which are obtained in up to 93:7 er. NMR studies and DFT calculations are reported and indicate that both pathways rely on secondary interactions between substrate and catalyst to achieve selectivity. Furthermore, catalysts appear to accomplish a parallel kinetic resolution of the substrates. The facility for phosphopeptides to tune reactivity and access multiple products in reductive aminations may translate to the diversification of complex substrates, such as natural products, at numerous reactive sites.
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Affiliation(s)
- Christopher R Shugrue
- Department of Chemistry , Yale University , P.O. Box 208107, New Haven , Connecticut 06520-8107 , United States
| | - Aaron L Featherston
- Department of Chemistry , Yale University , P.O. Box 208107, New Haven , Connecticut 06520-8107 , United States
| | - Rachel M Lackner
- Department of Chemistry , Yale University , P.O. Box 208107, New Haven , Connecticut 06520-8107 , United States
| | - Angela Lin
- Department of Chemistry , Yale University , P.O. Box 208107, New Haven , Connecticut 06520-8107 , United States
| | - Scott J Miller
- Department of Chemistry , Yale University , P.O. Box 208107, New Haven , Connecticut 06520-8107 , United States
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Hilimire TA, Chamberlain JM, Anokhina V, Bennett RP, Swart O, Myers JR, Ashton JM, Stewart RA, Featherston AL, Gates K, Helms ED, Smith HC, Dewhurst S, Miller BL. HIV-1 Frameshift RNA-Targeted Triazoles Inhibit Propagation of Replication-Competent and Multi-Drug-Resistant HIV in Human Cells. ACS Chem Biol 2017; 12:1674-1682. [PMID: 28448121 PMCID: PMC5477779 DOI: 10.1021/acschembio.7b00052] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
![]()
The
HIV-1 frameshift-stimulating (FSS) RNA, a regulatory RNA of
critical importance in the virus’ life cycle, has been posited
as a novel target for anti-HIV drug development. We report the synthesis
and evaluation of triazole-containing compounds able to bind the FSS
with high affinity and selectivity. Readily accessible synthetically,
these compounds are less toxic than previously reported olefin congeners.
We show for the first time that FSS-targeting compounds have antiviral
activity against replication-competent HIV in human cells, including
a highly cytopathic, multidrug-resistant strain. These results support
the viability of the HIV-1 FSS RNA as a therapeutic target and more
generally highlight opportunities for synthetic molecule-mediated
interference with protein recoding in a wide range of organisms.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | - Eric D. Helms
- Department of Chemistry, SUNY Geneseo, Geneseo, New York 14454, United States
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Featherston AL, Miller SJ. Synthesis and evaluation of phenylalanine-derived trifluoromethyl ketones for peptide-based oxidation catalysis. Bioorg Med Chem 2016; 24:4871-4874. [PMID: 27452284 PMCID: PMC5053897 DOI: 10.1016/j.bmc.2016.07.012] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2016] [Revised: 07/05/2016] [Accepted: 07/06/2016] [Indexed: 11/24/2022]
Abstract
We report the synthesis of phenylalanine-derived trifluoromethyl ketones for the in situ generation of dioxiranes for the purpose of oxidation catalysis. The key features of this synthesis include the use of a masked ketone strategy and a Negishi cross-coupling to access the parent amino acid. The derivatives can be readily incorporated into a peptide for use in oxidation chemistry and exhibit good stability and reactivity.
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Affiliation(s)
- Aaron L Featherston
- Department of Chemistry, Yale University, PO Box 208107, New Haven, CT 06520-8107, United States
| | - Scott J Miller
- Department of Chemistry, Yale University, PO Box 208107, New Haven, CT 06520-8107, United States.
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