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Imai M, Colas K, Suga H. Protein Grafting Techniques: From Peptide Epitopes to Lasso-Grafted Neobiologics. Chempluschem 2024; 89:e202400152. [PMID: 38693599 DOI: 10.1002/cplu.202400152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2024] [Revised: 04/25/2024] [Accepted: 04/26/2024] [Indexed: 05/03/2024]
Abstract
Protein engineering techniques have vastly expanded their domain of impact, notably following the success of antibodies. Likewise, smaller peptide therapeutics have carved an increasingly significant niche for themselves in the pharmaceutical landscape. The concept of grafting such peptides onto larger protein scaffolds, thus harvesting the advantages of both, has given rise to a variety of protein engineering strategies that are reviewed herein. We also describe our own "Lasso-Grafting" approach, which combines traditional grafting concepts with mRNA display to streamline the production of multiple grafted drug candidates for virtually any target.
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Affiliation(s)
- Mikio Imai
- Department of Chemistry, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Kilian Colas
- Department of Chemistry, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Hiroaki Suga
- Department of Chemistry, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
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2
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Blanc A, Todorovic M, Dude I, Merkens H, Bénard F, Perrin DM. Toward tryptathionine-stapled one-bead-one-compound (OBOC) libraries: solid phase synthesis of a bioactive octretoate analog. Org Biomol Chem 2023; 21:8112-8116. [PMID: 37772608 DOI: 10.1039/d3ob01378b] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/30/2023]
Abstract
New somatostatin analogs are highly desirable for diagnosing and treating neuroendocrine tumors (NETs). Here we describe the solid-phase synthesis of a new octreotate (TATE) analog where the disulfide bond is replaced with a tryptathionine (Ttn) staple as part of an effort to prototyping a one-bead-one-compound (OBOC) library of Ttn-stapled peptides. Library design provides the potential for on- and off-bead screening. To validate our method, we labelled Ttn-TATE with a fluorescent dye to demonstrate binding to soluble somatostatin receptor subtype-2 and staining of Ar42J rat prostate cancer cells. By exploring this staple in the context of a ligand of known affinity, this method paves the way for an OBOC library construction of bioactive octreotate analogs and, more broadly speaking, tryptathionine-staped peptide macrocycles.
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Affiliation(s)
- Antoine Blanc
- Chemistry Department, UBC, 2036 Main Mall, Vancouver, V6T-1Z1, Canada.
| | - Mihajlo Todorovic
- Chemistry Department, UBC, 2036 Main Mall, Vancouver, V6T-1Z1, Canada.
| | - Iulia Dude
- Molecular Oncology, British Columbia Cancer Agency Research Centre, 675 West10th Avenue, Vancouver, BC, V5Z 1L3, Canada
| | - Helen Merkens
- Molecular Oncology, British Columbia Cancer Agency Research Centre, 675 West10th Avenue, Vancouver, BC, V5Z 1L3, Canada
| | - François Bénard
- Molecular Oncology, British Columbia Cancer Agency Research Centre, 675 West10th Avenue, Vancouver, BC, V5Z 1L3, Canada
| | - David M Perrin
- Chemistry Department, UBC, 2036 Main Mall, Vancouver, V6T-1Z1, Canada.
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3
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Bechtler C, Lamers C. Macrocyclization strategies for cyclic peptides and peptidomimetics. RSC Med Chem 2021; 12:1325-1351. [PMID: 34447937 PMCID: PMC8372203 DOI: 10.1039/d1md00083g] [Citation(s) in RCA: 66] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2021] [Accepted: 06/01/2021] [Indexed: 12/12/2022] Open
Abstract
Peptides are a growing therapeutic class due to their unique spatial characteristics that can target traditionally "undruggable" protein-protein interactions and surfaces. Despite their advantages, peptides must overcome several key shortcomings to be considered as drug leads, including their high conformational flexibility and susceptibility to proteolytic cleavage. As a general approach for overcoming these challenges, macrocyclization of a linear peptide can usually improve these characteristics. Their synthetic accessibility makes peptide macrocycles very attractive, though traditional synthetic methods for macrocyclization can be challenging for peptides, especially for head-to-tail cyclization. This review provides an updated summary of the available macrocyclization chemistries, such as traditional lactam formation, azide-alkyne cycloadditions, ring-closing metathesis as well as unconventional cyclization reactions, and it is structured according to the obtained functional groups. Keeping peptide chemistry and screening in mind, the focus is given to reactions applicable in solution, on solid supports, and compatible with contemporary screening methods.
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Affiliation(s)
- Clément Bechtler
- Department Pharmaceutical Sciences, University of Basel Klingelbergstr. 50 4056 Basel Switzerland
| | - Christina Lamers
- Department Pharmaceutical Sciences, University of Basel Klingelbergstr. 50 4056 Basel Switzerland
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4
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Xu L, Raabe M, Zegota MM, Nogueira JCF, Chudasama V, Kuan SL, Weil T. Site-selective protein modification via disulfide rebridging for fast tetrazine/trans-cyclooctene bioconjugation. Org Biomol Chem 2020; 18:1140-1147. [PMID: 31971218 DOI: 10.1039/c9ob02687h] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
An inverse electron demand Diels-Alder reaction between tetrazine and trans-cyclooctene (TCO) holds great promise for protein modification and manipulation. Herein, we report the design and synthesis of a tetrazine-based disulfide rebridging reagent, which allows the site-selective installation of a tetrazine group into disulfide-containing peptides and proteins such as the hormone somatostatin (SST) and the antigen binding fragment (Fab) of human immunoglobulin G (IgG). The fast and efficient conjugation of the tetrazine modified proteins with three different TCO-containing substrates to form a set of bioconjugates in a site-selective manner was successfully demonstrated for the first time. Homogeneous, well-defined bioconjugates were obtained underlining the great potential of our method for fast bioconjugation in emerging protein therapeutics. The formed bioconjugates were stable against glutathione and in serum, and they maintained their secondary structure. With this work, we broaden the scope of tetrazine chemistry for site-selective protein modification to prepare well-defined SST and Fab conjugates with preserved structures and good stability under biologically relevant conditions.
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Affiliation(s)
- Lujuan Xu
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany. and Institute of Inorganic Chemistry I, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Marco Raabe
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany. and Institute of Inorganic Chemistry I, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Maksymilian M Zegota
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany. and Institute of Inorganic Chemistry I, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | | | - Vijay Chudasama
- Department of Chemistry, University College London, London, UK
| | - Seah Ling Kuan
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany. and Institute of Inorganic Chemistry I, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Tanja Weil
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany. and Institute of Inorganic Chemistry I, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
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5
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Christian AH, Jia S, Cao W, Zhang P, Meza AT, Sigman MS, Chang CJ, Toste FD. A Physical Organic Approach to Tuning Reagents for Selective and Stable Methionine Bioconjugation. J Am Chem Soc 2019; 141:12657-12662. [PMID: 31361488 PMCID: PMC6781863 DOI: 10.1021/jacs.9b04744] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
We report a data-driven, physical organic approach to the development of new methionine-selective bioconjugation reagents with tunable adduct stabilities. Statistical modeling of structural features described by intrinsic physical organic parameters was applied to the development of a predictive model and to gain insight into features driving the stability of adducts formed from the chemoselective coupling of oxaziridine and methionine thioether partners through Redox Activated Chemical Tagging (ReACT). From these analyses, a correlation between sulfimide stabilities and sulfimide ν (C═O) stretching frequencies was revealed. We exploited the rational gains in adduct stability exposed by this analysis to achieve the design and synthesis of a bis-oxaziridine reagent for peptide stapling. Indeed, we observed that a macrocyclic peptide formed by ReACT stapling at methionine exhibited improved uptake into live cells compared to an unstapled congener, highlighting the potential utility of this unique chemical tool for thioether modification. This work provides a template for the broader use of data-driven approaches to bioconjugation chemistry and other chemical biology applications.
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Affiliation(s)
- Alec H. Christian
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Shang Jia
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Wendy Cao
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Patricia Zhang
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Arismel Tena Meza
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Matthew S. Sigman
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Christopher J. Chang
- Department of Chemistry, University of California, Berkeley, California 94720, United States
- Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, United States
- Howard Hughes Medical Institute, University of California, Berkeley, California 94720, United States
| | - F. Dean Toste
- Department of Chemistry, University of California, Berkeley, California 94720, United States
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Sun S, Akkapeddi P, Marques MC, Martínez-Sáez N, Torres VM, Cordeiro C, Boutureira O, Bernardes GJL. One-pot stapling of interchain disulfides of antibodies using an isobutylene motif. Org Biomol Chem 2019; 17:2005-2012. [DOI: 10.1039/c8ob02877j] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Stable monoclonal antibodies are generated by the mild and efficient re-bridging of interchain disulfides using an isobutylene motif. Effector functions and pharmacokinetics of the stapled antibodies are maintained at a similar level as their native forms.
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Affiliation(s)
- Shuang Sun
- Department of Chemistry
- University of Cambridge
- CB2 1EW Cambridge
- UK
| | - Padma Akkapeddi
- Instituto de Medicina Molecular
- Faculdade de Medicina
- Universidade de Lisboa
- 1649-028 Lisboa
- Portugal
| | - Marta C. Marques
- Department of Chemistry
- University of Cambridge
- CB2 1EW Cambridge
- UK
- Instituto de Medicina Molecular
| | | | - Vukosava M. Torres
- Laboratório de FT-ICR e Espectrometria de Massa Estrutural
- Faculdade de Ciências da Universidade de Lisboa
- 1749-016 Lisboa
- Portugal
| | - Carlos Cordeiro
- Laboratório de FT-ICR e Espectrometria de Massa Estrutural
- Faculdade de Ciências da Universidade de Lisboa
- 1749-016 Lisboa
- Portugal
| | - Omar Boutureira
- Department of Chemistry
- University of Cambridge
- CB2 1EW Cambridge
- UK
| | - Gonçalo J. L. Bernardes
- Department of Chemistry
- University of Cambridge
- CB2 1EW Cambridge
- UK
- Instituto de Medicina Molecular
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7
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Sun S, Oliveira BL, Jiménez‐Osés G, Bernardes GJL. Radical-Mediated Thiol-Ene Strategy: Photoactivation of Thiol-Containing Drugs in Cancer Cells. Angew Chem Int Ed Engl 2018; 57:15832-15835. [PMID: 30300959 PMCID: PMC6391964 DOI: 10.1002/anie.201811338] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2018] [Indexed: 12/28/2022]
Abstract
Photoactivated drugs provide an opportunity to improve efficacy alongside reducing side-effects in the treatment of severe diseases such as cancer. Described herein is a photoactivation decaging method of isobutylene-caged thiols through a UV-initiated thiol-ene reaction. The method was demonstrated with an isobutylene-caged cysteine, cyclic disulfide-peptide, and thiol-containing drug, all of which were rapidly and efficiently released under mild UV irradiation in the presence of thiol sources and a photoinitiator. Importantly, it is shown that the activity of histone deacetylase inhibitor largazole can be switched off when stapled, but selectively switched on within cancer cells when irradiated with non-phototoxic light.
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Affiliation(s)
- Shuang Sun
- Department of ChemistryUniversity of CambridgeLensfield RoadCB2 1EWCambridgeUK
| | - Bruno L. Oliveira
- Department of ChemistryUniversity of CambridgeLensfield RoadCB2 1EWCambridgeUK
| | - Gonzalo Jiménez‐Osés
- Departamento de Química.Centro de Investigación en Síntesis Química.Universidad de La Rioja26006LogroñoSpain
| | - Gonçalo J. L. Bernardes
- Department of ChemistryUniversity of CambridgeLensfield RoadCB2 1EWCambridgeUK
- Instituto de Medicina MolecularFaculdade de MedicinaUniversidade de LisboaAvenida Professor Egas Moniz1649-028LisboaPortugal
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8
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Sun S, Oliveira BL, Jiménez-Osés G, Bernardes GJL. Radical-Mediated Thiol-Ene Strategy: Photoactivation of Thiol-Containing Drugs in Cancer Cells. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201811338] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Shuang Sun
- Department of Chemistry; University of Cambridge; Lensfield Road CB2 1EW Cambridge UK
| | - Bruno L. Oliveira
- Department of Chemistry; University of Cambridge; Lensfield Road CB2 1EW Cambridge UK
| | - Gonzalo Jiménez-Osés
- Departamento de Química.; Centro de Investigación en Síntesis Química.; Universidad de La Rioja; 26006 Logroño Spain
| | - Gonçalo J. L. Bernardes
- Department of Chemistry; University of Cambridge; Lensfield Road CB2 1EW Cambridge UK
- Instituto de Medicina Molecular; Faculdade de Medicina; Universidade de Lisboa; Avenida Professor Egas Moniz 1649-028 Lisboa Portugal
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9
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Iegre J, Gaynord JS, Robertson NS, Sore HF, Hyvönen M, Spring DR. Two-Component Stapling of Biologically Active and Conformationally Constrained Peptides: Past, Present, and Future. ADVANCED THERAPEUTICS 2018. [DOI: 10.1002/adtp.201800052] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Jessica Iegre
- Department of Chemistry; University of Cambridge; Cambridge CB2 1EW UK
| | | | | | - Hannah F. Sore
- Department of Chemistry; University of Cambridge; Cambridge CB2 1EW UK
| | - Marko Hyvönen
- Department of Biochemistry; University of Cambridge; Cambridge CB2 1GA UK
| | - David R. Spring
- Department of Chemistry; University of Cambridge; Cambridge CB2 1EW UK
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10
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Site-selective installation of an electrophilic handle on proteins for bioconjugation. Bioorg Med Chem 2018; 26:3060-3064. [DOI: 10.1016/j.bmc.2018.02.028] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2018] [Revised: 02/14/2018] [Accepted: 02/16/2018] [Indexed: 02/02/2023]
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11
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Sun S, Compañón I, Martínez‐Sáez N, Seixas JD, Boutureira O, Corzana F, Bernardes GJL. Enhanced Permeability and Binding Activity of Isobutylene-Grafted Peptides. Chembiochem 2018; 19:48-52. [PMID: 29105291 PMCID: PMC5813187 DOI: 10.1002/cbic.201700586] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Indexed: 01/09/2023]
Abstract
We present a new peptide-macrocyclization strategy with an isobutylene graft. The reaction is mild and proceeds rapidly and efficiently both for linear and cyclic peptides. The resulting isobutylene-grafted peptides possess improved passive membrane permeability due to the shielding of the polar backbone of the amides, as demonstrated by NMR spectroscopy and molecular dynamics simulations. The isobutylene-stapled structures are fully stable in human plasma and in the presence of glutathione. This strategy can be applied to bioactive cyclic peptides such as somatostatin. Importantly, we found that structural preorganization forced by the isobutylene graft leads to a significant improvement in binding. The combined advantages of directness, selectivity, and smallness could allow application to peptide macrocyclization based on this attachment of the isobutylene graft.
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Affiliation(s)
- Shuang Sun
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
| | - Ismael Compañón
- Departamento de QuímicaCentro de Investigación en Síntesis QuímicaUniversidad de La RiojaMadre de Dios, 5326006LogroñoSpain
| | - Nuria Martínez‐Sáez
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
| | - João D. Seixas
- Instituto de Medicina MolecularFaculdade de MedicinaUniversidade de LisboaAvenida Professor Egas Moniz1649-028LisboaPortugal
| | - Omar Boutureira
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
| | - Francisco Corzana
- Departamento de QuímicaCentro de Investigación en Síntesis QuímicaUniversidad de La RiojaMadre de Dios, 5326006LogroñoSpain
| | - Gonçalo J. L. Bernardes
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
- Instituto de Medicina MolecularFaculdade de MedicinaUniversidade de LisboaAvenida Professor Egas Moniz1649-028LisboaPortugal
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