1
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Bird MJ, Dawson PE. A Shelf Stable Fmoc Hydrazine Resin for the Synthesis of Peptide Hydrazides. Pept Sci (Hoboken) 2022; 114:e24268. [PMID: 36387422 PMCID: PMC9662761 DOI: 10.1002/pep2.24268] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
C-terminal hydrazides are an important class of synthetic peptides with an ever expanding scope of applications, but their widespread application for chemical protein synthesis has been hampered due to the lack of stable resin linkers for synthesis of longer and more challenging peptide hydrazide fragments. We present a practical method for the regeneration, loading, and storage of trityl-chloride resins for the production of hydrazide containing peptides, leveraging 9-fluorenylmethyl carbazate. We show that these resins are extremely stable under several common resin storage conditions. The application of these resins to solid phase peptide synthesis (SPPS) is demonstrated through the synthesis of the 40-mer GLP-1R agonist peptide "P5". These studies support the broad utility of Fmoc-NHNH-Trt resins for SPPS of C-terminal hydrazide peptides.
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Affiliation(s)
- Michael J. Bird
- Department of ChemistryThe Scripps Research InstituteLa JollaCaliforniaUSA
| | - Philip E. Dawson
- Department of ChemistryThe Scripps Research InstituteLa JollaCaliforniaUSA
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2
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Peptide Affinity Chromatography Applied to Therapeutic Antibodies Purification. Int J Pept Res Ther 2021; 27:2905-2921. [PMID: 34690622 PMCID: PMC8525457 DOI: 10.1007/s10989-021-10299-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/07/2021] [Indexed: 12/12/2022]
Abstract
The interest in therapeutic monoclonal antibodies (mAbs) has significantly grown in the pharmaceutical industry, exceeding 100 FDA mAbs approved. Although the upstream processing of their industrial production has been significantly improved in the last years, the downstream processing still depends on immobilized protein A affinity chromatography. The high cost, low capacity and short half-life of immobilized protein A chromatography matrices, encouraged the design of alternative short-peptide ligands for mAb purification. Most of these peptides have been obtained by screening combinatorial peptide libraries. These low-cost ligands can be easily produced by solid-phase peptide synthesis and can be immobilized on chromatographic supports, thus obtaining matrices with high capacity and selectivity. Furthermore, matrices with immobilized peptide ligands have longer half-life than those with protein A due to the higher stability of the peptides. In this review the design and synthesis of peptide ligands, their immobilization on chromatographic supports and the evaluation of the affinity supports for their application in mAb purification is described.
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3
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Abstract
In this chapter, a protocol to design affinity chromatography matrices with short peptide ligands immobilized for protein purification is described. The first step consists of the synthesis of a combinatorial peptide library on the hydroxymethylbenzoyl (HMBA)-ChemMatrix resin by the divide-couple-recombine (DCR) method using the Fmoc chemistry. Next, the library is screened with the protein of interest labeled with a fluorescent dye or biotin. Subsequently, peptides contained on positive beads are identified by tandem matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS/MS), and those sequences showing greater consensus are synthesized in larger quantities and immobilized on chromatographic supports. Finally, target protein adsorption on peptide affinity matrices is evaluated through equilibrium adsorption isotherms and breakthrough curves.
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4
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Farkas V, Ferentzi K, Horváti K, Perczel A. Cost-Effective Flow Peptide Synthesis: Metamorphosis of HPLC. Org Process Res Dev 2021. [DOI: 10.1021/acs.oprd.0c00178] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Viktor Farkas
- MTA-ELTE Protein Modeling Research Group, Eötvös Loránd University, Pázmány Péter s. 1/a, Budapest H-1117, Hungary
| | - Kristóf Ferentzi
- ELTE Hevesy György PhD School of Chemistry, Eötvös Loránd University, Pázmány Péter s. 1/a, Budapest H-1117, Hungary
| | - Kata Horváti
- MTA-ELTE Research Group of Peptide Chemistry, Eötvös Loránd University, Pázmány Péter s. 1/a, Budapest H-1117, Hungary
| | - András Perczel
- MTA-ELTE Protein Modeling Research Group, Eötvös Loránd University, Pázmány Péter s. 1/a, Budapest H-1117, Hungary
- Laboratory of Structural Chemistry and Biology, Institute of Chemistry, Eötvös Loránd University, Pázmány Péter s. 1/a, Budapest H-1117, Hungary
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5
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Ruff Y, Martinez R, Pellé X, Nimsgern P, Fille P, Ratnikov M, Berst F. An Amphiphilic Polymer-Supported Strategy Enables Chemical Transformations under Anhydrous Conditions for DNA-Encoded Library Synthesis. ACS COMBINATORIAL SCIENCE 2020; 22:120-128. [PMID: 32040908 DOI: 10.1021/acscombsci.9b00164] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The use of DNA-encoded libraries has emerged as a powerful hit generation technology. Combining the power of combinatorial chemistry to enumerate large compound collections with the efficiency of affinity selection in pools, the methodology makes it possible to interrogate vast chemical space against biological targets of pharmaceutical relevance. Thus, the chemical transformations employed for the synthesis of encoded libraries play a crucial role in the identification of diverse and drug-like starting points. Currently established transformations have mostly been limited to water-compatible reactions to accommodate the growing oligonucleotide tag. Herein, we describe the development of a practical catch-and-release methodology utilizing a cationic, amphiphilic PEG-based polymer to perform chemical transformations on immobilized DNA conjugates under anhydrous conditions. We demonstrate the usefulness of our APTAC (amphiphilic polymer-facilitated transformations under anhydrous conditions) approach by performing several challenging transformations on DNA-conjugated small molecules in pure organic solvents: the addition of a carbanion equivalent to a DNA-conjugated ketone in tetrahydrofuran, the synthesis of saturated heterocycles using the tin (Sn) amine protocol (SnAP) in dichloromethane, and the dual-catalytic (Ir/Ni) metallaphotoredox decarboxylative cross-coupling of carboxylic acids to DNA-conjugated aryl halides in DMSO. In addition, we demonstrate the feasibility of the latter in multititer-plate format.
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Affiliation(s)
- Yves Ruff
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
| | - Roberto Martinez
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
| | - Xavier Pellé
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
| | - Pierre Nimsgern
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
| | - Pascale Fille
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
| | - Maxim Ratnikov
- Genomics Institute of the Novartis Research Foundation, 10675 John Jay Hopkins Drive, San Diego, California 92121, United States
| | - Frédéric Berst
- Novartis Institutes for BioMedical Research, Novartis Pharma AG, Novartis Campus, CH-4002, Basel, Switzerland
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6
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Gordon CP. The renascence of continuous-flow peptide synthesis - an abridged account of solid and solution-based approaches. Org Biomol Chem 2019; 16:180-196. [PMID: 29255827 DOI: 10.1039/c7ob02759a] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Within a decade of Merrifield's seminal description of solid-phase peptide synthesis, the synergies between solid-phase approaches and flow synthesis were noted by a number of groups. However, despite the various advantages flow brings to peptide synthesis, throughout the 1990s and 2000s, interest in the technique was overshadowed by microwave assisted approaches. However, the current expansion of flow technologies has reinvigorated interest in both solid-phase and solution-phase continuous-flow approaches for assembling peptides. This perspective traces the introduction and evolution of continuous-flow solid-phase synthesis from a practical aspect with a particular focus on solid supports, acylation protocols, and racemisation suppression. Practical aspects of solution-phase continuous-flow peptide synthesis are also considered with an evaluation of microreactor systems, coupling protocols, and fragment-based approaches for assembly of extended peptide units.
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Affiliation(s)
- Christopher P Gordon
- School of Science and Health, Western Sydney University, Locked Bag, 1797, Penrith South, DC, Australia.
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7
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Hu H, Nikitin S, Berthelsen AB, Diness F, Schoffelen S, Meldal M. Sustainable Flow Synthesis of Encoded Beads for Combinatorial Chemistry and Chemical Biology. ACS COMBINATORIAL SCIENCE 2018; 20:492-498. [PMID: 29969235 DOI: 10.1021/acscombsci.8b00052] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Monosized beads of polar resins were synthesized for combinatorial chemistry and chemical biology by sustainable microchannel flow synthesis. Regular, biocompatible, and optically encoded beads could be efficiently prepared on large scale and in high yield. In a preparative flow polymerization instrument, taking advantage of a designed T-connector for droplet formation, quality beads were synthesized with accurate size control using a minimal amount of recirculating silicon oil as suspension medium. Bead-size was controlled through shear imposed by the silicon oil flow rate. This process provided 86% yield of ∼500 μm macrobeads beads within a 20 μm size range with no deformities or vacuoles, ideally suited for combinatorial chemistry and protein binding studies. The simple flow equipment consisted of a syringe pump for monomer and initiator delivery, a T-connector, a gear pump for oil recirculation, a long, heated coil of Teflon tubing and a collector syringe. The method was used for preparation of PEGA1900 beads, optically encoded with fluorescent microparticles. The microparticle matrix (MPM) encoded beads were tested in a MPM-decoder showing excellent recognition in bead decoding.
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Affiliation(s)
- Hongxia Hu
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Sergei Nikitin
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Adam Bjørnholdt Berthelsen
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Frederik Diness
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Sanne Schoffelen
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Morten Meldal
- Center for Evolutionary Chemical Biology, Department of Chemistry University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
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8
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Komnatnyy VV, Nielsen TE, Qvortrup K. Bead-based screening in chemical biology and drug discovery. Chem Commun (Camb) 2018; 54:6759-6771. [PMID: 29888365 DOI: 10.1039/c8cc02486c] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
High-throughput screening is an important component of the drug discovery process. The screening of libraries containing hundreds of thousands of compounds requires assays amenable to miniaturisation and automization. Combinatorial chemistry holds a unique promise to deliver structurally diverse libraries for early drug discovery. Among the various library forms, the one-bead-one-compound (OBOC) library, where each bead carries many copies of a single compound, holds the greatest potential for the rapid identification of novel hits against emerging drug targets. However, this potential has not yet been fully realized due to a number of technical obstacles. In this feature article, we review the progress that has been made in bead-based library screening and its application to the discovery of bioactive compounds. We identify the key challenges of this approach and highlight key steps needed for making a greater impact in the field.
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Affiliation(s)
- Vitaly V Komnatnyy
- Department of Chemistry, Technical University of Denmark, DK-2800 Kgs, Lyngby, Denmark.
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9
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Giudicessi SL, Salum ML, Saavedra SL, Martínez-Ceron MC, Cascone O, Erra-Balsells R, Camperi SA. Simple method to assess stability of immobilized peptide ligands against proteases. J Pept Sci 2017; 23:685-692. [DOI: 10.1002/psc.3012] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2017] [Revised: 04/24/2017] [Accepted: 04/27/2017] [Indexed: 11/07/2022]
Affiliation(s)
- Silvana L. Giudicessi
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica; Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires; Instituto de Nanobiotecnología (NANOBIOTEC); Junín 956 1113 Buenos Aires Argentina
| | - María L. Salum
- Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Orgánica. Pabellón II; Ciudad Universitaria; Intendente Güiraldes 2160 1428 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires, Centro de Investigación en Hidratos de Carbono (CIHIDECAR), Pabellón II; Ciudad Universitaria; Intendente Güiraldes 2160 1428 Buenos Aires Argentina
| | - Soledad L. Saavedra
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica; Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
| | - María C. Martínez-Ceron
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica; Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires; Instituto de Nanobiotecnología (NANOBIOTEC); Junín 956 1113 Buenos Aires Argentina
| | - Osvaldo Cascone
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica; Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires; Instituto de Nanobiotecnología (NANOBIOTEC); Junín 956 1113 Buenos Aires Argentina
| | - Rosa Erra-Balsells
- Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Orgánica. Pabellón II; Ciudad Universitaria; Intendente Güiraldes 2160 1428 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires, Centro de Investigación en Hidratos de Carbono (CIHIDECAR), Pabellón II; Ciudad Universitaria; Intendente Güiraldes 2160 1428 Buenos Aires Argentina
| | - Silvia A. Camperi
- Universidad de Buenos Aires, Facultad de Farmacia y Bioquímica; Cátedra de Biotecnología; Junín 956 1113 Buenos Aires Argentina
- CONICET-Universidad de Buenos Aires; Instituto de Nanobiotecnología (NANOBIOTEC); Junín 956 1113 Buenos Aires Argentina
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10
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Camperi SA, Giudicessi SL, Martínez‐Ceron MC, Gurevich‐Messina JM, Saavedra SL, Acosta G, Cascone O, Erra‐Balsells R, Albericio F. Combinatorial Library Screening Coupled to Mass Spectrometry to Identify Valuable Cyclic Peptides. ACTA ACUST UNITED AC 2016; 8:109-130. [DOI: 10.1002/cpch.2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Silvia A. Camperi
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
| | - Silvana L. Giudicessi
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
| | - María C. Martínez‐Ceron
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
| | - Juan M. Gurevich‐Messina
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
| | - Soledad L. Saavedra
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
| | - Gerardo Acosta
- Department of Organic Chemistry, Barcelona Science Park, University of Barcelona Barcelona Spain
- CIBER‐BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona Science Park Barcelona Spain
| | - Osvaldo Cascone
- NANOBIOTEC Institute, UBA‐CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires Buenos Aires Argentina
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
| | - Rosa Erra‐Balsells
- National Scientific and Technological Research Council (CONICET) Buenos Aires Argentina
- CIHDECAR‐CONICET, Department of Organic Chemistry, School of Exact and Natural Sciences, University of Buenos Aires Buenos Aires Argentina
| | - Fernando Albericio
- Department of Organic Chemistry, Barcelona Science Park, University of Barcelona Barcelona Spain
- CIBER‐BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona Science Park Barcelona Spain
- School of Chemistry & Physics, University of Kwazulu‐Natal Durban South Africa
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11
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Gurevich-Messina JM, Giudicessi SL, Martínez-Ceron MC, Acosta G, Erra-Balsells R, Cascone O, Albericio F, Camperi SA. A simple protocol for combinatorial cyclic depsipeptide libraries sequencing by matrix-assisted laser desorption/ionisation mass spectrometry. J Pept Sci 2014; 21:40-5. [PMID: 25421016 DOI: 10.1002/psc.2716] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Revised: 10/17/2014] [Accepted: 10/22/2014] [Indexed: 01/22/2023]
Abstract
Short cyclic peptides have a great interest in therapeutic, diagnostic and affinity chromatography applications. The screening of 'one-bead-one-peptide' combinatorial libraries combined with mass spectrometry (MS) is an excellent tool to find peptides with affinity for any target protein. The fragmentation patterns of cyclic peptides are quite more complex than those of their linear counterparts, and the elucidation of the resulting tandem mass spectra is rather more difficult. Here, we propose a simple protocol for combinatorial cyclic libraries synthesis and ring opening before MS analysis. In this strategy, 4-hydroxymethylbenzoic acid, which forms a benzyl ester with the first amino acid, was used as the linker. A glycolamidic ester group was incorporated after the combinatorial positions by adding glycolic acid. The library synthesis protocol consisted in the following: (i) incorporation of Fmoc-Asp[2-phenylisopropyl (OPp)]-OH to Ala-Gly-oxymethylbenzamide-ChemMatrix, (ii) synthesis of the combinatorial library, (iii) assembly of a glycolic acid, (iv) couple of an Ala residue in the N-terminal, (v) removal of OPp, (vi) peptide cyclisation through side chain Asp and N-Ala amino terminus and (vii) removal of side chain protecting groups. In order to simultaneously open the ring and release each peptide, benzyl and glycolamidic esters were cleaved with ammonia. Peptide sequences could be deduced from the tandem mass spectra of each single bead evaluated. The strategy herein proposed is suitable for the preparation of one-bead-one-cyclic depsipeptide libraries that can be easily open for its sequencing by matrix-assisted laser desorption/ionisation MS. It employs techniques and reagents frequently used in a broad range of laboratories without special expertise in organic synthesis.
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Affiliation(s)
- Juan M Gurevich-Messina
- NANOBIOTEC Institute, UBA-CONICET, Cathedra of Biotechnology, School of Pharmacy and Biochemistry, UBA, Junín 956, 1113, Buenos Aires, Argentina
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12
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Cherkupally P, Ramesh S, de la Torre BG, Govender T, Kruger HG, Albericio F. Immobilized coupling reagents: synthesis of amides/peptides. ACS COMBINATORIAL SCIENCE 2014; 16:579-601. [PMID: 25330282 DOI: 10.1021/co500126y] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The primary idea of using immobilized reagents in organic synthetic chemistry is to simplify the downstream process, product workup and isolation, and therefore avoiding time-consuming and expensive chromatographic separations, which are intrinsic to every synthetic process. Numerous polymer-bounded reagents are commercially available and applicable to almost all kinds of synthetic chemistry conversions. Herein, we have covered all known supported-coupling reagents and bases which have had a great impact in amide/peptide bond formation. These coupling reagents have been used for the activation of a carboxyl moiety; thus generating an active acylating species that is ready to couple with an amine nucleophile liberating the amide/peptide and polymeric support which can be regenerated for reuse. This also addresses a large variety of anchored coupling reagents, additives, and bases that have only been employed in amide/peptide syntheses during the last six decades.
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Affiliation(s)
- Prabhakar Cherkupally
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
| | - Suhas Ramesh
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
| | - Beatriz G. de la Torre
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
- School of Chemistry, Yachay Tech, Yachay City of Knowledge, 100119 Urcuqui, Ecuador
| | - Thavendran Govender
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
| | - Hendrik G. Kruger
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
| | - Fernando Albericio
- Catalysis and Peptide Research Unit, School of Health Sciences, University of Kwazulu-Natal, Durban 4001, South Africa
- School of Chemistry, Yachay Tech, Yachay City of Knowledge, 100119 Urcuqui, Ecuador
- School of Chemistry and Physics, University of KwaZulu-Natal, Durban 4001, South Africa
- Institute for Research in Biomedicine-Barcelona (IRB-Barcelona), 08028 Barcelona, Spain
- CIBER-BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona Science Park, 08028 Barcelona, Spain
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13
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Voronin K, Allentoff AJ, Bonacorsi SJ, Mapelli C, Gong SX, Lee V, Riexinger D, Sanghvi N, Jiang H, Zeng J. Synthesis of a stable isotopically labeled universal surrogate peptide for use as an internal standard in LC-MS/MS bioanalysis of human IgG and Fc-fusion protein drug candidates. J Labelled Comp Radiopharm 2014; 57:579-83. [DOI: 10.1002/jlcr.3218] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Revised: 06/20/2014] [Accepted: 06/23/2014] [Indexed: 11/09/2022]
Affiliation(s)
- Kimberly Voronin
- Discovery Chemistry Platforms Radiochemistry; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Alban J. Allentoff
- Discovery Chemistry Platforms Radiochemistry; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Samuel J. Bonacorsi
- Discovery Chemistry Platforms Radiochemistry; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Claudio Mapelli
- Peptide Synthesis group; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Sharon X. Gong
- Discovery Chemistry Platforms Radiochemistry; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Ving Lee
- Peptide Synthesis group; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Douglas Riexinger
- Peptide Synthesis group; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Nishith Sanghvi
- Peptide Synthesis group; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Hao Jiang
- Bioanalytical Sciences; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
| | - Jianing Zeng
- Bioanalytical Sciences; Bristol-Myers Squibb Research and Development; Route 206 and Province Line Road Princeton NJ USA
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14
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Camperi SA, Martínez-Ceron MC, Giudicessi SL, Marani MM, Albericio F, Cascone O. Peptide affinity chromatography based on combinatorial strategies for protein purification. Methods Mol Biol 2014; 1129:277-302. [PMID: 24648083 DOI: 10.1007/978-1-62703-977-2_22] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/01/2023]
Abstract
We describe a method to develop affinity chromatography matrices with short peptide ligands for protein purification. The method entitles the following: (a) synthesis of a combinatorial library on the hydromethylbenzoyl (HMBA)-ChemMatrix resin by the divide-couple-recombine (DCR) method using the Fmoc chemistry, (b) library screening with the protein of interest labeled with a fluorescent dye or biotin, (c) identification of peptides contained on positive beads by tandem matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS/MS), (d) solid-phase peptide ligand synthesis and immobilization in chromatographic supports, and (e) evaluation of protein adsorption on peptide affinity matrices from the equilibrium isotherms and breakthrough curves.
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Affiliation(s)
- Silvia Andrea Camperi
- Institute of Nanobiotechnology UBA-CONICET, Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, C1113AAD, Buenos Aires, Argentina,
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15
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Giudicessi SL, Gurevich-Messina JM, Martínez-Ceron MC, Erra-Balsells R, Albericio F, Cascone O, Camperi SA. Friendly strategy to prepare encoded one bead-one compound cyclic peptide library. ACS COMBINATORIAL SCIENCE 2013; 15:525-9. [PMID: 23971518 DOI: 10.1021/co400039a] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
One bead-one peptide libraries allow the screening of suitable ligands for any target protein. Short cyclic peptides are ideal ligands for affinity chromatography because of their high affinity and selectivity for the target protein and stability against proteases. We designed a library synthesis strategy to facilitate the identification of cyclic peptides by MS consisting of (a) sequential incorporation of a mixture of Fmoc-Ala-OH and Fmoc-Asp[2-phenylisopropyl (OPp)]-OH (15:85) to Gly-oxymethylbenzamide-ChemMatrix (Gly-HMBA-CM) resin, (b) synthesis of the combinatorial library on the resin by the divide-couple-recombine method, (c) removal of OPp with 4% TFA, (d) peptide cyclization on solid phase through side-chain Asp and amino terminus, and (e) removal of side chain protecting groups with a 95% TFA cocktail. Peptides were cleaved from the beads with ammonia and the linear code was sequenced by MALDI-TOF MS/MS. The high capacity of ChemMatrix resin together with the sensitivity of MS allows code sequencing from a single bead.
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Affiliation(s)
- Silvana L. Giudicessi
- Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
- National Scientific and Technological Research Council (CONICET), Rivadavia 1917, (1033) Buenos Aires, Argentina
| | - Juan M. Gurevich-Messina
- Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
| | - María C. Martínez-Ceron
- Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
- National Scientific and Technological Research Council (CONICET), Rivadavia 1917, (1033) Buenos Aires, Argentina
| | - Rosa Erra-Balsells
- National Scientific and Technological Research Council (CONICET), Rivadavia 1917, (1033) Buenos Aires, Argentina
- CIHDECAR-CONICET, Department of Organic Chemistry, School of Exact and Natural Sciences, University of Buenos Aires, (1428) Buenos Aires, Argentina
| | - Fernando Albericio
- Institute for Research in Biomedicine, Baldiri Reixac 10, (08028) Barcelona, Spain
- Department of Organic Chemistry, University of Barcelona, Martí i Franquès 1-11, (08028) Barcelona, Spain
- CIBER-BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona Science Park, Baldiri Reixac 10, (08028) Barcelona, Spain
- School of Chemistry and Physics, University of KwaZulu-Natal, University Road Westville 3630, Durban 4001, South Africa
| | - Osvaldo Cascone
- Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
- National Scientific and Technological Research Council (CONICET), Rivadavia 1917, (1033) Buenos Aires, Argentina
| | - Silvia A. Camperi
- Cathedra of Industrial Microbiology and Biotechnology, School of Pharmacy and Biochemistry, University of Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
- National Scientific and Technological Research Council (CONICET), Rivadavia 1917, (1033) Buenos Aires, Argentina
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16
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Pedersen SL, Tofteng AP, Malik L, Jensen KJ. Microwave heating in solid-phase peptide synthesis. Chem Soc Rev 2012; 41:1826-44. [DOI: 10.1039/c1cs15214a] [Citation(s) in RCA: 214] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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17
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García-Ramos Y, Paradís-Bas M, Tulla-Puche J, Albericio F. ChemMatrix(®) for complex peptides and combinatorial chemistry. J Pept Sci 2011; 16:675-8. [PMID: 20853309 DOI: 10.1002/psc.1282] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
CM resin is a totally PEG-based resin, made exclusively from primary ether bonds and therefore highly chemically stable. Compared to other PEG resins, it exhibits good loading and is user friendly because of its free-flowing form upon drying. It shows improved performance over PS resins for the preparation of hydrophobic, highly structured poly-Arg peptides. In combination with ψPros, it allows the synthesis of small proteins such as the chemokine RANTES. Like other PEG-based resins, CM resin swells well in biocompatible solvents such as water, thereby allowing on-bead screening. Furthermore, the high loading of this resin permits the use of a tiny quarter of a bead as a microreactor for HPLC and MALDI-TOF analysis, thus further extending its applications in the field of combinatorial chemistry.
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Affiliation(s)
- Yésica García-Ramos
- Institute for Research in Biomedicine, Barcelona Science Park, Baldiri Reixac 10, Barcelona, Spain
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18
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Martínez-Ceron MC, Marani MM, Taulés M, Etcheverrigaray M, Albericio F, Cascone O, Camperi SA. Affinity chromatography based on a combinatorial strategy for rerythropoietin purification. ACS COMBINATORIAL SCIENCE 2011; 13:251-8. [PMID: 21495625 DOI: 10.1021/co1000663] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Small peptides containing fewer than 10 amino acids are promising ligand candidates with which to build affinity chromatographic systems for industrial protein purification. The application of combinatorial peptide synthesis strategies greatly facilitates the discovery of suitable ligands for any given protein of interest. Here we sought to identify peptide ligands with affinity for recombinant human erythropoietin (rhEPO), which is used for the treatment of anemia. A combinatorial library containing the octapeptides X-X-X-Phe-X-X-Ala-Gly, where X = Ala, Asp, Glu, Phe, His, Leu, Asn, Pro, Ser, or Thr, was synthesized on HMBA-ChemMatrix resin by the divide-couple-recombine method. For the library screening, rhEPO was coupled to either Texas Red or biotin. Fluorescent beads or beads showing a positive reaction with streptavidin-peroxidase were isolated. After cleavage, peptides were sequenced by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). Fifty-seven beads showed a positive reaction. Peptides showing more consensuses were synthesized, and their affinity to rhEPO was assessed using a plasma resonance biosensor. Dissociation constant values in the range of 1-18 μM were obtained. The best two peptides were immobilized on Sepharose, and the resultant chromatographic matrixes showed affinity for rhEPO with dissociation constant values between 1.8 and 2.7 μM. Chinese hamster ovary (CHO) cell culture supernatant was spiked with rhEPO, and the artificial mixture was loaded on Peptide-Sepharose columns. The rhEPO was recovered in the elution fraction with a yield of 90% and a purity of 95% and 97% for P1-Sepharose and P2-Sepharose, respectively.
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Affiliation(s)
- María C. Martínez-Ceron
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
| | - Mariela M. Marani
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
| | | | - Marina Etcheverrigaray
- Laboratorio de Cultivos Celulares, Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, Ciudad Universitaria (CC 242), (3000) Santa Fe, Argentina
| | - Fernando Albericio
- Department of Organic Chemistry, University of Barcelona, Martí i Franqués 1-11, 08028 Barcelona, Spain
| | - Osvaldo Cascone
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
| | - Silvia A. Camperi
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Junín 956, (1113) Buenos Aires, Argentina
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19
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Martínez-Ceron MC, Giudicessi SL, Marani MM, Albericio F, Cascone O, Erra-Balsells R, Camperi SA. Sample preparation for sequencing hits from one-bead-one-peptide combinatorial libraries by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. Anal Biochem 2010; 400:295-7. [PMID: 20123082 DOI: 10.1016/j.ab.2010.01.029] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2009] [Revised: 01/15/2010] [Accepted: 01/24/2010] [Indexed: 11/25/2022]
Abstract
Optimization of bead analysis by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS) after the screening of one-bead-one-peptide combinatorial libraries was achieved, involving the fine-tuning of the whole process. Guanidine was replaced by acetonitrile (MeCN)/acetic acid (AcOH)/water (H(2)O), improving matrix crystallization. Peptide-bead cleavage with NH(4)OH was cheaper and safer than, yet as efficient as, NH(3)/tetrahydrofuran (THF). Peptide elution in microtubes instead of placing the beads in the sample plate yielded more sample aliquots. Successive dry layers deposit sample preparation was better than the dried droplet method. Among the matrices analyzed, alpha-cyano-4-hydroxycinnamic acid resulted in the best peptide ion yield. Cluster formation was minimized by the addition of additives to the matrix.
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Affiliation(s)
- María C Martínez-Ceron
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, 1113 Buenos Aires, Argentina
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20
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Bergman YE, Del Borgo MP, Gopalan RD, Jalal S, Unabia SE, Ciampini M, Clayton DJ, Fletcher JM, Mulder RJ, Wilce JA, Aguilar MI, Perlmutter P. Synthesis of stapled beta3-peptides through ring-closing metathesis. Org Lett 2009; 11:4438-40. [PMID: 19719157 DOI: 10.1021/ol901803d] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The first synthesis of carbon-stapled beta(3)-peptides is reported. The precursor beta(3)-peptides, with O-allyl beta-serines located in an i/i+3 relationship, were prepared on solid phase. We show that efficient ring-closing metathesis (RCM) of these new beta(3)-peptides proceeds smoothly either in solution or on an appropriate solid support. All products were generated with high selectivity for the E-isomer.
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Affiliation(s)
- Ylva E Bergman
- School of Chemistry, Monash University, Clayton 3800 Victoria, Australia
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21
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One-bead, one-compound peptide library sequencing via high-pressure ammonia cleavage coupled to nanomanipulation/nanoelectrospray ionization mass spectrometry. Anal Biochem 2009; 398:7-14. [PMID: 19891951 DOI: 10.1016/j.ab.2009.10.044] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2009] [Revised: 10/12/2009] [Accepted: 10/30/2009] [Indexed: 02/02/2023]
Abstract
Biological screening of one-bead, one-compound (OBOC) combinatorial peptide libraries is routinely carried out with the peptide remaining bound to the resin bead during screening. After a hit is identified, the bead is isolated, the peptide is cleaved from the bead, and its sequence is determined. We have developed a new technique for cleavage of peptides from resin beads whereby exposure of a 4-hydroxymethyl benzoic acid (HMBA)-linked peptide to high-pressure ammonia gas led to efficient cleavage in as little as 5min. Here we also report a new method of extracting peptide from individual library beads for its introduction into a mass spectrometer that uses nanomanipulation combined with nanoelectrospray ionization mass spectrometry (NSI MS). Single beads analyzed by nanomanipulation/NSI MS were found to give identical MS results to those of bulk samples. Detection of 18 unique cleaved peptides 1 to 8 amino acids in length, and sequencing of 14 different peptide sequences 4 to 8 amino acids in length, was demonstrated on a combination of bulk samples and ones from individual beads of an OBOC library. The method was highly reproducible, with 100% of attempts to extract peptide resulting in high-quality MS data. This new collection of techniques allows rapid, reliable, environmentally responsible sequencing of hit beads from combinatorial peptide libraries.
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22
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Marani MM, Martínez Ceron MC, Giudicessi SL, de Oliveira E, Côté S, Erra-Balsells R, Albericio F, Cascone O, Camperi SA. Screening of one-bead-one-peptide combinatorial library using red fluorescent dyes. Presence of positive and false positive beads. ACTA ACUST UNITED AC 2009; 11:146-50. [PMID: 19072229 DOI: 10.1021/cc800145c] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
To screen one-bead-one-compound (OBOC) combinatorial libraries, tens of thousands to millions of compound beads are first mixed with a target molecule. The beads that interact with this molecule are then identified and isolated for compound structure determination. Here we describe an OBOC peptide library screening using streptavidin (SA) as probe protein, labeled with a red fluorescent dye and using the COPAS BIO-BEAD flow sorting equipment to separate fluorescent from nonfluorescent beads. The red dyes used were ATTO 590 and Texas Red. After incubating the library with the SA-red fluorescent dye conjugate, we isolated positive beads caused by peptide-SA interaction and false positive beads produced by peptide fluorescent dye interaction. These false positives were a drawback when sorting beads by COPAS. However,an in depth analysis of both kinds of beads allowed the differentiation of positives from false positives. The false positive beads showed bright homogeneous fluorescence, while positive beads had a heterogeneous fluorescence, exhibiting a characteristic halo appearance, with fluorescence intensity greatest at the bead surface and lowest in the core. The difference was more evident when using Texas Red instead of ATTO 590. Thus, positive beads could be manually separated from false positive ones. The beads were analyzed by matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS). Most of the sequences obtained from positive beads had the His-Pro-Gln motif. Peptides from false positive beads were rich in Leu/Ileu, His, Phe, and Tyr.
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Affiliation(s)
- Mariela M Marani
- Cátedra de Microbiología Industrial y Biotecnología, Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Ciudad Autónoma de Buenos Aires, Argentina
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23
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Rivera-Monroy Z, Bonn GK, Guttman A. Fluorescent isotope-coded affinity tag (FCAT) I: Design and synthesis. Bioorg Chem 2008; 36:299-311. [DOI: 10.1016/j.bioorg.2008.08.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2008] [Revised: 08/21/2008] [Accepted: 08/31/2008] [Indexed: 10/21/2022]
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24
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Zhang X, Lu XW, Liu CF. Solid-phase synthesis of peptide thioacids through hydrothiolysis of resin-bound peptide thioesters. Tetrahedron Lett 2008. [DOI: 10.1016/j.tetlet.2008.08.018] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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25
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Juskowiak GL, McGee CJ, Greaves J, Van Vranken DL. Synthesis, screening, and sequencing of cysteine-rich one-bead one-compound peptide libraries. JOURNAL OF COMBINATORIAL CHEMISTRY 2008; 10:726-31. [PMID: 18656989 PMCID: PMC2646870 DOI: 10.1021/cc800087y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/19/2008] [Indexed: 12/12/2022]
Abstract
Cysteine-rich peptides are valued as tags for biarsenical fluorophores and as environmentally important reagents for binding toxic heavy metals. Due to the inherent difficulties created by cysteine, the power of one-bead one-compound (OBOC) libraries has never been applied to the discovery of short cysteine-rich peptides. We have developed the first method for the synthesis, screening, and sequencing of cysteine-rich OBOC peptide libraries. First, we synthesized a heavily biased cysteine-rich OBOC library, incorporating 50% cysteine at each position (Ac-X8-KM-TentaGel). Then, we developed conditions for cysteine alkylation, cyanogen bromide cleavage, and direct MS/MS sequencing of that library at the single bead level. The sequencing efficiency of this library was comparable to a traditional cysteine-free library. To validate screening of cysteine-rich OBOC libraries, we reacted a library with the biarsenical FlAsH and identified beads bearing the known biarsenical-binding motif (CCXXCC). These results enable OBOC libraries to be used in high-throughput discovery of cysteine-rich peptides for protein tagging, environmental remediation of metal contaminants, or cysteine-rich pharmaceuticals.
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Affiliation(s)
- Gary L. Juskowiak
- Department of Chemistry, 1102 Natural Sciences 2, University of California, Irvine, California 92697-2025
| | - Christopher J. McGee
- Department of Chemistry, 1102 Natural Sciences 2, University of California, Irvine, California 92697-2025
| | - John Greaves
- Department of Chemistry, 1102 Natural Sciences 2, University of California, Irvine, California 92697-2025
| | - David L. Van Vranken
- Department of Chemistry, 1102 Natural Sciences 2, University of California, Irvine, California 92697-2025
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26
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Bacsa B, Horváti K, Bõsze S, Andreae F, Kappe CO. Solid-Phase Synthesis of Difficult Peptide Sequences at Elevated Temperatures: A Critical Comparison of Microwave and Conventional Heating Technologies. J Org Chem 2008; 73:7532-42. [DOI: 10.1021/jo8013897] [Citation(s) in RCA: 140] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Bernadett Bacsa
- Christian Doppler Laboratory for Microwave Chemistry (CDLMC) and Institute of Chemistry, Karl-Franzens-University Graz, Heinrichstrasse 28, A-8010 Graz, Austria, Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eötvös Loránd University, 1117 Budapest, Hungary, and piCHEM Forschungs und EntwicklungsgmbH, Kahngasse 20, A-8045 Graz, Austria
| | - Kata Horváti
- Christian Doppler Laboratory for Microwave Chemistry (CDLMC) and Institute of Chemistry, Karl-Franzens-University Graz, Heinrichstrasse 28, A-8010 Graz, Austria, Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eötvös Loránd University, 1117 Budapest, Hungary, and piCHEM Forschungs und EntwicklungsgmbH, Kahngasse 20, A-8045 Graz, Austria
| | - Szilvia Bõsze
- Christian Doppler Laboratory for Microwave Chemistry (CDLMC) and Institute of Chemistry, Karl-Franzens-University Graz, Heinrichstrasse 28, A-8010 Graz, Austria, Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eötvös Loránd University, 1117 Budapest, Hungary, and piCHEM Forschungs und EntwicklungsgmbH, Kahngasse 20, A-8045 Graz, Austria
| | - Fritz Andreae
- Christian Doppler Laboratory for Microwave Chemistry (CDLMC) and Institute of Chemistry, Karl-Franzens-University Graz, Heinrichstrasse 28, A-8010 Graz, Austria, Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eötvös Loránd University, 1117 Budapest, Hungary, and piCHEM Forschungs und EntwicklungsgmbH, Kahngasse 20, A-8045 Graz, Austria
| | - C. Oliver Kappe
- Christian Doppler Laboratory for Microwave Chemistry (CDLMC) and Institute of Chemistry, Karl-Franzens-University Graz, Heinrichstrasse 28, A-8010 Graz, Austria, Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eötvös Loránd University, 1117 Budapest, Hungary, and piCHEM Forschungs und EntwicklungsgmbH, Kahngasse 20, A-8045 Graz, Austria
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27
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Mazzini S, García-Martin F, Alvira M, Aviñó A, Manning B, Albericio F, Eritja R. Synthesis of oligonucleotide derivatives using ChemMatrix supports. Chem Biodivers 2008; 5:209-18. [PMID: 18205124 DOI: 10.1002/cbdv.200890012] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The synthesis of oligonucleotides on poly(ethylene glycol)-based (ChemMatrix) supports was studied. Results show that oligonucleotides can be indeed prepared in good yields using slightly modified synthesis cycles and automated DNA synthesizers. The use of these supports for the synthesis of oligonucleotide-peptide conjugates and for the ligation of oligonucleotides using Cu(+)-catalyzed cycloadition reactions is reported. Moreover, these supports can be used for the preparation of oligonucleotides in anhydrous solvents, followed by hybridization of the complementary sequences in aqueous buffers.
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Affiliation(s)
- Stefania Mazzini
- Institute for Research in Biomedicine, Barcelona Science Park, University of Barcelona, Spain
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28
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Marani MM, Oliveira E, Côte S, Camperi SA, Albericio F, Cascone O. Identification of protein-binding peptides by direct matrix-assisted laser desorption ionization time-of-flight mass spectrometry analysis of peptide beads selected from the screening of one bead–one peptide combinatorial libraries. Anal Biochem 2007; 370:215-22. [PMID: 17888393 DOI: 10.1016/j.ab.2007.07.032] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2007] [Revised: 07/27/2007] [Accepted: 07/30/2007] [Indexed: 10/23/2022]
Abstract
A fast and inexpensive strategy for the identification of peptide ligands by direct matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF-MS) analysis of peptide beads screened from one bead-one peptide combinatorial libraries is herein described. Streptavidin was used as the model protein. A combinatorial library of 6561 peptides was synthesized on ChemMatrix resin by the divide-couple-recombine method. 4-Hydroxymethylbenzoic acid was used as the linker and five residues of Gly were incorporated at the C termini to increase the final peptide molecular weight. Positive control peptides with the HPQ motif and negative control peptides without the HPQ motif evidenced that the linker and the five residues of Gly have neither impaired the specific binding nor facilitated unspecific binding. After screening the library, positive beads were isolated and washed with 8M guanidine hydrochloride. The beads were sliced into two or four pieces, deposited onto the stainless steel MALDI sample plate, and treated with ammonia vapor to release the peptides. In addition, 26 beads picked at random from the library were subjected to the same treatment. All samples were analyzed by MALDI-TOF-MS and the peptides were unambiguously identified with very good reproducibility between the bead pieces, thus evidencing the good homogeneity of the bead. All sequences obtained from the screening contained HPQ.
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Affiliation(s)
- Mariela M Marani
- Institute for Research in Biomedicine, Barcelona Science Park, Josep Samitier 1, 08028 Barcelona, Spain
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29
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Marani MM, Paradís-Bas M, Tulla-Puche J, Côté S, Camperi SA, Cascone O, Albericio F. From the One-Bead-One-Compound Concept to One-Bead-One-Reactor. ACTA ACUST UNITED AC 2007; 9:395-8. [PMID: 17397228 DOI: 10.1021/cc070012h] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The one-bead-one-compound method gives access to millions of compounds that can be screened directly on the bead. Although characterization techniques are increasingly potent and reliable, problems can still be encountered in deciphering the sequence of the active compound because of sensitiveness or manipulation of the bead. ChemMatrix, a totally PEG-based resin, has resolved the synthesis of peptides of outstanding difficulty. Like other PEG-based resins, it permits on-bead screening because of its compatibility in aqueous media and has the further advantage of having a high loading, comparable to polystyrene resins. ChemMatrix beads previously swelled in water can be nicely divided into four parts that can be characterized using different analytical techniques or just stored for safety or for further testing. The four bead parts show high homogeneity and can thus be considered to be replicas.
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Affiliation(s)
- Mariela M Marani
- Institute for Research in Biomedicine, Barcelona Science Park, Josep Samitier 1-5, 08028-Barcelona, Spain
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30
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García-Martín F, Quintanar-Audelo M, García-Ramos Y, Cruz LJ, Gravel C, Furic R, Côté S, Tulla-Puche J, Albericio F. ChemMatrix, a poly(ethylene glycol)-based support for the solid-phase synthesis of complex peptides. ACTA ACUST UNITED AC 2006; 8:213-20. [PMID: 16529516 DOI: 10.1021/cc0600019] [Citation(s) in RCA: 197] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
CM (ChemMatrix) resin is a new, totally poly(ethylene glycol) (PEG)-based resin, made exclusively from primary ether bonds and, therefore, highly chemically stable. It exhibits good loading and is user-friendly because of its free-flowing form upon drying. It performs excellently for the preparation of hydrophobic, highly structured, and poly-Arg peptides, as compared to polystyrene (PS) resins. In the most striking example, stepwise solid-phase assembly of the highly complex beta-amyloid (1-42) peptide resulted in a crude material of 91% purity. In contrast, literature procedures using PS or PEG-PS-based resins for this peptide required convergent approaches, additional time-consuming steps, or both. In addition to the difficulties of its synthesis, characterization of the beta-amyloid (1-42) peptide as a monomer is also a challenge, and methods for characterization by HPLC and MALDI-TOF have also been developed.
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Affiliation(s)
- Fayna García-Martín
- Barcelona Biomedical Research Institute, Barcelona Science Park, University of Barcelona, Josep Samitier 1, 08028-Barcelona, Spain
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