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Li J, Cui Z, Fan C, Zhou Y, Ren M, Zhou C. Photo-caged 2-butene-1,4-dial as an efficient, target-specific photo-crosslinker for covalent trapping of DNA-binding proteins. Chem Sci 2023; 14:10884-10891. [PMID: 37829010 PMCID: PMC10566456 DOI: 10.1039/d3sc03719c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Accepted: 09/12/2023] [Indexed: 10/14/2023] Open
Abstract
Covalent trapping of DNA-binding proteins via photo-crosslinking is an advantageous method for studying DNA-protein interactions. However, traditional photo-crosslinkers generate highly reactive intermediates that rapidly and non-selectively react with nearby functional groups, resulting in low target-capture yields and high non-target background capture. Herein, we report that photo-caged 2-butene-1,4-dial (PBDA) is an efficient photo-crosslinker for trapping DNA-binding proteins. Photo-irradiation (360 nm) of PBDA-modified DNA generates 2-butene-1,4-dial (BDA), a small, long-lived intermediate that reacts selectively with Lys residues of DNA-binding proteins, leading in minutes to stable DNA-protein crosslinks in up to 70% yield. In addition, BDA exhibits high specificity for target proteins, leading to low non-target background capture. The high photo-crosslinking yield and target specificity make PBDA a powerful tool for studying DNA-protein interactions.
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Affiliation(s)
- Jiahui Li
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
| | - Zenghui Cui
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
| | - Chaochao Fan
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
| | - Yifei Zhou
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
| | - Mengtian Ren
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
| | - Chuanzheng Zhou
- State Key Laboratory of Elemento-Organic Chemistry, Frontiers Science Center for New Organic Matter, Department of Chemical Biology, College of Chemistry, Nankai University Tianjin 300071 China
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2
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Kim B, Lee J, Bae HY, Son SU, Song C. Supramolecular Phthalimide Networks Via Tandem Diels-Alder Reaction-Aromatization Using Biomass-Derived Furanic Dienes. Macromol Rapid Commun 2023; 44:e2200711. [PMID: 36281910 DOI: 10.1002/marc.202200711] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Revised: 10/18/2022] [Indexed: 11/09/2022]
Abstract
The design and synthesis of phthalimide derivatives are important goals for applications in fields such as pharmaceutical science and optoelectronics. In the present study, a facile and convenient synthetic pathway (no heat or acid/catalyst needed) is devised to produce phthalimides from a biomass-derived furan by directly introducing an N-carbamate group at the C-2 position of the furan ring via thermal Curtius rearrangement. The electron-donating N-carbamate group increases the energy level of the highest occupied molecular orbital of the furan diene, resulting in a significant increase of the rate of the Diels-Alder reaction with maleimide compared to the conventional furfuryl furan. Interestingly, the Diels-Alder adduct smoothly undergoes aromatization (dehydration) to generate the phthalimide motif. It is shown that the biomass-derived phthalimides can produce supramolecular gels and act as sensors of basic anions like F- and CN- . The novel synthetic pathway to phthalimide derivatives from a biomass-derived furan can potentially be used to develop novel phthalimide motifs for a variety of applications.
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Affiliation(s)
- Byounghyun Kim
- Department of Chemistry, Sungkyunkwan University, (16419) 2066, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, Republic of Korea
| | - Juhyen Lee
- Department of Chemistry, Sungkyunkwan University, (16419) 2066, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, Republic of Korea
| | - Han Yong Bae
- Department of Chemistry, Sungkyunkwan University, (16419) 2066, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, Republic of Korea
| | - Seung Uk Son
- Department of Chemistry, Sungkyunkwan University, (16419) 2066, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, Republic of Korea
| | - Changsik Song
- Department of Chemistry, Sungkyunkwan University, (16419) 2066, Seobu-ro, Jangan-gu, Suwon-si, Gyeonggi-do, Republic of Korea
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3
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Abstract
This review highlights (2010–2021) different strategies for the construction of the phthalimide core apart from traditional synthetic routes.
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Affiliation(s)
- Suven Das
- Department of Chemistry, Rishi Bankim Chandra College for Women, Naihati, 24-Parganas (N), 743165, India
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Shoji T, Iida N, Yamazaki A, Ariga Y, Ohta A, Sekiguchi R, Nagahata T, Nagasawa T, Ito S. Synthesis of phthalimides cross-conjugated with an azulene ring, and their structural, optical and electrochemical properties. Org Biomol Chem 2020; 18:2274-2282. [PMID: 32150201 DOI: 10.1039/d0ob00164c] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
The preparation of phthalimides cross-conjugated with an azulene ring was established by a one-pot Diels-Alder reaction of the corresponding 2-aminofuran derivatives with several maleimides, without the isolation of the intermediately formed [4 + 2] cycloadducts. The structure, optical and electrochemical properties of the novel phthalimide derivatives were clarified by single-crystal X-ray analysis, UV/Vis and fluorescence spectra, spectroelectrochemistry and voltammetry experiments, and theoretical calculations. These results indicated that the substituents on the azulene ring greatly affect the optical and electrochemical properties of the molecules.
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Affiliation(s)
- Taku Shoji
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Nanami Iida
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Akari Yamazaki
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Yukino Ariga
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Akira Ohta
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Ryuta Sekiguchi
- Graduate School of Science and Technology, Shinshu University, Matsumoto, 390-8621, Nagano, Japan.
| | - Tatsuki Nagahata
- Graduate School of Science and Technology, Hirosaki University, Hirosaki 036-8561, Aomori, Japan
| | - Takuya Nagasawa
- Graduate School of Science and Technology, Hirosaki University, Hirosaki 036-8561, Aomori, Japan
| | - Shunji Ito
- Graduate School of Science and Technology, Hirosaki University, Hirosaki 036-8561, Aomori, Japan
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Zang C, Wang H, Li T, Zhang Y, Li J, Shang M, Du J, Xi Z, Zhou C. A light-responsive, self-immolative linker for controlled drug delivery via peptide- and protein-drug conjugates. Chem Sci 2019; 10:8973-8980. [PMID: 31762977 PMCID: PMC6857671 DOI: 10.1039/c9sc03016f] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2019] [Accepted: 08/08/2019] [Indexed: 01/01/2023] Open
Abstract
Photoirradiation of the PC4AP linker generates an active intermediate that reacts intramolecularly with a primary amine on the carrier peptide/protein, leading to rapid release of the drug without generating any toxic side products.
When designing prodrugs, choosing an appropriate linker is the key to achieving efficient, controlled drug delivery. Herein, we report the use of a photocaged C4′-oxidized abasic site (PC4AP) as a light-responsive, self-immolative linker. Any amine- or hydroxyl-bearing drug can be loaded onto the linker via a carbamate or carbonate bond, and the linker is then conjugated to a carrier peptide or protein via an alkyl chain. The PC4AP linker is stable under physiologically relevant conditions. However, photodecaging of the linker generates an active intermediate that reacts intramolecularly with a primary amine (the ε-amine of a lysine residue and the N-terminal amine) on the carrier, leading to rapid and efficient release of the drug via an addition–elimination cascade, without generating any toxic side products. We demonstrated that the use of this self-immolative linker to conjugate the anticancer drug doxorubicin to a cell-penetrating peptide or an antibody enabled targeted, controlled delivery of the drug to cells. Our results suggest that the linker can be used with a broad range of carriers, such as cell-penetrating peptides, proteins, antibodies, and amine-functionalized polymers, and thus will find a wide range of practical applications.
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Affiliation(s)
- Chuanlong Zang
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Huawei Wang
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Tiantian Li
- School of Pharmaceutical Sciences , Tsinghua University , 30 Shuangqing Rd. , Beijing 100084 , China
| | - Yingqian Zhang
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Jiahui Li
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Mengdi Shang
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Juanjuan Du
- School of Pharmaceutical Sciences , Tsinghua University , 30 Shuangqing Rd. , Beijing 100084 , China
| | - Zhen Xi
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
| | - Chuanzheng Zhou
- State Key Laboratory of Elemento-Organic Chemistry , Department of Chemical Biology , College of Chemistry , Nankai University , Tianjin 300071 , China .
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Shoji T, Araki T, Iida N, Miura K, Ohta A, Sekiguchi R, Ito S, Okujima T. Synthesis of azulenophthalimides by phosphine-mediated annulation of 1,2-diformylazulenes with maleimides. Org Chem Front 2019. [DOI: 10.1039/c8qo01121d] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The reaction of 1,2-diformylazulene with maleimides in the presence of PPh3 gave the azulenophthalimides. The optical and electrochemical properties of the azulenophthalimides were investigated.
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Affiliation(s)
- Taku Shoji
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Takanori Araki
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Nanami Iida
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Kota Miura
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Akira Ohta
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Ryuta Sekiguchi
- Graduate School of Science and Technology
- Shinshu University
- Nagano
- Japan
| | - Shunji Ito
- Graduate School of Science and Technology
- Hirosaki University
- Hirosaki 036-8561
- Japan
| | - Tetsuo Okujima
- Department of Chemistry and Biology
- Graduate School of Science and Engineering
- Ehime University
- Matsuyama 790-8577
- Japan
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Kimuro Y, Usui K, Karasawa S, Hirai G, Aso M. 7-Hydroxy-3-methyleneisoindolin-1-one as a New ESIPT-Fluorescent Probe to Monitor Aqueous Environments. Chem Pharm Bull (Tokyo) 2017; 65:796-800. [PMID: 28768933 DOI: 10.1248/cpb.c17-00306] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A 7-hydroxy derivative of 3-methyleneisoindolin-1-one 1 was synthesized and its properties as a new fluorophore undergoing excited-state intramolecular proton transfer (ESIPT) were investigated. In alcohols and dimethylsulfoxide, 1 exhibited dual emission at ca. 380 and 525-540 nm when excited at ca. 336 nm, which agreed well with the density functional theory (DFT) and time-dependent (TD)-DFT-calculated emission predictions of 1 and its ESIPT tautomer. In aqueous solutions at near neutral pH, 1 exhibited a broad emission band at ca. 497 nm, presumably caused by the overlap of emissions from 1 and the excited state phenolate species of 1. In binary mixtures of H2O and EtOH, the wavelength and intensity of fluorescence maxima were dependent on the dielectric constant of the solvent, suggesting that 1 could be applied as a fluorescent probe to monitor aqueous environments.
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Affiliation(s)
- Yusuke Kimuro
- Graduate School of Pharmaceutical Sciences, Kyushu University
| | - Kazuteru Usui
- Graduate School of Pharmaceutical Sciences, Kyushu University
| | | | - Go Hirai
- Graduate School of Pharmaceutical Sciences, Kyushu University
| | - Mariko Aso
- Graduate School of Pharmaceutical Sciences, Kyushu University
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Zhang Y, Zhou X, Xie Y, Greenberg MM, Xi Z, Zhou C. Thiol Specific and Tracelessly Removable Bioconjugation via Michael Addition to 5-Methylene Pyrrolones. J Am Chem Soc 2017; 139:6146-6151. [PMID: 28407468 DOI: 10.1021/jacs.7b00670] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
5-Methylene pyrrolones (5MPs) are highly thiol-specific and tracelessly removable bioconjugation tools. 5MPs are readily prepared from primary amines in one step. 5MPs exhibit significantly improved stability under physiologically relevant conditions and cysteine specificity compared to commonly used analogues, maleimides. Michael addition of thiol to 5MPs occurs rapidly, cleanly, and does not generate a stereocenter. The conjugates efficiently release thiols via retro-Michael reaction in alkaline buffer (pH 9.5) or via thiol exchange at pH 7.5. This unique property makes 5MPs valuable for the controlled release of conjugated cargo and temporary thiol protection. The utilization of 5MPs for protein immobilization and pull-down of active complexes is illustrated using E. coli. acetohydroxyacid synthase isozyme I.
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Affiliation(s)
- Yingqian Zhang
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, College of Chemistry, Nankai University , Tianjin 300071, China
| | - Xiaoping Zhou
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, College of Chemistry, Nankai University , Tianjin 300071, China
| | - Yonghui Xie
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, College of Chemistry, Nankai University , Tianjin 300071, China
| | - Marc M Greenberg
- Department of Chemistry, Johns Hopkins University , 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Zhen Xi
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, College of Chemistry, Nankai University , Tianjin 300071, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300071, China
| | - Chuanzheng Zhou
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, College of Chemistry, Nankai University , Tianjin 300071, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300071, China
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9
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Llamas EM, Tome JPC, Rodrigues JMM, Torres T, Madder A. Porphyrin-based photosensitizers and their DNA conjugates for singlet oxygen induced nucleic acid interstrand crosslinking. Org Biomol Chem 2017. [DOI: 10.1039/c7ob01269a] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Porphyrin-based photosensitisers and their DNA conjugates have been evaluated for interstrand crosslink generation using furan containing oligonucleotides and red light.
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Affiliation(s)
- Eva M. Llamas
- Department of Organic and Macromolecular Chemistry
- Ghent University
- 9000 Ghent
- Belgium
- Departamento de Química Orgánica
| | - João P. C. Tome
- Centro de Química Estrutural
- Departamento de Engenharia Química
- Instituto Superior Técnico
- Universidade de Lisboa
- 1049-001 Lisboa
| | - João M. M. Rodrigues
- Centro de Química Estrutural
- Departamento de Engenharia Química
- Instituto Superior Técnico
- Universidade de Lisboa
- 1049-001 Lisboa
| | - Tomás Torres
- Departamento de Química Orgánica
- Universidad Autónoma de Madrid
- 28049 Madrid
- Spain
- Imdea-Nanoscience
| | - Annemieke Madder
- Department of Organic and Macromolecular Chemistry
- Ghent University
- 9000 Ghent
- Belgium
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