1
|
Dong X, Qiu Z, Wang Z, Li J, Qin W, Dang J, Zhou W, Jia G, Chen Y, Wang C. Efficient Silver(I)-Containing I-Motif DNA Hybrid Catalyst for Enantioselective Diels-Alder Reactions. Angew Chem Int Ed Engl 2024:e202407838. [PMID: 38860437 DOI: 10.1002/anie.202407838] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2024] [Revised: 05/30/2024] [Accepted: 06/11/2024] [Indexed: 06/12/2024]
Abstract
The inherent chiral structures of DNA serve as attractive scaffolds to construct DNA hybrid catalysts for valuable enantioselective transformations. Duplex and G-quadruplex DNA-based enantioselective catalysis has made great progress, yet novel design strategies of DNA hybrid catalysts are highly demanding and atomistic analysis of active centers is still challenging. DNA i-motif structures could be finely tuned by different cytosine-cytosine base pairs, providing a new platform to design DNA catalysts. Herein, we found that a human telomeric i-motif DNA containing cytosine-silver(I)-cytosine (C-Ag+-C) base pairs interacting with Cu(II) ions (i-motif DNA(Ag+)/Cu2+) could catalyze Diels-Alder reactions with full conversions and up to 95 % enantiomeric excess. As characterized by various physicochemical techniques, the presence of Ag+ is proved to replace the protons in hemiprotonated cytosine-cytosine (C : C+) base pairs and stabilize the DNA i-motif to allow the acceptance of Cu(II) ions. The i-motif DNA(Ag+)/Cu2+ catalyst shows about 8-fold rate acceleration compared with DNA and Cu2+. Based on DNA mutation experiments, thermodynamic studies and density function theory calculations, the catalytic center of Cu(II) ion is proposed to be located in a specific loop region via binding to one nitrogen-7 atom of an unpaired adenine and two phosphate-oxygen atoms from nearby deoxythymidine monophosphate and deoxyadenosine monophosphate, respectively.
Collapse
Affiliation(s)
- Xingchen Dong
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Ziyang Qiu
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Zixiao Wang
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Jiaqi Li
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Weijun Qin
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Jingshuang Dang
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Wenqin Zhou
- State Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023, China
| | - Guoqing Jia
- State Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023, China
| | - Yashao Chen
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| | - Changhao Wang
- Key Laboratory of Applied Surface and Colloid Chemistry (MOE), Xi'an Key Laboratory of Organometallic Material Chemistry, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, China
| |
Collapse
|
2
|
Zhang J, Wang K, Li K, Zhang L, Dong X, Bian L. An efficient fluorescence reversible regulation strategy with single labelled oligonucleotide HEX-OND successively triggered by Hg(II) and Cysteine: The application and mechanism. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 299:122817. [PMID: 37210852 DOI: 10.1016/j.saa.2023.122817] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 04/12/2023] [Accepted: 05/01/2023] [Indexed: 05/23/2023]
Abstract
An efficient fluorescence reversible regulation system with HEX-OND was developed. Then the application potential was explored in probing Hg(II) & Cysteine (Cys) in real samples and the thermodynamic mechanism was further investigated by precise theory analysis combining multiple spectroscopic methods. The results showed that only mere disturbances were observed among 15 and 11 kinds of other substances for the optimal system in detecting Hg(II) & Cys, respectively; The linear ranges of quantification were identified as 1.0 ∼ 14.0 and 2.0 ∼ 20.0 (×10-8 mol/L) with LODs of 8.75 and 14.09 (×10-9 mol/L) for Hg(II) and Cys, respectively; no significant deviations were found in the quantification results of Hg(II) in three traditional Chinese herbs and Cys in two samples between the well-understood methods with ours respectively, showing excellent selectivity, sensitivity, and tremendous application feasibility. The detailed mechanism was further verified as that the introduced Hg(II) forced HEX-OND to transform into the Hairpin structure with the apparent equilibrium association constant of 6.02 ± 0.62 × 1010 L/mol in the bimolecular ratio, leading to the equimolar quencher, consecutive two guanine bases ((G)2), approaching and spontaneously static-quenching the reporter HEX (hexachlorofluorescein) (equilibrium constant, 8.75 ± 1.97 × 107 L/mol) in the Photo-induced Electron Transfer (PET) way that was driven by the Electrostatic Interaction. The additional Cys destructed the equimolar Hairpin structure with the apparent equilibrium constant of 8.87 ± 2.47 × 105 L/mol through breaking one of the formed T-Hg(II)-T mismatches by association with the involved Hg(II), occasioning (G)2 apart from HEX and consequently the fluorescence recovery.
Collapse
Affiliation(s)
- Jiaxin Zhang
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China
| | - Kun Wang
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China
| | - Kewei Li
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China
| | - Ling Zhang
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China
| | - Xiaoting Dong
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China
| | - Liujiao Bian
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Provincial Key Laboratory of Biotechnology, College of Life Sciences, Northwest University, Xi'an 710069, Shaanxi, China.
| |
Collapse
|
3
|
Fardian-Melamed N, Katrivas L, Eidelshtein G, Rotem D, Kotlyar A, Porath D. Electronic Level Structure of Silver-Intercalated Cytosine Nanowires. NANO LETTERS 2020; 20:4505-4511. [PMID: 32412760 DOI: 10.1021/acs.nanolett.0c01292] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Metal-mediated base-paired DNA has long been investigated for basic scientific pursuit and for nanoelectronics purposes. Particularly attractive in these domains is the Ag+-intercalated polycytosine DNA duplex. Extensive studies of this molecule have led to our current understanding of its self-assembly properties, high thermodynamic and structural stability, and high longitudinal conductivity. However, a high-resolution morphological characterization of long Ag+-intercalated polycytosine DNA has hitherto not been carried out. Furthermore, the electronic level structure of this molecule has not been studied before. Here we present a scanning tunneling microscopy and spectroscopy study of this intriguing nanowire. Its temperature-independent morphological and electronic properties suggest substantial stability, while its emergent electronic levels and energy gap provide the basis for its high conductivity.
Collapse
Affiliation(s)
- Natalie Fardian-Melamed
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Liat Katrivas
- Department of Biochemistry and Molecular Biology, George S. Wise Faculty of Life Sciences, and The Center of Nanoscience and Nanotechnology, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
| | - Gennady Eidelshtein
- Department of Biochemistry and Molecular Biology, George S. Wise Faculty of Life Sciences, and The Center of Nanoscience and Nanotechnology, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
| | - Dvir Rotem
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Alexander Kotlyar
- Department of Biochemistry and Molecular Biology, George S. Wise Faculty of Life Sciences, and The Center of Nanoscience and Nanotechnology, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
| | - Danny Porath
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| |
Collapse
|