1
|
Zhang H, Liu D, Zhang J, Adams E, Gong J, Li W, Wang B, Liu X, Yang R, Wei F, Allen HC. GMP affected assembly behaviors of phosphatidylethanolamine monolayers elucidated by multi-resolved SFG-VS and BAM. Colloids Surf B Biointerfaces 2024; 241:113995. [PMID: 38870647 DOI: 10.1016/j.colsurfb.2024.113995] [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: 12/18/2023] [Revised: 05/18/2024] [Accepted: 05/26/2024] [Indexed: 06/15/2024]
Abstract
The interaction between nucleotide molecules and lipid molecules plays important roles in cell activities, but the molecular mechanism is very elusive. In the present study, a small but noticeable interaction between the negatively charged phosphatidylethanolamine (PE) and Guanosine monophosphate (GMP) molecules was observed from the PE monolayer at the air/water interface. As shown by the sum frequency generation (SFG) spectra and Pi-A isotherm of the PE monolayer, the interaction between the PE and GMP molecules imposes very small changes to the PE molecules. However, the Brewster angle microscopy (BAM) technique revealed that the assembly conformations of PE molecules are significantly changed by the adsorption of GMP molecules. By comparing the SFG spectra of PE monolayers after the adsorption of GMP, guanosine and guanine, it is also shown that the hydrogen bonding effect plays an important role in the nucleotide-PE interactions. These results provide fundamental insight into the structure changes during the nucleotide-lipid interaction, which may shed light on the molecular mechanism of viral infection, DNA drug delivery, and cell membrane curvature control in the brain or neurons.
Collapse
Affiliation(s)
- Hongjuan Zhang
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Dongqi Liu
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Jiawei Zhang
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Ellen Adams
- Department of Chemistry and Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, OH 43210, USA
| | - Jingjing Gong
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Wenhui Li
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Bing Wang
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Xueqing Liu
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Renqiang Yang
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China
| | - Feng Wei
- School of Optoelectronic Materials and Technology, & Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, Jianghan University, Wuhan 430056, China.
| | - Heather C Allen
- Department of Chemistry and Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, OH 43210, USA.
| |
Collapse
|
2
|
Wang H, Hu XH, Wang HF. Temporal and Chirp Effects of Laser Pulses on the Spectral Lineshape in Sum-Frequency Generation Vibrational Spectroscopy. J Chem Phys 2022; 156:204706. [DOI: 10.1063/5.0088506] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Assignment and interpretation of the sum-frequency generation vibrational spectra (SFG-VS) depend on the ability to measure and understand the factors affecting the SFG-VS spectral lineshape accurately and reliably. In the past, the formulation of the polarization selection rules for SFG-VS and the development of the sub-wavenumber high-resolution broadband SFG-VS (HR-BB-SFG-VS) have provided solutions for many of these needs. However, despite these advantages, HR-BB-SFG-VS has not been widely adopted. The majority of SFG measurements so far still relies on the picosecond scanning SFG-VS (ps-SFG-VS) or the conventional broadband SFG-VS (BB-SFG-VS) with the spectral resolution around (mostly above) 10 cm-1, which also results in less ideal spectral lineshape in the SFG spectra due to the temporal and chirp effects of the laser pulses used in experiment. In this report, the temporal and the chirp effects of laser pulses with different profiles in the SFG experiment on the measured SFG-VS spectral lineshape are examined through spectral simulation. In addition, the experimental data of a classical model system, i.e., OTS (octadecyltrichlorosilane) monolayer on glass, obtained from the ps-SFG-VS, the BB-SFG-VS, and the HR-BB-SFG-VS measurements, are directly compared and examined. These results show that temporal and chirp effects are often significant in the conventional BB-SFG-VS, resulting lineshape distortions and peak position shifts besides spectral broadening. Such temporal and chirp effects are less significant in the ps scanning SFG-VS. For the HR-BB-SFG-VS, spectral broadening, and temporal and chirp effects are insignificant, making HR-BB-SFG-VS the choice for accurate and reliable measurement and analysis of SFG-VS spectra.
Collapse
|
3
|
Li P, Wang L, Sun M, Yao J, Li W, Lu W, Zhou Y, Zhang G, Hu C, Zheng W, Wei F. Binding affinity and conformation of a conjugated AS1411 aptamer at a cationic lipid bilayer interface. Phys Chem Chem Phys 2022; 24:9018-9028. [PMID: 35381056 DOI: 10.1039/d1cp05753g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Aptamers have been widely used in the detection, diagnosis, and treatment of cancer. Owing to their special binding affinity toward cancer-related biomarkers, aptamers can be used for targeted drug delivery or bio-sensing/bio-imaging in various scenarios. The interfacial properties of aptamers play important roles in controlling the surface charge, recognition efficiency, and binding affinity of drug-delivering lipid-based carriers. In this research, the interfacial behaviors, such as surface orientation, molecular conformation, and adsorption kinetics of conjugated AS1411 molecules at different cationic lipid bilayer interfaces were investigated by sum frequency generation vibrational spectroscopy (SFG-VS) in situ and in real-time. It is shown that the conjugated AS1411 molecules at the DMTAP bilayer interface show a higher binding affinity but with slower binding kinetics compared to the DMDAP bilayer interface. The analysis results also reveal that the thymine residues of cholesteryl conjugated AS1411 molecules show higher conformational ordering compared to the thymine residues of the alkyl chain conjugated AS1411 molecules. These understandings provide unique molecular insight into the aptamer-lipid membrane interactions, which may help researchers to improve the efficiency and safety of aptamer-related drug delivery systems.
Collapse
Affiliation(s)
- Penghua Li
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Liqun Wang
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Meng Sun
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Jiyuan Yao
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Wenhui Li
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China. .,Institution for Interdisciplinary Research, Jianghan University, Wuhan, Hubei, 430056, China
| | - Wangting Lu
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China. .,Institution for Interdisciplinary Research, Jianghan University, Wuhan, Hubei, 430056, China
| | - Youhua Zhou
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Geng Zhang
- Department of Chemistry, College of Science, Huazhong Agricultural University, No. 1, Shizishan Street, Wuhan 430070, China
| | - Chenglong Hu
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China.
| | - Wanquan Zheng
- Institution for Interdisciplinary Research, Jianghan University, Wuhan, Hubei, 430056, China.,Institut des Sciences Moléculaires d'Orsay, Université Paris-Sud, 91405 Orsay Cedex, France
| | - Feng Wei
- Key Laboratory of Optoelectronic Chemical Materials and Devices, Ministry of Education, & School of Optoelectronic Materials and Technology, Jianghan University, Wuhan 430056, China. .,Institution for Interdisciplinary Research, Jianghan University, Wuhan, Hubei, 430056, China
| |
Collapse
|
4
|
Singh PC, Ahmed M, Nihonyanagi S, Yamaguchi S, Tahara T. DNA-Induced Reorganization of Water at Model Membrane Interfaces Investigated by Heterodyne-Detected Vibrational Sum Frequency Generation Spectroscopy. J Phys Chem B 2022; 126:840-846. [DOI: 10.1021/acs.jpcb.1c08581] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Prashant Chandra Singh
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- School of Chemical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Mohammed Ahmed
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Satoshi Nihonyanagi
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Shoichi Yamaguchi
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Department of Applied Chemistry, Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura, Saitama 338-8570, Japan
| | - Tahei Tahara
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| |
Collapse
|
5
|
Zhou S, Wang L. Unraveling the structural and chemical features of biological short hydrogen bonds. Chem Sci 2019; 10:7734-7745. [PMID: 31588321 PMCID: PMC6764281 DOI: 10.1039/c9sc01496a] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Accepted: 06/30/2019] [Indexed: 02/06/2023] Open
Abstract
Short hydrogen bonds are ubiquitous in biological macromolecules and exhibit distinctive proton potential energy surfaces and proton sharing properties.
The three-dimensional architecture of biomolecules often creates specialized structural elements, notably short hydrogen bonds that have donor–acceptor separations below 2.7 Å. In this work, we statistically analyze 1663 high-resolution biomolecular structures from the Protein Data Bank and demonstrate that short hydrogen bonds are prevalent in proteins, protein–ligand complexes and nucleic acids. From these biological macromolecules, we characterize the preferred location, connectivity and amino acid composition in short hydrogen bonds and hydrogen bond networks, and assess their possible functional importance. Using electronic structure calculations, we further uncover how the interplay of the structural and chemical features determines the proton potential energy surfaces and proton sharing conditions in biological short hydrogen bonds.
Collapse
Affiliation(s)
- Shengmin Zhou
- Department of Chemistry and Chemical Biology , Institute for Quantitative Biomedicine , Rutgers University , Piscataway , NJ 08854 , USA .
| | - Lu Wang
- Department of Chemistry and Chemical Biology , Institute for Quantitative Biomedicine , Rutgers University , Piscataway , NJ 08854 , USA .
| |
Collapse
|
6
|
Abstract
Vibrational spectroscopy provides a powerful tool to probe the structure and dynamics of nucleic acids because specific normal modes, particularly the base carbonyl stretch modes, are highly sensitive to the hydrogen bonding patterns and stacking configurations in these biomolecules. In this work, we develop vibrational frequency maps for the C═O and C═C stretches in nucleobases that allow the calculations of their site frequencies directly from molecular dynamics simulations. We assess the frequency maps by applying them to nucleobase derivatives in aqueous solutions and nucleosides in organic solvents and demonstrate that the predicted infrared spectra are in good agreement with experimental measurements. The frequency maps can be readily used to model the linear and nonlinear vibrational spectroscopy of nucleic acids and elucidate the molecular origin of the experimentally observed spectral features.
Collapse
Affiliation(s)
- Yaoyukun Jiang
- Department of Chemistry and Chemical Biology, Institute for Quantitative Biomedicine , Rutgers University , 174 Frelinghuysen Road , Piscataway , New Jersey 08854 , United States
| | - Lu Wang
- Department of Chemistry and Chemical Biology, Institute for Quantitative Biomedicine , Rutgers University , 174 Frelinghuysen Road , Piscataway , New Jersey 08854 , United States
| |
Collapse
|
7
|
Li P, Shen Y, Wang L, Lu W, Li W, Chen K, Zhou Y, Shen L, Wei F, Zheng W. The electric double layer structure modulates poly-dT 25 conformation and adsorption kinetics at the cationic lipid bilayer interface. SOFT MATTER 2019; 15:4445-4453. [PMID: 31011740 DOI: 10.1039/c9sm00321e] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The conformation and adsorption kinetics of oligonucleotides at lipid membrane interfaces are crucial to their biological functions, but are yet not clearly understood. Poly-dT oligonucleotide molecules have been widely used as primers for reverse translation of RNA molecules, as well as a surface recognition agent for mRNA purification and extraction. In this research, the adsorption processes of poly-dT25 on lipid membranes in different ionic solutions were investigated by sum frequency generation vibrational spectroscopy (SFG-VS) together with a single molecule tracking technique in situ and in real time. These systematic studies provide us with molecular insight into the chemical and physical nature of oligonucleotide-membrane interactions, and show us how the electric double layer (EDL) structure changes the conformation and adsorption kinetics of oligonucleotides. The SFG-VS results indicate that an increase of ionic concentration not only decreases the adsorption density of oligonucleotides but also changes the conformation of oligonucleotides from an elongated conformation to a coiled conformation, causing stronger thermodynamic interactions with membranes, as demonstrated by single molecule tracking techniques. It is also shown that the ionic solution can tune the balance between the surface diffusion rate and solution diffusion rate of oligonucleotides significantly. These results demonstrated that the spectra and kinetics collected by in situ label-free SFG-VS detection and the single molecular tracking technique can provide new molecular insights into the mechanisms of oligonucleotide-membrane interactions. These new understandings may help researchers to control the assembly of oligonucleotide-liposome complexes and to improve the efficiency of transportation and delivery of oligonucleotide molecules.
Collapse
Affiliation(s)
- PengHua Li
- Institution for Interdisciplinary Research, & Key Laboratory of Optoelectronic Chemical Materials and Devices of Ministry of Education, Jianghan University, Wuhan, Hubei 430056, China.
| | | | | | | | | | | | | | | | | | | |
Collapse
|