Article
Chemistry, Physical
Anastasia V. Bochenkova, Lars H. Andersen
Summary: The study discusses the application of action spectroscopy in determining the S-0 to S-1 band origin in the GFP anion model chromophore. It points out the potential consequences of the lowest vibrational levels in S-1 leading to a significant blue-shift in the apparent band origin.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2022)
Article
Optics
Cheng Fu, Dongdong Zhang, Gongnv Xu, Xuankai Deng, Min Liu, Yun Deng, Wangting Lu, Chaohui Chen, Yibin Ruan, Yanhua Yu
Summary: This study designed and synthesized two fluorescent molecules, m-DBI and p-DBI, with m-DBI showing strong fluorescence in aprotic organic solvents and forming microtubes with FF, while p-DBI exhibited weak fluorescence in both protic and aprotic solvents and could not co-assemble with FF. This research demonstrates the potential application of screening possible inhibitor molecules of AD diseases using FF-m-DBI co-assemblies.
JOURNAL OF LUMINESCENCE
(2021)
Article
Multidisciplinary Sciences
Omri Tau, Alice Henley, Anton N. Boichenko, Nadezhda N. Kleshchina, River Riley, Bingxing Wang, Danielle Winning, Ross Lewin, Ivan P. Parkin, John M. Ward, Helen C. Hailes, Anastasia Bochenkova, Helen H. Fielding
Summary: This study determines the electron detachment energy of the green fluorescent protein chromophore in aqueous solution using UV liquid-microjet photoelectron spectroscopy and quantum chemistry calculations. The research highlights the importance of electronically excited states of the chromophore in photo-induced electron transfer processes in the condensed phase.
NATURE COMMUNICATIONS
(2022)
Article
Chemistry, Physical
Lars H. Andersen, Anne P. Rasmussen, Henrik B. Pedersen, Oleg B. Beletsan, Anastasia V. Bochenkova
Summary: By using time-resolved action spectroscopy of cryogenically cooled molecular ions, we have achieved high vibrational resolution in the photoresponse of the deprotonated GFP chromophore. We have identified four characteristic spectral regions and determined the energy barrier towards internal conversion. The red-shifted origin of the S-0-S-1 band suggests similar photophysics between the protein and its chromophore.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2023)
Article
Chemistry, Medicinal
Lin Kang, Hongyou Zhao, Shiyang Liu, Yupeng Liu, Yidi Liu, Defu Chen, Haixia Qiu, Jian Yang, Ying Gu, Yuxia Zhao
Summary: A water-dependent reversible photoacidity (W-RPA) mechanism has been discovered, in which the proton is dissociated from water locked by a thiadiazoloquinoxaline compound (TQs-Th-PEG5) under laser irradiation. This mechanism has been applied for cancer treatment and shows promising antitumor effects.
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Chemistry, Physical
Cheng Chen, Hao Zhang, Jing Zhang, Hui-wang Ai, Chong Fang
Summary: The incorporation of ncAAs into fluorescent proteins has the potential to red-shift their fluorescence and improve tissue imaging. However, ncAA-based RFPs are rare. The recent advance of 3-aminotyrosine modified sfGFP has provided insights into the molecular mechanism of red-shifted fluorescence, but its dim fluorescence limits its applications.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2023)
Article
Chemistry, Multidisciplinary
Xiaoqin Wei, Yiming Zhu, Xiang Yu, Lei Cai, Nanan Ruan, Luling Wu, Nengqin Jia, Tony D. James, Chusen Huang
Summary: The presence of ER stress is a significant factor in various biological processes associated with numerous diseases. By creating a new ER-targeting fluorescent probe, researchers have been able to measure changes in intracellular ER viscosity caused by ER stress. Their findings indicate an increase in ER viscosity during autophagy.
CHEMICAL COMMUNICATIONS
(2022)
Article
Chemistry, Multidisciplinary
Tingting Sun, Tianpeng Li, Ke Yi, Guoquan Yan, Xiaolian Gao
Summary: Fluorescent proteins can be used as intrinsic molecular tags to track dynamic activity in live cells, but obtaining variants in a large scale is challenging. This study utilized a computer-based microarray synthesis method to achieve reassembly between chromophore and skeleton, generating active protein variants.
Article
Chemistry, Multidisciplinary
Weicheng Peng, Caden C. Maydew, Hiu Kam, Jacob K. Lynd, Jasmine N. Tutol, Shelby M. Phelps, Sameera Abeyrathna, Gabriele Meloni, Sheel C. Dodani
Summary: Chloride is crucial for all forms of life and recent research has demonstrated the potential of chloride-sensitive fluorescent proteins for cellular applications. This study presents a bioinformatics strategy to efficiently identify and design new chloride-sensitive fluorescent proteins, using GFPxm163 as an example.
Article
Chemistry, Physical
Kithmini Wijesiri, Jose A. Gascon
Summary: Heliorhodopsins (HeR) are a new category of seven-helical transmembrane photoactive proteins with a covalently linked all-trans retinal. The interaction between the protonated Schiff base (PSB) nitrogen in the retinal and a negatively charged counterion can significantly affect the spectral properties of the protein. A water cluster pocket was found to produce a microsolvation effect on the Schiff base, compensating for the replacement of the native counterion to some extent according to molecular dynamics analysis.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Article
Biophysics
Gaoshang Li, Yongnan Hu, Sizhu Pei, Jiajia Meng, Jiayu Wang, Ju Wang, Shuai Yue, Zhuan Wang, Shufeng Wang, Xinfeng Liu, Yuxiang Weng, Xubiao Peng, Qing Zhao
Summary: By recording ultrafast transient absorption spectra of three mutants of a rhodopsin mimic based on cellular retinoic acid-binding protein II in an acidic environment, this study investigates the excited-state dynamics of the all-trans protonated RSB. The experimental results suggest that aromatic residues near the b-ionone ring structure may help stabilize the AT-PRSB and slow down its isomerization rate, providing implications for designing rhodopsin-like proteins with significant infrared fluorescence.
BIOPHYSICAL JOURNAL
(2022)
Article
Chemistry, Multidisciplinary
Ivan N. Myasnyanko, Alexey S. Gavrikov, Snizhana O. Zaitseva, Alexander Yu. Smirnov, Elvira R. Zaitseva, Anatolii I. Sokolov, Kseniya K. Malyshevskaya, Nadezhda S. Baleeva, Alexander S. Mishin, Mikhail S. Baranov
Summary: By using benzylidene imidazolone core, a range of color-shifted fluorogenic ligands for FAST protein were developed without compromising binding efficiency or utility for live-cell protein labeling. This study emphasizes the potential of benzylidene imidazolone derivatives for rapidly expanding live-cell fluorogenic labeling tools.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Polymer Science
Peng Zhang, Jianmin Gao, Fu Liu, Yao Chen, Yao Peng
Summary: This study used conventional thermal treatment to regulate the color of Eucalyptus wood, making it similar to Burma padauk, a precious wood species. The color change was analyzed using chromaticity index and UV-Vis, while the chromophore structures and discoloration mechanisms were characterized using FTIR, XPS, NMR, etc. The results showed that the color of eucalyptus could be regulated to resemble Burma padauk through thermal treatment, with changes in chromophore structures and degradation of hemicelluloses playing a significant role.
Article
Chemistry, Analytical
Lihua Liu, Wenhan Jin, Yanan Huang, Jianan Dai, Xuwei Zheng, Yu Liu, Minzi Ju, Baoxing Shen
Summary: In this study, we reported a fluorescent protein chromophore derivative with aggregation-induced emission (AIE) property for detecting insoluble protein aggregates in live cells. By investigating the mechanism of these AIEgens, we developed a series of probes for visualizing protein aggregation and studying biological processes associated with local viscosity changes.
SENSORS AND ACTUATORS B-CHEMICAL
(2022)
Article
Chemistry, Physical
Anne P. Rasmusssen, Henrik B. Pedersen, Lars H. Andersen
Summary: This study utilizes time-resolved action spectroscopy and fs-pump probe scheme in an electrostatic ion-storage ring to investigate the lifetimes of specific vibrational levels in electronically excited states. The results show a significant decrease in lifetime when exciting higher vibrational levels, attributed to the opening of internal conversion over an excited-state energy barrier. These findings provide a new method to uncover small energy barriers in excited-state dynamics.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2023)
Article
Chemistry, Multidisciplinary
Elizabeth R. Webster, Katherine N. Liu, Robert J. Rawle, Steven G. Boxer
Summary: This study investigates the impact of receptor length and rigidity on the mechanism of influenza virus entry. The results suggest that shorter and more flexible receptors increase the binding rate of the virus, while longer and more rigid receptors decrease the efficiency of lipid and content mixing.
Article
Chemistry, Multidisciplinary
Chi-Yun Lin, Matthew G. Romei, Irimpan I. Mathews, Steven G. Boxer
Summary: The past decades have seen a surge in the design of de novo proteins, but it remains challenging to design catalytic functions that can compete with naturally occurring counterparts. Directed evolution often provides efficient solutions, but the fitness landscape is not well understood. Green fluorescent protein (GFP) has been extensively redesigned and, despite not being an enzyme in the conventional sense, it exhibits catalytic behavior similar to conventional ground-state catalysts. In this study, the authors show that designed mutants and hybrids of GFP can provide a quantitative model for predicting the influence of sterics and electrostatics on its catalytic behavior. This research offers important insights into the design of protein function and catalysts.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Jared Bryce Weaver, Jacek Kozuch, Jacob M. Kirsh, Steven G. Boxer
Summary: This study reports a new vibrational Stark effect that can be used to measure electric fields and reveal the electric field characteristics of nitriles through their frequency and integrated intensity.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Chu Zheng, Yuezhi Mao, Jacek Kozuch, Austin Atsango, Zhe Ji, Thomas E. Markland, Steven G. Boxer
Summary: The electric field orientation can be extracted using a two-directional vibrational probe by exploiting the vibrational Stark effect. Solvents act similarly in stabilizing large bond dipoles at the expense of small ones, regardless of their polarities.
Article
Chemistry, Analytical
Dashiel S. Grusky, Frank R. Moss, Steven G. Boxer
Summary: This study investigates the lateral heterogeneity of biological membranes using atomic recombination in dynamic nanoscale secondary ion imaging mass spectrometry (NanoSIMS). The findings support the presence of cholesterol condensation effect on lipid-lipid interactions and the existence of nanoscale GM1 clusters in model membranes.
ANALYTICAL CHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Joseph A. Mattocks, Jonathan J. Jung, Chi-Yun Lin, Ziye Dong, Neela H. Yennawar, Emily R. Featherston, Christina S. Kang-Yun, Timothy A. Hamilton, Dan M. Park, Amie K. Boal, Joseph A. Cotruvo
Summary: This study investigates the separation of rare-earth elements by utilizing the lanmodulin protein from Hansschlegelia quercus. Through structural changes, the binding affinity between lanthanum(III)-induced dimer and dysprosium(III)-induced dimer can differ by over 100-fold. Furthermore, the mutagenesis of a key residue at the dimer interface enables the column-based separation of a neodymium(III)/dysprosium(III) mixture with purities over 98%.
Biographical-Item
Chemistry, Physical
Steven G. Boxer
JOURNAL OF PHYSICAL CHEMISTRY B
(2023)
Article
Chemistry, Multidisciplinary
Alisia Fadini, Christopher D. M. Hutchison, Dmitry Morozov, Jeffrey Chang, Karim Maghlaoui, Samuel Perrett, Fangjia Luo, Jeslyn C. X. Kho, Matthew G. Romei, R. Marc L. Morgan, Christian M. Orr, Violeta Cordon-Preciado, Takaaki Fujiwara, Nipawan Nuemket, Takehiko Tosha, Rie Tanaka, Shigeki Owada, Kensuke Tono, So Iwata, Steven G. Boxer, Gerrit Groenhof, Eriko Nango, Jasper J. van Thor
Summary: This study successfully visualizes the hula twist mechanism in a fluorescent protein and provides the first experimental evidence of the mechanism on a femtosecond-to-picosecond timescale. It also shows how chromophore isomerization and twisting lead to rearrangement of the protein's secondary structure.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Meeting Abstract
Biophysics
Jacob M. Kirsh, Jacek Kozuch, Jared B. Weaver, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Ahanjit Bhattacharya, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Steven D. E. Fried, Jacob M. Kirsh, Chu Zheng, Yuezhi Mao, Thomas E. Markland, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Dashiel S. Grusky, Ahanjit Bhattacharya, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Khoi Tran, Kaitlyn Faries, Nikki Magdaong, Chris Kirmaier, Dewey Holten, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Chu Zheng, Zhe Ji, Irimpan I. Mathews, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2023)
Meeting Abstract
Biophysics
Chu Zheng, Yuezhi Mao, Jacek A. Kozuch, Austin O. Atsango, Zhe Ji, Thomas E. Markland, Steven G. Boxer
BIOPHYSICAL JOURNAL
(2022)