Spatio-temporal correlations in aqueous systems: computational studies of static and dynamic heterogeneity by 2D-IR spectroscopy

2015 ◽  
Vol 177 ◽  
pp. 313-328 ◽  
Author(s):  
Rikhia Ghosh ◽  
Tuhin Samanta ◽  
Saikat Banaerjee ◽  
Rajib Biswas ◽  
Biman Bagchi

Local heterogeneity is ubiquitous in natural aqueous systems. It can be caused locally by external biomolecular subsystems like proteins, DNA, micelles and reverse micelles, nanoscopic materials etc., but can also be intrinsic to the thermodynamic nature of the aqueous solution itself (like binary mixtures or at the gas–liquid interface). The altered dynamics of water in the presence of such diverse surfaces has attracted considerable attention in recent years. As these interfaces are quite narrow, only a few molecular layers thick, they are hard to study by conventional methods. The recent development of two dimensional infra-red (2D-IR) spectroscopy allows us to estimate length and time scales of such dynamics fairly accurately. In this work, we present a series of interesting studies employing two dimensional infra-red spectroscopy (2D-IR) to investigate (i) the heterogeneous dynamics of water inside reverse micelles of varying sizes, (ii) supercritical water near the Widom line that is known to exhibit pronounced density fluctuations and also study (iii) the collective and local polarization fluctuation of water molecules in the presence of several different proteins. The spatio-temporal correlation of confined water molecules inside reverse micelles of varying sizes is well captured through the spectral diffusion of corresponding 2D-IR spectra. In the case of supercritical water also, we observe a strong signature of dynamic heterogeneity from the elongated nature of the 2D-IR spectra. In this case the relaxation is ultrafast. We find remarkable agreement between the different tools employed to study the relaxation of density heterogeneity. For aqueous protein solutions, we find that the calculated dielectric constant of the respective systems unanimously shows a noticeable increment compared to that of neat water. However, the ‘effective’ dielectric constant for successive layers shows significant variation, with the layer adjacent to the protein having a much lower value. Relaxation is also slowest at the surface. We find that the dielectric constant achieves the bulk value at distances more than 3 nm from the surface of the protein.

2020 ◽  
Vol 22 (34) ◽  
pp. 19223-19229
Author(s):  
Jun Young Park ◽  
Hyeok-Jun Kwon ◽  
Saptarsi Mondal ◽  
Hogyu Han ◽  
Kyungwon Kwak ◽  
...  

The 2D-IR spectrum of Ala-N3 shows cross-peak, but cannot be identified clearly. The 1D slice spectra obtained from 2D-IR spectrum reveals the presence of hidden Fermi resonance peak.


1995 ◽  
Vol 49 (9) ◽  
pp. 1243-1253 ◽  
Author(s):  
Sanong Ekgasit ◽  
Hatsuo Ishida

A quantitative two-dimensional correlation analysis for various spectroscopic techniques is introduced. Normalization of the spectral intensities enables two-dimensional infrared (2D IR) spectroscopy to be used for quantitative purposes. As a result of the normalization, the correlation strengths are characterized by the dynamic parameters of the correlated spectral intensities. Relationships between the chemical species associated with peak positions in 2D IR spectra are characterized by both the magnitude and the sign of the correlation strength. The magnitude describes the degree of harmonization, while the sign shows the relationship between the dynamic behaviors of the correlated spectral intensities. The phase spectrum, which indicates the quantitative relationship among the dynamic behavior of the spectral intensities, is also introduced.


2019 ◽  
Vol 205 ◽  
pp. 10003
Author(s):  
Benjamin P. Fingerhut ◽  
Eva M. Bruening ◽  
Jakob Schauss ◽  
Torsten Siebert ◽  
Thomas Elsaesser

Combined experimental-theoretical investigation of ultrafast hydration dynamics of an A-form RNA double helix in water reveals an ordered arrangement of water molecules and provides boundary conditions for the ion atmosphere around the polyanionic RNA.


Nanoscale ◽  
2021 ◽  
Author(s):  
Hossein Jalali ◽  
Farhad Khoeini ◽  
Francois M. Peeters ◽  
Mehdi Neek-Amal

A model for the electric double layer capacitor is constructed where water molecules are strongly confined in two-dimensional slits of MXene.


2017 ◽  
Vol 19 (20) ◽  
pp. 12868-12875 ◽  
Author(s):  
Vivek K. Yadav ◽  
Michael L. Klein

Two-dimensional infrared (2D IR) spectroscopy of amide 1 vibrational bands provides a valuable probe of proteins as well as molecules such as N-methylacetamide (NMA), which present peptide-like H-bonding possibilities to a solvent.


Holzforschung ◽  
2016 ◽  
Vol 70 (6) ◽  
pp. 503-510 ◽  
Author(s):  
Shen-Nan Wang ◽  
Fang-Da Zhang ◽  
An-Min Huang ◽  
Qun Zhou

Abstract Four common species of Dalbergia genus (D. bariensis, D. oliveri, D. cochinchinensis, and D. retusa), which are traded as “Rosewood” or “Hongmu” commonly throughout East and Southeast Asia, were extracted with ethanol-benzene and the extractives were analyzed by means of three IR spectroscopic methods aiming at their chemotaxonomic differentiation. Conventional FTIR and 2nd derivative IR (SD-IR) showed defined spectral ranges, where the differences are pronounced. Two-dimensional correlation infrared (2D-IR) spectroscopy revealed significant auto-peaks suitable for reliable differentiation of the four Dalbergia species. The gas chromatography-mass spectrometry (GC-MS) evaluation of the extractives was also useful. It can be concluded that the analysis of the extractives is the best chemotaxonomic approach for identification of anatomically similar wood species.


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