Hydroxyl group/fluorine disorder in deuterated magnesium hydroxyfluoride and behaviors of hydrogen bonds under high pressure

He, X.*; Kagi, Hiroyuki*; Komatsu, Kazuki*; Iizuka, Riko*; Okajima, Hajime*; Hattori, Takanori; Sano, Asami; Machida, Shinichi*; Abe, Jun*; Goto, Hirotada*; et al.

Journal of Molecular Structure, 1310, p.138271_1 - 138271_8, 2024/08

https://doi.org/10.1016/j.molstruc.2024.138271

High-pressure responses of the O-DF hydrogen bonds in deuterated magnesium hydroxyfluoride were investigated using neutron powder diffraction and Raman spectroscopy. The Rietveld analysis at ambient conditions revealed a chemical formula of Mg(OD)F and hydroxyl group/fluorine disorder (OD/F disorder) in the crystal structure, which gave rise to two hydrogen-bonding configurations. The Rietveld analysis showed the hydrogen-bonding geometries remains up to 9.8 GPa, indicating no pressure-induced strengthening of hydrogen bonds. The Raman spectra at ambient conditions showed three hydroxyl stretching bands at 2613, 2694, and 2718 cm. The high frequencies of the O-D stretching modes indicated that the hydroxyls should be involved in weak or none hydrogen-bonding interactions. Up to 20.2 GPa, the mode initially centered at 2694 cm displayed a pressure-induced blue shift, revealing no strengthening of hydrogen bonds under compression. We discuss the existence of hydrogen bonds and the causes of the blue-shifting hydroxyls at ambient and at high pressures.

Single-crystal structure analysis of non-deuterated triglycine sulfate by neutron diffraction at 20 and 298 K; A New disorder model for the 298 K structure

Terasawa, Yukana*; Ohara, Takashi; Sato, Sota*; Yoshida, Satoshi*; Asahi, Toru*

Acta Crystallographica Section E; Crystallographic Communications (Internet), 78(3), p.306 - 312, 2022/03

https://doi.org/10.1107/S2056989022000858

Observation of dihydrogen bonds in high-pressure phases of ammonia borane by X-ray and neutron diffraction measurements

Nakano, Satoshi*; Sano, Asami; Hattori, Takanori; Machida, Shinichi*; Komatsu, Kazuki*; Fujihisa, Hiroshi*; Yamawaki, Hiroshi*; Goto, Yoshito*; Kikegawa, Takumi*

Inorganic Chemistry, 60(5), p.3065 - 3073, 2021/03

https://doi.org/10.1021/acs.inorgchem.0c03345

X-ray and neutron diffraction analyses of ammonia borane were conducted at ambient and high pressures. The H-H distance in dihydrogen bonds was shorter than twice the van der Waals radius (2.4 ). The half of the dihydrogen bonds were broken on phase transition from AP to the first high pressure phase (HP1) at approximately 1.2 GPa as revealed by an increase in the H-H distances. On further pressure increase, all of the H-H distances became shorter than 2.4 again, implying the pressure-induced reformation of the dihydrogen bonds. Furthermore, the HP1 transformed to the second one with the structure of (Z = 2) at about 11 GPa. In this phase transition, the inclination of the molecule axis became larger and the number of types of dihydrogen bonds increased from 6 to 11. Just before the third transition at 18.9 GPa, the shortest dihydrogen bond decreased to 1.65 . The present study experimentally first confirmed the breakage and reformation of the dihydrogen bonds by the structural change under pressure.

Ab initio path integral molecular dynamics simulation study on the dihydrogen bond of NH BeH

Hayashi, Aiko*; Shiga, Motoyuki; Tachikawa, Masanori*

Chemical Physics Letters, 410(1-3), p.54 - 58, 2005/07

https://doi.org/10.1016/j.cplett.2005.05.035

Hydrogen bond is conventionally a bonding between hydrogen and an atom with high electronegativity such as fluorine, oxygen or nitrogen. A dihydrogen bond is an exceptional case, which is an attractive force between positively and negatively charged hydrogen atoms. In this report, some characters of the dihydrogen bond is studied in detail for the molecular cluster BeHNH using ab initio molecular dynamics simulation.

High resolution neutron protein crystallography, hydrogen and hydration in proteins

Niimura, Nobuo; Chatake, Toshiyuki; Ostermann, A.; Kurihara, Kazuo; Tanaka, Ichiro

Zeitschrift fr Kristallographie, 218(2), p.96 - 107, 2003/03

no abstracts in English

Study of vibrational spectra of interlayer water in Na-Smectite by means of molecular dynamics simulations

Suzuki, Satoru; Kawamura, Katsuyuki*

JNC TN8400 2001-005, 41 Pages, 2001/04

JNC-TN8400-2001-005.pdf:1.1MB

A correlation between molecular structure and a vibrational spectrum of interlayer water in Na-smectite was investigated by means of Molecular Dymamics (MDs) simulations. Detailed comparison of simulation results with IR spectroscopic observations for the water-smectite system indicated good agreement. Internal vibrational spectra of water were obtained by the Fourier transformation of velocty auto-correlation function of hydrogen atom. A stretching vibrational spectrum of interlayer water consisted of a broad band with a peak top around 3400cm and a sharp peak around 3650 to 3700cm. The fomer broad band was assigned to O-H vibrations between water molecules as bulk water, while the latter band was attributed to O-H ones oriented to siloxane surface through hydrogen bonding. The hydrogen bond distance, determined as the shortest O-O distance by the radial distribution function (RDF), revealed that hydrogen bond distance between water and siloxane surface (O-O 3.0 -O = ca. 2.8 AA ). These results suggested that interaction between water molecule and siloxane surface weaker than that between water molecules, although they were forced to be oriented.

Effect of hydrogen bonding on laser-induced transfer of 1-pyrenebutyric acid in solid polymers

Saito, Kenichi*; Ichinose, Yuji; Kawanishi, Shunichi; Fukumura, H.*

Chemical Physics Letters, 291(3-4), p.433 - 437, 1998/00

https://doi.org/10.1016/S0009-2614(98)00579-X

no abstracts in English

Distinct dissociation kinetics among ion pairs; Solvent-coordinate free-energy landscape analysis

Yonetani, Yoshiteru

no journal, ,