Dataset Information

Synthesis and Characterization of Partially and Fully Saturated Menaquinone Derivatives.

ABSTRACT: Menaquinones (MKs) contain both a redox active quinone moiety and a hydrophobic repeating isoprenyl side chain of varying lengths and degrees of saturation. This characteristic structure allows MKs to play a key role in the respiratory electron transport system of some prokaryotes by shuttling electrons and protons between membrane-bound protein complexes, which act as electron acceptors and donors. Hydrophobic MK molecules with partially and fully saturated isoprenyl side chains are found in a wide range of eubacteria and archaea, and the structural variations of the MK analogues are evolutionarily conserved but poorly understood. For example, Mycobacterium tuberculosis, the causative agent of tuberculosis, uses predominantly MK-9(II-H₂) (saturated at the second isoprene unit) as its electron carrier and depends on the synthesis of MK-9(II-H₂) for survival in host macrophages. Thus, MKs with partially saturated isoprenyl side chains may represent a novel virulence factor. Naturally occurring longer MKs are very hydrophobic, whereas MK analogues that have a truncated (i.e., one to three isoprenes) isoprenyl side chain are less hydrophobic. This improves their solubility in aqueous solutions, allowing rigorous study of their structure and biological activity. We present the synthesis and characterization of two partially saturated MK analogues, MK-2(II-H₂) and MK-3(II-H₂), and two novel fully saturated MK derivatives, MK-2(I,II-H₄) and MK-3(I,II,III-H₆).

SUBMITTER: Koehn JT

PROVIDER: S-EPMC6643618 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Synthesis and Characterization of Partially and Fully Saturated Menaquinone Derivatives.

Koehn Jordan T JT Crick Dean C DC Crans Debbie C DC

ACS omega 20181105 11

Menaquinones (MKs) contain both a redox active quinone moiety and a hydrophobic repeating isoprenyl side chain of varying lengths and degrees of saturation. This characteristic structure allows MKs to play a key role in the respiratory electron transport system of some prokaryotes by shuttling electrons and protons between membrane-bound protein complexes, which act as electron acceptors and donors. Hydrophobic MK molecules with partially and fully saturated isoprenyl side chains are found in a ...[more]

PMID: 31458155

Similar Datasets

Project description:Clays and clay rocks are considered good natural and engineered barriers for deep geological disposal of nuclear waste worldwide. Metal corrosion and organic waste degradation in underground repositories generate significant amounts of gas that should be able to migrate through the multibarrier system to avoid potential pressure buildup, which could be compromising the integrity of the barriers and host rocks. The gas is expected to accumulate in larger pores and eventually form an interconnected network. Under such conditions, the migration of gas molecules takes place both in pore water films and gas-filled macropores. Therefore, mass fluxes depend on the distribution of gas molecules between the water-rich and gas-rich phases and their mobility in both compartments. Classical molecular dynamics (MD) simulations were employed to investigate the mobilities of He, H2, CO2, Ar, and CH4 in a Na-montmorillonite mesopore as a function of the degree of saturation, as well as evaluate the hydrodynamic behavior of the pore fluid in partially saturated clays. The diffusivity of the gas molecules was determined by observing the asymptotic behavior of the mean square displacement in the gas-rich phase and at the gas-water interface. The partition coefficient and Gibbs free energy were analyzed to investigate the transfer of gas molecules between the gas-rich and water-rich phases by observing the molecular trajectories as they cross the vapor-liquid interface. The results revealed that the diffusion coefficient in the gas phase increased with increasing gas-filled pore width and converged asymptotically toward the diffusion coefficient in the bulk state. It could be shown that the diffusion coefficient of gas molecules dissolved in the water films remained constant as long as the interacting water surface was in the bulk-liquid-like phase. This behavior changes in very thin water films. It was observed that the partitioning coefficient of gas molecules at the solid-liquid interface is nearly the same as that in the bulk-liquid-like phase. Partitioning is observed to be strongly dependent on the temperature and gas molecular weights. In the second part of the study, nonequilibrium molecular dynamics (NEMD) simulations were performed to investigate the mobility of gases in pressure-driven decoupled gas-phase dynamics (DGPD) and coupled gas and water phase dynamics (CGWPD) in a partially saturated Na-montmorillonite slit mesopore. The dynamic viscosity of the gas phase was calculated from NEMD simulations and indicated that the viscosity of the gas phase was almost the same in both methods (DGPD and CGWPD). The average slip length for gas molecules at the gas-water interface was also calculated, revealing that the slip-free boundary condition assumed in continuum models is generally invalid for microfluidics and that a slip boundary condition exists at the microscale for specific surface interactions. Finally, a Bosanquet-type equation was developed to predict the diffusion coefficient and dynamic viscosity of gas as a function of the average pore width, gas mean-free path, geometric factor, and thickness of the adsorbed water film.

Dataset Information

Synthesis and Characterization of Partially and Fully Saturated Menaquinone Derivatives.

Publications

Synthesis and Characterization of Partially and Fully Saturated Menaquinone Derivatives.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets