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result(s) for
"hydrophobic bonding"
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Microplastic properties and their interaction with hydrophobic organic contaminants: a review
by
Kumar, Asirvatham Ramesh
,
Prajapati, Archana
,
Narayan Vaidya, Atul
in
Aquatic environment
,
Aquatic Pollution
,
Atmospheric Protection/Air Quality Control/Air Pollution
2022
Microplastics (MPs) have been defined as particles of size < 5 mm and are characterized by hydrophobicity and large surface areas. MPs interact with co-occurring hydrophobic organic contaminants (HOCs) via sorption–desorption processes in aquatic and terrestrial environments. Ingestion of MPs by living organisms may increase exposure to HOC levels. The key mechanisms for the sorption of HOCs onto MPs are hydrophobic interaction, electrostatic interaction, π–π interactions, hydrogen bonding, and Van der Waals forces (vdW). Polymer type, UV-light-induced surface modifications, and the formation of oxygen-containing functional groups have a greater influence on electrostatic and hydrogen bonding interactions. In contrast, the formation of oxygen-containing functional groups negatively influences hydrophobic interaction. MP characteristics such as crystallinity, weathering, and surface morphology affect sorption capacity. Matrix properties such as pH, ionic strength, and dissolved organic matter (DOM) also influence sorption capacity by exerting synergistic/antagonistic effects. We reviewed the mechanisms of HOC sorption onto MPs and the polymer and matrix properties that influence the HOC sorption. Knowledge gaps and future research directions are outlined.
Graphical abstract
Journal Article
Adaptive hydrophobic and hydrophilic interactions of mussel foot proteins with organic thin films
2013
The adhesion of mussel foot proteins (Mfps) to a variety of specially engineered mineral and metal oxide surfaces has previously been investigated extensively, but the relevance of these studies to adhesion in biological environments remains unknown. Most solid surfaces exposed to seawater or physiological fluids become fouled by organic conditioning films and biofilms within minutes. Understanding the binding mechanisms of Mfps to organic films with known chemical and physical properties therefore is of considerable theoretical and practical interest. Using self-assembled monolayers (SAMs) on atomically smooth gold substrates and the surface forces apparatus, we explored the force–distance profiles and adhesion energies of three different Mfps, Mfp-1, Mfp-3, and Mfp-5, on (i) hydrophobic methyl (CH ₃)- and (ii) hydrophilic alcohol (OH)-terminated SAM surfaces between pH 3 and pH 7.5. At acidic pH, all three Mfps adhered strongly to the CH ₃-terminated SAM surfaces via hydrophobic interactions (range of adhesive interaction energy = −4 to −9 mJ/m ²) but only weakly to the OH-terminated SAM surfaces through H- bonding (adhesive interaction energy ≤ −0.5 mJ/m ²). 3, 4-Dihydroxyphenylalanine (Dopa) residues in Mfps mediate binding to both SAM surface types but do so through different interactions: typical bidentate H-bonding by Dopa is frustrated by the longer spacing of OH-SAMs; in contrast, on CH ₃-SAMs, Dopa in synergy with other nonpolar residues partitions to the hydrophobic surface. Asymmetry in the distribution of hydrophobic residues in intrinsically unstructured proteins, the distortion of bond geometry between H-bonding surfaces, and the manipulation of physisorbed binding lifetimes represent important concepts for the design of adhesive and nonfouling surfaces.
Journal Article
Thermostability engineering of industrial enzymes through structure modification
by
Rahman, Raja Noor Zaliha Raja Abd
,
Nezhad, Nima Ghahremani
,
Normi, Yahaya M.
in
Analysis
,
Biomedical and Life Sciences
,
Biotechnology
2022
Thermostability is an essential requirement of enzymes in the industrial processes to catalyze the reactions at high temperatures; thus, enzyme engineering through directed evolution, semi-rational design and rational design are commonly employed to construct desired thermostable mutants. Several strategies are implemented to fulfill enzymes’ thermostability demand including decreasing the entropy of the unfolded state through substitutions Gly → Xxx or Xxx → Pro, hydrogen bond, salt bridge, introducing two different simultaneous interactions through single mutant, hydrophobic interaction, filling the hydrophobic cavity core, decreasing surface hydrophobicity, truncating loop, aromatic-aromatic interaction and introducing positively charged residues to enzyme surface. In the current review, horizons about compatibility between secondary structures and substitutions at preferable structural positions to generate the most desirable thermostability in industrial enzymes are broadened.
Key points
• Protein engineering is a powerful tool for generating thermostable industrial enzymes.
• Directed evolution and rational design are practical approaches in enzyme engineering.
• Substitutions in preferable structural positions can increase thermostability.
Graphical abstract
Journal Article
Rationalizing cellulose (in)solubility: reviewing basic physicochemical aspects and role of hydrophobic interactions
by
Medronho, Bruno
,
Miguel, Maria Graça
,
Romano, Anabela
in
Bioorganic Chemistry
,
Bonding strength
,
Cellulose
2012
Despite being the world’s most abundant natural polymer and one of the most studied, cellulose is still challenging researchers. Cellulose is known to be insoluble in water and in many organic solvents, but can be dissolved in a number of solvents of intermediate properties, like
N
-methylmorpholine
N
-oxide and ionic liquids which, apparently, are not related. It can also be dissolved in water at extreme pHs, in particular if a cosolute of intermediate polarity is added. The insolubility in water is often referred to strong intermolecular hydrogen bonding between cellulose molecules. Revisiting some fundamental polymer physicochemical aspects (i.e. intermolecular interactions) a different picture is now revealed: cellulose is significantly amphiphilic and hydrophobic interactions are important to understand its solubility pattern. In this paper we try to provide a basis for developing novel solvents for cellulose based on a critical analysis of the intermolecular interactions involved and mechanisms of dissolution.
Journal Article
Angiotensin-I-Converting Enzyme (ACE)-Inhibitory Peptides from the Collagens of Monkfish (Lophius litulon) Swim Bladders: Isolation, Characterization, Molecular Docking Analysis and Activity Evaluation
2023
The objective of this study was to isolate and characterize collagen and angiotensin-I-converting enzyme (ACE)-inhibitory (ACEi) peptides from the swim bladders of monkfish (Lophius litulon). Therefore, acid-soluble collagen (ASC-M) and pepsin-soluble collagen (PSC-M) with yields of 4.27 ± 0.22% and 9.54 ± 0.51%, respectively, were extracted from monkfish swim bladders using acid and enzyme methods. The ASC-M and PSC-M contained Gly (325.2 and 314.9 residues/1000 residues, respectively) as the major amino acid, but they had low imino acid content (192.5 and 188.6 residues/1000 residues, respectively) in comparison with collagen from calf skins (CSC) (216.6 residues/1000 residues). The sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) patterns and ultraviolet (UV) absorption spectrums of ASC-M and PSC-M illustrated that they were mainly composed of type I collagen. Subsequently, three ACEi peptides were isolated from a PSC-M hydrolysate prepared via a double-enzyme system (alcalase + neutrase) and identified as SEGPK (MHP6), FDGPY (MHP7) and SPGPW (MHP9), with molecular weights of 516.5, 597.6 and 542.6 Da, respectively. SEGPK, FDGPY and SPGPW displayed remarkable anti-ACE activity, with IC50 values of 0.63, 0.94 and 0.71 mg/mL, respectively. Additionally, a molecular docking assay demonstrated that the affinities of SEGPK, FDGPY and SPGPW with ACE were −7.3, −10.9 and −9.4 kcal/mol, respectively. The remarkable ACEi activity of SEGPK, FDGPY and SPGPW was due to their connection with the active pockets and/or sites of ACE via hydrogen bonding, hydrophobic interaction and electrostatic force. Moreover, SEGPK, FDGPY and SPGPW could protect HUVECs by controlling levels of nitric oxide (NO) and endothelin-1 (ET-1). Therefore, this work provides an effective means for the preparation of collagens and novel ACEi peptides from monkfish swim bladders, and the prepared ACEi peptides, including SEGPK, FDGPY and SPGPW, could serve as natural functional components in the development of health care products to control hypertension.
Journal Article
Dissolution of cellulose in aqueous NaOH/urea solution: role of urea
2014
Urea can improve the solubility and stability of cellulose in aqueous alkali solution, while its role has not come to a conclusion. To reveal the role of urea in solution, NMR was introduced to investigate the interaction between urea and the other components in solution. Results from chemical shifts and longitudinal relaxation times show that: (1) urea has no strong direct interaction with cellulose as well as NaOH; (2) urea does not have much influence on the structural dynamics of water. Urea may play its role through van der Waals force. It may accumulate on the cellulose hydrophobic region to prevent dissolved cellulose molecules from re-gathering. The driving force for the self-assembly of cellulose and urea molecules might be hydrophobic interaction. In the process of cellulose dissolution, OH⁻ breaks the hydrogen bonds, Na⁺ hydrations stabilize the hydrophilic hydroxyl groups and urea stabilizes the hydrophobic part of cellulose.
Journal Article
Anchored clathrate waters bind antifreeze proteins to ice
by
Davies, Peter L
,
Garnham, Christopher P
,
Campbell, Robert L
in
08 HYDROGEN
,
ADSORPTION
,
Antarctic region
2011
The mechanism by which antifreeze proteins (AFPs) irreversibly bind to ice has not yet been resolved. The ice-binding site of an AFP is relatively hydrophobic, but also contains many potential hydrogen bond donors/acceptors. The extent to which hydrogen bonding and the hydrophobic effect contribute to ice binding has been debated for over 30 years. Here we have elucidated the ice-binding mechanism through solving the first crystal structure of an Antarctic bacterial AFP. This 34-kDa domain, the largest AFP structure determined to date, folds as a Ca²âº-bound parallel beta-helix with an extensive array of ice-like surface waters that are anchored via hydrogen bonds directly to the polypeptide backbone and adjacent side chains. These bound waters make an excellent three-dimensional match to both the primary prism and basal planes of ice and in effect provide an extensive X-ray crystallographic picture of the AFP:ice interaction. This unobstructed view, free from crystal-packing artefacts, shows the contributions of both the hydrophobic effect and hydrogen bonding during AFP adsorption to ice. We term this mode of binding the \"anchored clathrate\" mechanism of AFP action.
Journal Article
Twenty-five years of cellulose chemistry: innovations in the dissolution of the biopolymer and its transformation into esters and ethers
2019
The anniversary of the journal “Cellulose” is an opportunity to review innovations that were introduced during the past 25 years. Of these, from our perspective, the development of solvents that dissolve cellulose physically, i.e., without formation of covalent bonds is most relevant. The reasons are that cellulose can be regenerated from these media in different shapes and transformed into many important derivatives. Twenty-five years is a long time-span! As the volume of information on the applications of the above-mentioned solvents in cellulose chemistry is extensive, we made choices to reach a balance between the amount of material covered and the length of the review. Consequently, we focus on cellulose derivatization under homogeneous reaction conditions to produce selected derivatives. We dwell on the latter because a comprehensive discussion was recently published on derivatization under heterogeneous and homogeneous conditions (Heinze et al. in Cellulose derivatives, Springer, Cham, pp 259–292,
2018a
). The derivatives selected are esters of organic acids, ionic and nonionic ethers because of their tremendous commercial and scientific importance. Cellulose derivatization in homogeneous media is advantageous because of much better control of product properties relative to those obtained under the heterogeneous counterparts. These properties include degree of substitution in the anhydroglucose unit and along the biopolymer back-bone, and regioselectivity. Thus, novel cellulose derivatives were prepared that are not accessible under heterogeneous conditions. The requirement to dissolve cellulose physically is to disrupt hydrogen bonding and hydrophobic interactions. Thus, the solvents employed to dissolve cellulose are usually composed of strong electrolytes whose cations and anions interact preferentially with cellulose. These electrolytes are used pure or as solutions in water or dipolar aprotic solvents. Salient examples include LiCl/
N
,
N
-dimethylacetamide, tetra(
n
-butyl)ammonium fluoride·3H
2
O/dimethyl sulfoxide, ionic liquids, salts of quaternary amines and super-bases. We discuss briefly the essentials of each solvent in terms of its mechanism of cellulose dissolution and show the most relevant results regarding its application for obtaining esters and ethers and back the discussion with relevant references. This information is summarized at the end of the review. We hope that this historical perspective shows the innovations made since the first publication of “Cellulose” and points out to future possibilities—with potential industrial application—of this renewable raw material and its biocompatible and biodegradable derivatives.
Graphical abstract
Journal Article
Discovery of an Organic Trefoil Knot
by
Pantoş, G. Dan
,
Ponnuswamy, Nandhini
,
Cougnon, Fabien B. L.
in
Assembly
,
Biosynthesis
,
Chemists
2012
Molecular knots remain difficult to produce using the current synthetic methods of chemistry because of their topological complexity. We report here the near-quantitative self-assembly of a trefoil knot from a naphthalenediimide-based aqueous disulfide dynamic combinatorial library. The formation of the knot appears to be driven by the hydrophobic effect and leads to a structure in which the aromatic components are buried while the hydrophilic carboxylate groups remain exposed to the solvent. Moreover, the building block chirality constrains the topological conformation of the knot and results in its stereoselective synthesis. This work demonstrates that the hydrophobic effect provides a powerful strategy to direct the synthesis of entwined architectures.
Journal Article
Preparation, Identification, Molecular Docking Study and Protective Function on HUVECs of Novel ACE Inhibitory Peptides from Protein Hydrolysate of Skipjack Tuna Muscle
2022
To prepare bioactive peptides with high angiotensin-I-converting enzyme (ACE)-inhibitory (ACEi) activity, Alcalase was selected from five kinds of protease for hydrolyzing Skipjack tuna (Katsuwonus pelamis) muscle, and its best hydrolysis conditions were optimized using single factor and response surface experiments. Then, the high ACEi protein hydrolysate (TMPH) of skipjack tuna muscle was prepared using Alcalase under the optimum conditions of enzyme dose 2.3%, enzymolysis temperature 56.2 °C, and pH 9.4, and its ACEi activity reached 72.71% at 1.0 mg/mL. Subsequently, six novel ACEi peptides were prepared from TMPH using ultrafiltration and chromatography methods and were identified as Ser-Pro (SP), Val-Asp-Arg-Tyr-Phe (VDRYF), Val-His-Gly-Val-Val (VHGVV), Tyr-Glu (YE), Phe-Glu-Met (FEM), and Phe-Trp-Arg-Val (FWRV), with molecular weights of 202.3, 698.9, 509.7, 310.4, 425.6, and 606.8 Da, respectively. SP and VDRYF displayed noticeable ACEi activity, with IC50 values of 0.06 ± 0.01 and 0.28 ± 0.03 mg/mL, respectively. Molecular docking analysis illustrated that the high ACEi activity of SP and VDRYF was attributed to effective interaction with the active sites/pockets of ACE by hydrogen bonding, electrostatic force, and hydrophobic interaction. Furthermore, SP and VDRYF could significantly up-regulate nitric oxide (NO) production and down-regulate endothelin-1 (ET-1) secretion in HUVECs after 24 h treatment, but also abolish the negative effect of 0.5 μM norepinephrine (NE) on the generation of NO and ET-1. Therefore, ACEi peptides derived from skipjack tuna (K. pelamis) muscle, especially SP and VDRYF, are beneficial components for functional food against hypertension and cardiovascular diseases.
Journal Article