Chain Length Research Articles

Synthesis, Stability, Meisenheimer Complex Formation, and Charge‐Transfer Properties of Ultra‐Electron‐Deficient Tetracyano‐Naphthalene Diimides

AbstractTetra‐cyano substituted naphthalene diimides (TCNDIs) with calculated LUMO of −5.2 eV, form one of the strongest electron‐acceptors known to date. However, the synthesis and isolation of this class of molecules remain challenging due to its reactivity emanating from its ultra‐electron‐deficiency. Herein we have established an improved synthetic methodology of TCNDIs with cost‐effective reagents and circumventing metallic catalysts. The synthesis is amenable to TCNDIs with the shortest axial alkyl groups, i. e., methyl group and also longer alkyl chains. We also gained insight on how axial alkyl chain lengths influence electron‐deficiency, Meisenheimer complex formation, reactivity, and charge‐transfer of TCNDIs from computation, spectroscopy, and electrochemical studies. The TCNDIs with Me/Et axial groups were found to be more susceptible to moist solvents vis‐à‐vis the TCNDIs with longer alkyl groups. The single crystal structures of the TCNDIs show infinitely π‐stacked structure, and a new C=O ⋅ ⋅ ⋅ C≡N or C≡N ⋅ ⋅ ⋅ π motif is discerned. Finally, toluene‐mediated charge‐transfer properties of TCNDIs in the single crystals as well as in solution have been examined.

Understanding the Complexation of Alkyl-Substituted Nitrilotriacetamides with Uranium: A Study by Absorption Spectroscopy and Microcalorimetry.

Complexation thermodynamics of UO22+ ions with a series of alkyl-substituted nitrilotriacetamides (NTA) was investigated by absorption spectroscopy and microcalorimetry. The hexamethyl derivative of NTA (HMNTA) forms the weakest two successive complexes with UO22+ ions with stability constants of log β11 = 3.5 ± 0.1 and log β12 = 6.1 ± 0.1. The formation constant values increased linearly with increasing alkyl chain length of the substituents from hexamethyl NTA to hexabutyl NTA (HBNTA) and to hexahexyl NTA (HHNTA). The complexation with each ligand was both enthalpy and entropy driven with exothermic enthalpy changes of ΔH11 = -14.7 ± 1.0 kJ/mol, ΔH12 = -10.2 ± 0.8 kJ/mol for HMNTA, ΔH11 = -19.2 ± 1.2 kJ/mol, ΔH12 = -16.4 ± 1.1 kJ/mol for HBNTA, and ΔH11 = -21.3 ± 1.4 kJ/mol, ΔH12 = -19.4 ± 2.3 kJ/mol for HHNTA. Similarly, the positive entropy changes with each ligand were ΔS11 = 18.1 ± 2.7 J/mol/K, ΔS12 = 82.9 ± 3.8 J/mol/K for HMNTA, ΔS11 = 14.4 ± 1.2 J/mol/K, ΔS12 = 87.2 ± 4.2 J/mol/K for HBNTA, and ΔS11 = 16.1 ± 2.4 J/mol/K, ΔS12 = 92.6 ± 3.1 J/mol/K for HHNTA. Structural features of the complex suggest the participation of two ligands coordinating in a bidentate mode via the carbonyl oxygens. The [UO2L2]2+ complexes appear to be noncentrosymmetric with two ligands and one water molecule occupying the equatorial plane of the dioxo uranyl cation. The structure of the complex was confirmed by 1H NMR titration, EXAFS measurements, and DFT calculations.

N-Hydroxyalkanamide Based Organo/hydrogels as Novel Scaffolds for pH-Dependent Metronidazole and Theophylline Release.

The traditional delivery of metronidazole and theophylline presents challenges like bitter taste, variable absorption, and side effects. However, gel-based systems offer advantages including enhanced targeted drug delivery, minimized side effects, and improved patient compliance, effectively addressing these challenges. Consequently, a cost-effective synthesis of N-hydroxyalkanamide gelators with varying alkyl chain lengths was achieved in a single-step reaction procedure. These gelators formed self-assembled aggregates in DMSO/water solvent system, resulting in organo/hydrogels at a minimum gelation concentration of 1.5 % w/v. Subsequently, metronidazole and theophylline were encapsulated within the gel core and released through gel-to-sol transition triggered by pH variation at 37 °C, while maintaining the structural-activity relationship. UV-vis spectroscopy was employed to observe the drug release behavior. Furthermore, in vitro cytotoxicity assays revealed cytotoxic effects against A549 lung adenocarcinoma cells, indicating anti-proliferative activity against human lung cancer cells. Specifically, the gel containing theophylline (16HAD+Th) exhibited cytotoxicity on cancerous A549 cells with IC50 values of 19.23±0.6 μg/mL, followed by the gel containing metronidazole (16HAD+Mz) with IC50 values of 23.75±0.7 μg/mL. Moreover, the system demonstrated comparable antibacterial activity against both gram-negative (E. coli) and gram-positive bacteria (S. aureus).

Shortened food chain length in a fished versus unfished coral reef.

Direct exploitation through fishing is driving dramatic declines of wildlife populations in ocean environments, particularly for predatory and large-bodied taxa. Despite wide recognition of this pattern and well-established consequences of such trophic downgrading on ecosystem function, there have been few empirical studies examining the effects of fishing on whole system trophic architecture. Understanding these kinds of structural impacts is especially important in coral reef ecosystems-often heavily fished and facing multiple stressors. Given the often high dietary flexibility and numerous functional redundancies in diverse ecosystems such as coral reefs, it is important to establish whether web architecture is strongly impacted by fishing pressure or whether it might be resilient, at least to moderate-intensity pressure. To examine this question, we used a combination of bulk and compound-specific stable isotope analyses measured across a range of predatory and low-trophic-level consumers between two coral reef ecosystems that differed with respect to fishing pressure but otherwise remained largely similar. We found that even in a high-diversity system with relatively modest fishing pressure, there were strong reductions in the trophic position (TP) of the three highest TP consumers examined in the fished system but no effects on the TP of lower-level consumers. We saw no evidence that this shortening of the affected food webs was being driven by changes in basal resource consumption, for example, through changes in the spatial location of foraging by consumers. Instead, this likely reflected internal changes in food web architecture, suggesting that even in diverse systems and with relatively modest pressure, human harvest causes significant compressions in food chain length. This observed shortening of these food webs may have many important emergent ecological consequences for the functioning of ecosystems impacted by fishing or hunting. Such important structural shifts may be widespread but unnoticed by traditional surveys. This insight may also be useful for applied ecosystem managers grappling with choices about the relative importance of protection for remote and pristine areas and the value of strict no-take areas to protect not just the raw constituents of systems affected by fishing and hunting but also the health and functionality of whole systems.

Efficient Synthesis of Mannopyranoside-based Fatty Acyl Esters: Effects of Acyl Groups on Antimicrobial Potential.

The approval of Sucrose Fatty Acid Esters (SFAEs) as food additives/ preservatives with antimicrobial potential has triggered enormous interest in discovering new biological applications. Accordingly, many researchers reported that SFAEs consist of various sugar moieties, and hydrophobic side chains are highly active against certain fungal species. This study aimed to conduct aregioselective synthesis of SAFE and check the effect of chain length and site of acylation (i.e., C-6 vs. C-2, C-3, C-4, and long-chain vs. short-chain) on antimicrobial potency. A direct acylation method maintaining several conditions was used for esterification. In vitro tests, molecular docking, and in silico studies were conducted using standard procedures. In vitro tests revealed that the fatty acid chain length in mannopyranoside esters significantly affects the antifungal activity, where C12 chains are more potent against Aspergillus species. In terms of acylation site, mannopyranoside esters with a C8 chain substituted at the C-6 position are more active in antifungal inhibition. Molecular docking also revealed that these mannopyranoside esters had comparatively better stable binding energy and hence better inhibition, with the fungal enzymes lanosterol 14-alpha-demethylase (3LD6), urate oxidase (1R51), and glucoamylase (1KUL) than the standard antifungal drug fluconazole. Additionally, the thermodynamic, orbital, drug-likeness, and safety profiles of these mannopyranoside esters were calculated and discussed, along with the Structure-Activity Relationships (SAR). This study thus highlights the importance of the acylation site and lipid-like fatty acid chain length that govern the antimicrobial activity of mannopyranoside-based SFAE.

Adsorber Charge Dominates over Hydrophobic or Fluorophilic Functionalization in Influencing Adsorption of PFCA onto Polystyrene Resins

AbstractA systematic series of industrial‐relevant polystyrene‐based anion exchange resins that are functionalized with hydro‐ or fluorocarbon chains are compared regarding their adsorption behavior toward perfluorocarboxylic acids (PFCA) in respect to their charge, chain length, and type of chain. The results clearly show the dominance of electrostatic interactions in the adsorption process as uncharged adsorber materials showed no adsorption at all. In contrast, the charged adsorber materials showed in general a PFCA removal of 80% to 30% over the experiment depending on effluent fraction. Unexpectedly, for perfluorobutanoic acid (PFBA) the highest removal rate is found with consistently >90%. Despite observing significant benefits in the adsorption of PFCA for fluoroalkylated adsorbers in comparison to their non‐fluorinated counterparts, this effect of fluoroalkylation is comparatively small and can not be clearly attributed to fluorophilic interactions between the fluoroalkyl chains. These findings help clarifying that the introduction of fluorocarbon moieties in adsorber materials is not necessary in order to remove fluorocarbon molecules from the environment.

Enhancement of antifouling and mechanical properties of polysulfone membrane using zwitterionic biphenyl polyimide as additive

Biphenyl polyimides, which are known by its excellent heat resistance and mechanical properties, were synthesized by adjusting the molar ratio of monomers, followed by end-functionalized with zwitterionic group via reaction with 1,3-propanesultone. The zwitterionic sulfobetaine biphenyl polyimide (z-biph-PI) copolymers with different hydrophobic chain lengths were employed as the additive for the preparation of polysulfone (PSf) membrane. X-ray photoelectron spectrometry (XPS) measurement on membrane surfaces revealed that the sulfobetaine groups of z-biph-PI migrated toward water in the membrane formation process, during which a large amount of porous, narrow and densely packed pores were created as illustrated in scanning electron microscopy (SEM) images. Therefore, the incorporation of z-biph-PI simultaneously enhanced the pure water flux and protein rejection ratio of membranes, overcoming the trade-off effects between permeability and selectivity. The adsorption of bovine serum albumin decreased from ∼47.7 μg/cm2 for the pristine membrane to a minimum of ∼12.4 μg/cm2 for the blend membrane. More importantly, the tensile strength and elongation at break were also simultaneously improved due to the unique mechanical property of biph-PI and the strong π-π interaction between biphe-PI and PSf. Meanwhile, the blend membrane exhibited excellent filtration and thermal stability. All these characteristics of the blend membrane made it promising in ultrafiltration application.

Silanization Strategies for Tailoring Peptide Functionalization on Silicon Surfaces: Implications for Enhancing Stem Cell Adhesion.

Biomaterial surface engineering and the integration of cell-adhesive ligands are crucial in biological research and biotechnological applications. The interplay between cells and their microenvironment, influenced by chemical and physical cues, impacts cellular behavior. Surface modification of biomaterials profoundly affects cellular responses, especially at the cell-surface interface. This work focuses on enhancing cellular activities through material manipulation, emphasizing silanization for further functionalization with bioactive molecules such as RGD peptides to improve cell adhesion. The grafting of three distinct silanes onto silicon wafers using both spin coating and immersion methods was investigated. This study sheds light on the effects of different alkyl chain lengths and protecting groups on cellular behavior, providing valuable insights into optimizing silane-based self-assembled monolayers (SAMs) before peptide or protein grafting for the first time. Specifically, it challenges the common use of APTES molecules in this context. These findings advance our understanding of surface modification strategies, paving the way for tailoring biomaterial surfaces to modulate the cellular behavior for diverse biotechnological applications.

Elucidating solvent effects on lipase-catalyzed peroxyacid synthesis through activity-based kinetics and molecular dynamics.

Peroxyacid synthesis is the first step in Prilezhaev epoxidation, which is an industrial method to form epoxides. Motivated by the development of a kinetic model as a tool for solvent selection, the effect of solvent type and acid chain length on the lipase-catalyzed peroxyacid synthesis was studied. A thermodynamic activity-based ping-pong kinetic expression was successfully applied to predict the effect of the reagent loadings in hexane. The activity-based reaction quotients provided a prediction of solvent-independent equilibrium constants. However, this strategy did not achieve satisfactory estimations of initial rates in solvents of higher polarity. The lack of compliance with some assumptions of this methodology could be confirmed through molecular dynamics calculations i.e. independent solvation energies and lack of solvent interaction with the active site. A novel approach is proposed combining the activity-based kinetic expression and the free binding energy of the solvent with the active site to predict kinetics upon solvent change. Di-isopropyl ether generated a strong interaction with the enzyme's active site, which was detrimental to kinetics. On the other hand, toluene or limonene gave moderate interaction with the active site rendering improved catalytic yield compared with less polar solvents, a finding sharpened when peroctanoic acid was produced.

Feasibility of omega-3 fatty acid fraction mapping using chemical shift encoding-based imaging at 3 T.

The aim of this work is to develop an ω-3 fatty acid fraction mapping method at 3 T based on a chemical shift encoding model, to assess its performance in a phantom and in vitro study, and to further demonstrate its feasibility in vivo. A signal model was heuristically derived based on spectral appearance and theoretical considerations of the corresponding molecular structures to differentiate between ω-3 and non-ω-3 fatty acid substituents in triacylglycerols in addition to the number of double bonds (ndb), the number of methylene-interrupted double bonds (nmidb), and the mean fatty acid chain length (CL). First, the signal model was validated using single-voxel spectroscopy and a time-interleaved multi-echo gradient-echo (TIMGRE) sequence in gas chromatography-mass spectrometry (GC-MS)-calibrated oil phantoms. Second, the TIMGRE-based method was validated in vitro in 21 adipose tissue samples with corresponding GC-MS measurements. Third, an in vivo feasibility study was performed for the TIMGRE-based method in the gluteal region of two healthy volunteers. Phantom and in vitro data was analyzed using a Bland-Altman analysis. Compared with GC-MS, MRS showed in the phantom study significant correlations in estimating the ω-3 fraction (p < 0.001), ndb (p < 0.001), nmidb (p < 0.001), and CL (p = 0.001); MRI showed in the phantom study significant correlations (all p < 0.001) for the ω-3 fraction, ndb, and nmidb, but no correlation for CL. Also in the in vitro study, significant correlations (all p < 0.001) between MRI and GC-MS were observed for the ω-3 fraction, ndb, and nmidb, but not for CL. An exemplary ROI measurement in vivo in the gluteal subcutaneous adipose tissue yielded (mean ± standard deviation) 0.8% ± 1.9% ω-3 fraction. The present study demonstrated strong correlations between gradient-echo imaging-based ω-3 fatty acid fraction mapping and GC-MS in the phantom and in vitro study. Furthermore, feasibility was demonstrated for characterizing adipose tissue in vivo.

Controllable Synthesis of Sub‐10 nm ZnS Nanograins Confined in Micro‐Size Carbon Skeleton for Aqueous Zn–S Batteries

AbstractAqueous zinc–sulfur battery (AZSB) is a promising technology for energy storage, but its practical application is severely limited by the sluggish redox kinetics and large volume expansion of the sulfur cathode. Herein, the controllable synthesis of sub‐10 nm ZnS nanograins confined in micro‐size carbon skeleton (MN‐ZnS/C─H) and its application as the cathode for AZSB is reported. It is revealed that the carbon source, polyvinylpyrrolidone (PVP), can weakly coordinate with Zn2+ and provide a physical confinement for inhibiting the agglomeration of ZnS nanograins during the calcination process. Moreover, the particle size of ZnS (from sub‐10 to 350 nm) and the shape of ZnS/carbon composite (from bulk to sphere) can be well controlled by tuning the chain length of PVP. In the unique hierarchical structure, the ZnS nanograins can provide an optimized ion transmission path, and the micro‐size carbon network not only ensures high electronic conductivity but also maintains structure integrity upon volume variation, endowing the MN‐ZnS/C─H electrode with a high reversible capacity of 370 mA h g−1 at 0.2 A g−1, high rate capability of 209 mA h g−1 at 4 A g−1, and a long lifespan of 210 cycles with 93.2% capacity retention at 2 A g−1.

Synthesis of Metastable Calcium Carbonate Using Long-Chain Bisphosphonate Molecules.

Cementation in construction materials primarily relies on the aqueous precipitation of minerals such as carbonates and silicates. The kinetics of nucleation and growth play a critical role in the development of strength and durability, yet our understanding of the kinetic controls governing phase formation and porosity reduction in cements remains limited. In this study, we synthesized bisphosphonate molecules with varying alkyl chain lengths and functional groups to investigate their impact on calcium carbonate precipitation. Through conductivity measurements, infrared spectroscopy, and thermogravimetric analysis, we uncovered the selective formation of polymorphs and the specific incorporation of these molecules within the carbonate matrix. Further, in situ atomic force microscopy revealed that these molecules influenced the morphology of the precipitates, indicating a possible effect on the ionic organization through sorption mechanisms. Interestingly, amorphous calcium carbonate (ACC), when formed in the presence of bisphosphonates, showed metastability for at least seven months without inhibiting further calcium carbonate precipitation. Our research sheds light on the diverse mechanisms by which organic additives can modify mineral nucleation and growth, offering valuable insights for the control and enhancement of carbonate-based cementation processes.

Mesomorphic and optical properties of azo-ester liquid crystalline reactive mesogens with enhanced thermal stability

A series of azo-ester-linked polymerizable liquid crystalline compounds M1-M3, containing lateral methyl substitution and different terminal alkoxy substituents, e.g., −OCH3, −OCH2CH3, and −OCH2CH2CH3 have successfully been synthesized and characterized. The chemical structures of the prepared compounds were confirmed by different spectroscopic techniques. Thermogravimetric analysis revealed that all the compounds exhibited excellent thermal stability and showed two-staged decomposition patterns. The optical microscopic study revealed that all compounds displayed only the nematic phase and lateral substituent played a crucial role in the formation of single mesophase. The broad X-ray scattering peaks for M1, M2, and M3 in the 2.5–5.5 nm−1 region was observed at temperatures of 154 °C, 85 °C, and 129 °C, respectively, upon cooling from the isotropic liquid, confirming the existence of nematic mesophase. The electronic spectra of M1-M3 showed two main absorption bands with λmax ranges of 263–266 and 369–377 nm. The E-Z photoisomerization study of M1-M3 showcased that the processes followed the first-order kinetic, and the isomerization rate decreased as the alkoxy chain length increased. On the contrary, the Z-E thermal isomerization rates for M1-M3 showed insignificant changes as the alkoxy chain length increased.

Anisotropic 2D van der Waals Magnets Hosting 1D Spin Chains.

The exploration of 1D magnetism, frequently portrayed as spin chains, constitutes an actively pursued research field that illuminates fundamental principles in many-body problems and applications in magnonics and spintronics. The inherent reduction in dimensionality often leads to robust spin fluctuations, impacting magnetic ordering and resulting in novel magnetic phenomena. Here, structural, magnetic, and optical properties of highly anisotropic 2D van der Waals antiferromagnets that uniquely host spin chains are explored. First-principle calculations reveal that the weakest interaction is interchain, leading to essentially 1D magnetic behavior in each layer. With the additional degree of freedom arising from its anisotropic structure, the structure is engineered by alloying, varying the 1D spin chain lengths using electron beam irradiation, or twisting for localized patterning, and spin textures are calculated, predicting robust stability of the antiferromagnetic ordering. Comparing with other spin chain magnets, these materials are anticipated to bring fresh perspectives on harvesting low-dimensional magnetism.

Effects of side chain length on the performance of poly(aryl-alkylene) anion exchange membranes for fuel cells

Anion exchange membranes (AEMs) are one of the most critical materials determining the fuel cell (FC) performance. From current reports, there are still many limit factors for AEMs, such as conductivity, mechanical performance, power density and durability, which greatly affect their practicality. Here, we introduce a range of arylfluoroketone monomers with different side chain lengths into the poly (aryl-alkylene) matrix material using a copolymerization strategy to get AEMs. This study aims to investigate the effect of side chain length on the performance of AEMs, such as phase separation, ion conductivity and mechanical properties. Due to the existence of long alkyl side chains, QTPNPC4 shows significant hydrophilic aggregation, outstanding OH− conductivity (158.6 mS cm−1, 80 °C) and excellent flexibility (109.1 %). Meanwhile, QTPNPC4 exhibits remarkable ex-situ durability (96.3 %) and chemical stability (96.6 %) after soaking in a 2 M NaOH solution for 1560 h at 80 °C. In addition, the peak power density (PPD) of a single cell with QTPNPC4 reaches 927 mW cm−2 (80 °C), and the membrane has good in-situ durability (0.689 mV h−1).

Asian monsoonal temperature and environmental changes since the penultimate deglaciation as revealed by alkenones and alkanes in sediments from the northern South China Sea

A new alkenone sea surface temperature (SST) record from the South China Sea (SCS) over the last 170 ka has been reported here. Our analysis of magnetic susceptibility and AMS 14C dating on the top portion of the core suggests that this record dates to the Marine Isotope Stage (MIS) 6. As indicated in Termination I and II, SST changes are correlated with clear glacial/interglacial cycles and likely dominated by atmospheric CO2 and Western Pacific Warm Pool temperature changes. But the two Terminations were different in magnitude. In Termination I, the minimum and maximum SSTs are 24.5 °C and 27.5 °C, respectively, showing a smaller rise (3 °C) than in Termination II (24–28.3 °C). The n-alkane indices, such as average chain length (ACL) and carbon preference index (CPI), exhibited high/low values during glacial/interglacial periods, and possible more arid climate during MIS 6 than MIS 2. During Termination II, the maximum surface warming in the SCS is accompanied by a progressive lag of approximately 7000 years in relation to maximum summer insolation until Termination I, when they are nearly synchronous. According to the study, SSTs are continuously changing and are influenced by solar insolation, global ice volume changes, and ocean–atmosphere interactions across hemispheres.

Synthesis and Electron Transporting Properties of Diblock Copolymers Consisting of Polyfluorene and Polystyrene.

Poly(9,9-di-n-octylfluorene) (PFO) is a promising material for polymer light-emitting diodes (PLEDs) due to its advantageous properties. To enhance its electron transporting capabilities, diblock polymers were synthesized by attaching polystyrene (PSt) chains of varying lengths to one end of the PFO molecule. In a comparative study with PFO homopolymer, the diblock polymers maintained similar thermal properties, absorption spectra, and photoluminescent stability, while exhibiting slightly deeper lowest unoccupied molecular orbital (LUMO) levels and higher crystallinity. Notably, diblock polymers with shorter polystyrene blocks demonstrated higher electron mobility than the PFO homopolymer and diblock polymers with excessively long polystyrene blocks. These findings suggest that the optimal chain length of the polystyrene block is crucial for maximizing electron mobility, thus offering valuable insights for designing high-performance PLED materials.

Exploring molecular mechanism of fish myofibrillar protein adsorbing and releasing aldehydes with different structures

Expounding the interaction effect between myofibrillar proteins (MPs) and odorants for directional regulation of fish flavor is necessary. Interactive relationship between MPs and six aldehydes contributed to fish aroma with different chain lengths and saturations were investigated via multiple spectroscopy and molecular docking. Aldehydes binding capabilities to fish MPs in the order: Decanal> Hexanal> (E)-2-Decenal> (E)-2-Nonenal> (E,E)-2,4-Decadienal> (E,E)-2,4-Heptandienal. Each mole of MPs can bind about 2660 mol Dec while as to HDE just about 1000 mol due to the effect of chain length and saturation. The change of hydrophobic cavity in MPs contributed to the difference in aldehyde-binding capacity. Tryptophan and tyrosine residues of MPs mediated changes in the hydrophobic microenvironment. Besides, hydrogen bonding and Van der Waals forces were the main force dominated the interaction. Further, it described the molecular mechanism about MPs and aldehydes interaction and proposed a method to disrupting the interactions between MP and fishy odor compounds to help fish product aroma control.

Bayesian Analysis of Exponential Random Graph Models Using Stochastic Gradient Markov Chain Monte Carlo

The exponential random graph model (ERGM) is a popular model for social networks, which is known to have an intractable likelihood function. Sampling from the posterior for such a model is a long-standing problem in statistical research. We analyze the performance of the stochastic gradient Langevin dynamics (SGLD) algorithm (also known as noisy Longevin Monte Carlo) in tackling this problem, where the stochastic gradient is calculated via running a short Markov chain (the so-called inner Markov chain in this paper) at each iteration. We show that if the model size grows with the network size slowly enough, then SGLD converges to the true posterior in 2-Wasserstein distance as the network size and iteration number become large regardless of the length of the inner Markov chain performed at each iteration. Our study provides a scalable algorithm for analyzing large-scale social networks with possibly high-dimensional ERGMs.

Distinct antithrombin activation modes for fondaparinux and natural heparins detected using millisecond hydrogen deuterium exchange and collision induced unfolding

Low molecular weight heparin and synthetic mimetics such as fondaparinux show different binding kinetics, protease specificity, and clinical effects. A combination of allosteric and template-mediated bridging mechanisms have been proposed to explain the differences in rate acceleration and specificity. The difficulty in working with heterogeneous heparin species has rendered a crystallographic interpretation of the differences in antithrombin activation between mimetics and natural heparin inaccessible. In this study, we examine the allosteric changes in antithrombin caused by binding fondaparinux, enoxaparin and depolymerized natural heparins using millisecond hydrogen deuterium exchange mass spectrometry (TRESI-HDX MS) and relate these conformational changes to complex stability in the gas phase using collision induced unfolding (CIU). This exploration reveals that in addition to the dynamic changes caused by fondaparinux, long chain heparins reduce structural flexibility proximal to Arg393, the cleavable residue in the reactive centre loop of the protein. These local changes in protein dynamics are associated with an increase in overall complex stability that increases with heparin chain length. Ultimately, these results shed light on the molecular mechanisms underlying differences in activity and specificity between heparin mimetics and natural heparins.