Structural evolution of multicompartment micelles self-assembled from linear ABC triblock copolymer in selective solvents

Using dissipative particle dynamics simulation, structural evolution from concentric multicompartment micelles to raspberry-like multicompartment micelles self-assembled from linear ABC triblock copolymers in selective solvents was investigated. The structural transformation from concentric micelles to raspberry-like micelles can be controlled by changing either the length of B blocks or the solubility of B block. It was found that the structures with B bumps on C surface (B-bump-C) are formed at shorter B block length and the structures with C bumps on B surface (C-bump-B) are formed at relative lower solubility of B blocks. The formation of B-bump-C is entropy-driven, while the formation of C-bump-B is enthalpy-dominated. Furthermore, when the length of C blocks is much lower than that of B blocks, an inner-penetrating vesicle was discovered. The results gained through the simulations provide an insight into the mechanism behind the formation of raspberry-like micelles.     

Analytical model for studying how environmental factors influence protein conformational stability in solution

We introduce an analytical modeling strategy for probing the conformational stability of globular proteins in aqueous solution. In this approach, the intrinsic (i.e., infinite dilution) thermodynamic stability and coarse structural properties of the proteins, as well as the effective protein-protein interactions, derive from a heteropolymer collapse theory that incorporates predicted temperature- and pressure-dependent hydrophobic interactions. Protein concentration effects are estimated by integrating this information into a molecular thermodynamic model, which is an ad hoc generalization of the exact equilibrium theory of a one-dimensional binary mixture of square-well particles that interconvert through an isomerization (i.e., folding) reaction. The end result is an analytical multiscale modeling approach which, although still schematic, can predict that folded proteins exhibit a closed-loop region of stability in the pressure-temperature plane and that protein concentration has a nonmonotonic effect on protein stability, results consistent with qualitative trends observed in both experiments of protein solutions and simulations of coarse-grained protein models.     

Self-assembling of hydrophobic-hydrophilic copolymers in hydrophobic nanocylindrical tubes: formation of channels

By employing Monte Carlo simulations, the phase behavior of hydrophobic-hydrophilic copolymers confined in hydrophobic nanocylindrical tubes has been investigated by changing the hydrophobic-hydrophilic distribution, the ratio of the hydrophobic to hydrophilic segments, the hydrophobicity of the tube surface, and the tube diameter. The ratio of hydrophobic to hydrophilic segments, the number of blocks in a chain, and the number of segments in a block affected the generation of channels in the central region. Such channels were formed when the hydrophobicity of the tube surface was sufficiently strong for its attraction for the hydrophobic segments to overcome the attraction between the hydrophobic segments. When the numbers of hydrophobic and hydrophilic beads in a chain are constant, the number of blocks has opposite effects in small and large tubes. In the former, the formation of channels is stimulated by a larger number of blocks, while in the latter, it is stimulated by a smaller number of blocks.     

Turn-directed folding dynamics of β-hairpin-forming de novo decapeptide Chignolin

Realistic mechanistic pictures of β-hairpin formation, offering valuable insights into some of the key early events in protein folding, are accessible through short designed polypeptides as they allow atomic-level scrutiny through simulations. Here, we present a detailed picture of the dynamics and mechanism of β-hairpin formation of Chignolin, a de novo decapeptide, using extensive, unbiased molecular dynamics simulations. The results provide clear evidence for turn-directed broken-zipper folding and reveal details of turn nucleation and cooperative progression of turn growth, hydrogen-bond formations, and eventual packing of the hydrophobic core. Further, we show that, rather than driving folding through hydrophobic collapse, cross-strand side-chain packing could in fact be rate-limiting as packing frustrations can delay formation of the native hydrophobic core prior to or during folding and even cause relatively long-living misfolded or partially folded states that may nucleate aggregative events in more complex situations. The results support the increasing evidence for turn-centric folding mechanisms for β-hairpin formation suggested recently for GB1 and Peptide 1 based on experiments and simulations but also point to the need for similar examinations of polypeptides with larger numbers of cross-strand hydrophobic residues.     

Double hydrophilic block copolymers with switchable secondary structure as additives for crystallization control

The synthesis and folding behavior of two different series of double hydrophilic block copolymers based on polyethyleneglycol and short acidic polypeptide blocks are described. The employment of those species in the crystallization of CaCO₃ and BaSO₄ shows that in contrast to the expectations from biomineral examples, a random conformation of the peptide is more advantageous in mineralization control than an -helical arrangement of the same chain, which is contradictory to the epitaxial adsorption model in biomineralization. Otherwise, the peptide block copolymers support formation of superstructures similar to those already reported, e.g. well-defined spherical, prolate, and dumbbell morphologies are found.     

Theory of crystallizable block copolymers

We present an equilibrium theory of diblock copolymers in which one of the blocks is crystallizable and the other is amorphous. The material is assumed to order in a lamellar structure of alternating semi-crystalline and amorphous layers with the chemical bonds which connect the copolymer blocks lying in the interfacial regions between the layers. The amorphous blocks are modelled as flexible chains, each with one end (the joint) anchored in an interface. Their contribution to the free energy is calculated via the self-consistent solution of the modified diffusion equations. The crystalline regions are modelled as folded chains, also with one end in an interfacial region (bonded to the corresponding end of an amorphous block). We find that the calculated amorphous block-free energies can be expressed as a single universal function depending on the total degree of polymerization of the amorphous block, its stretching, and a parameter proportional to the thickness of the interface. We have fitted an analytical form to this function, which can be used for any amorphous block, and we have combined it with our model of the crystallizable block to obtain scaling laws describing the equilibrium morphology.     

Effects of mutation on the amyloidogenic propensity of apolipoprotein C-II(60-70) peptide

Using experimental and computational methods we identified the effects of mutation on the structure and dynamics of the amyloidogenic peptide apoC-II(60-70), in monomeric and oligomeric states. Methionine (Met60) substitutions to hydrophilic Gln, hydrophobic Val, and methionine sulfoxide residues were investigated and the results compared with observations of fibril formation by the wild-type, Met60Gln, Met60Val, and oxidised Met60 (oxi-Met) apoC-II(60-70) peptides. ThT fluorescence measurements showed fibril formation by all peptides, however with different kinetics. The wild-type and Met60Val peptides formed fibrils fastest, while oxi-Met and Met60Gln peptides exhibited significantly longer lag phases. Molecular dynamics simulations showed that the mutated monomers exhibited structural features consistent with fibril-forming propensity, such as β-hairpin conformation and a hydrophobic core. However, important differences to the wild-type were also noted, such as increased structural flexibility (oxi-Met and Met60Gln systems) and a broader distribution of the aromatic angle orientation, which could contribute to the different fibrillation kinetics observed in these peptides. Our results also showed that the critical nucleus size for fibril formation by apoC-II(60-70) may not be very large, since tetrameric oligomers in anti-parallel configuration were very stable within the 100 ns of simulations. The single-point mutations Met60Val and Met60Gln had no significant effect on the structural stability of the tetramer. The rate of fibril formation by apoC-II(60-70) peptides was generally much faster compared to longer apoC-II(56-76) peptides. Also, the effects of amino acid modifications on the kinetics of peptide fibril formation differ from the effects observed for apoC-II(56-76) and full-length apoC-II, suggesting that additional mechanisms are involved in fibril formation by mature apoC-II.     

End Capping Alters the Structural Characteristics and Mechanical Properties of Transthyretin (105–115) Amyloid Protofibrils

Pathological amyloid proteins are associated with degenerative and neurodegenerative diseases. These amyloid proteins develop as oligomer, fibrillar, and plaque forms, due to the denatured and unstable status of the amyloid monomers. Specifically, the development of fibrillar amyloid proteins has been investigated through several experimental studies. To understand the generation of amyloid fibrils, environmental factors such as point mutations, pH, and polymorphic characteristics have been considered. Recently, amyloid fibril studies related to end‐capping effects have been conducted to understand amyloid fibril development. However, atomic‐level studies to determine the stability and mechanical properties of amyloid fibrils based on end capping have not been undertaken. In this study, we show that end capping alters the structural characteristics and conformations of transthyretin (TTR) amyloid fibrils by using molecular dynamics (MD) simulations. Variation in the structural conformations and characteristics of the TTR fibrils through end capping are observed, due to the resulting electrostatic energies and hydrophobicity characteristics. Moreover, the end capping changes the mechanical properties of TTR fibrils. Our results shed light on amyloid fibril formation under end‐capping conditions.     

Folding of the 25 residue Abeta(12-36) peptide in TFE/water: temperature-dependent transition from a funneled free-energy landscape to a rugged one

The free-energy landscape of the Alzheimer beta-amyloid peptide Abeta(12-36) in a 40% (v/v) 2,2,2-trifluoroethanol (TFE)/water solution was determined by using multicanonical molecular dynamics simulations. Simulations using this enhanced conformational sampling technique were initiated from a random unfolded polypeptide conformation. Our simulations reliably folded the peptide to the experimental NMR structure, which consists of two linked helices. The shape of the free energy landscape for folding was found to be strongly dependent on temperature: Above 325 K, the overall shape was funnel-like, with the bottom of the funnel coinciding exactly with the NMR structure. Below 325 K, on the other hand, the landscape became increasingly rugged, with the emergence of new conformational clusters connected by low free-energy pathways. Finally, our simulations reveal that water and TFE solvate the polypeptide in different ways: The hydrogen bond formation between TFE and Abeta was enhanced with decreasing temperature, while that between water and Abeta was depressed.     

嵌段序列对聚合物囊泡形成过程影响的Monte Carlo模拟

采用Monte Carlo模拟方法研究了具有相同链长和组分比的不同嵌段序列的AB两嵌段共聚物与ABA三嵌段共聚物在选择性溶剂中形成囊泡的动力学过程. 模拟结果表明, AB两嵌段共聚物囊泡的形成与ABA三嵌段共聚物囊泡的形成的动力学过程不同. 在慢速退火条件下, ABA三嵌段共聚物囊泡是通过亲水链段向胶束的表面和中心扩散而形成的, 而AB两嵌段共聚物囊泡则由片层弯曲闭合而形成. 相对而言, 退火速度对AB两嵌段共聚物囊泡形成的动力学过程没有显著影响, 其改变仅影响亲水链段与疏水链段发生相分离的难易程度. 当退火速度较快时, 亲水链段和疏水链段发生相分离的速度较快且相分离发生在囊泡形成之前; 而当退火速度较慢时亲水链段和疏水链段之间的相分离在囊泡形成之后仍在进行.     

Biodegradable amphiphilic block copolymers containing functionalized PEO blocks: Controlled synthesis and biomedical potentials

A series of controllable amphiphilic block copolymers composed of poly(ethylene oxide) (PEO) as the hydrophilic block and poly(?-caprolactone) (PCL) as the hydrophobic block with the amino terminal group at the end of the PEO chain (PCL-b-PEO-NH₂) were synthesized. Based on the further reaction of reactive amino groups, diblock copolymers with functional carboxyl groups (PCL-b-PEO-COOH) and functional compounds RGD (PCL-b-PEO-RGD) as well as the triblock copolymers with thermosensitive PNIPAAm blocks (PCL-b-PEO-b-PNIPAAM) were synthesized. The well-controlled structures of these copolymers with functional groups and blocks were characterized by gel permeation chromatography (GPC) and ¹H NMR spectroscopy. These copolymers with functionalized hydrophilic blocks were fabricated into microspheres for the examination of biofunctions via cell culture experiments and in vitro drug release. The results indicated the significance of introducing functional groups (e.g., NH₂, COOH and RGD) into the end of the hydrophilic block of amphiphilic block copolymers for biomedical potentials in tissue engineering and controlled drug release.     

Molecular Dynamics Simulation Studies on the Aggregation of Amyloid-β Peptides and Their Disaggregation by Ultrasonic Wave and Infrared Laser Irradiation

Alzheimer’s disease is understood to be caused by amyloid fibrils and oligomers formed by aggregated amyloid-β (Aβ) peptides. This review article presents molecular dynamics (MD) simulation studies of Aβ peptides and Aβ fragments on their aggregation, aggregation inhibition, amyloid fibril conformations in equilibrium, and disruption of the amyloid fibril by ultrasonic wave and infrared laser irradiation. In the aggregation of Aβ, a β-hairpin structure promotes the formation of intermolecular β-sheet structures. Aβ peptides tend to exist at hydrophilic/hydrophobic interfaces and form more β-hairpin structures than in bulk water. These facts are the reasons why the aggregation is accelerated at the interface. We also explain how polyphenols, which are attracting attention as aggregation inhibitors of Aβ peptides, interact with Aβ. An MD simulation study of the Aβ amyloid fibrils in equilibrium is also presented: the Aβ amyloid fibril has a different structure at one end from that at the other end. The amyloid fibrils can be destroyed by ultrasonic wave and infrared laser irradiation. The molecular mechanisms of these amyloid fibril disruptions are also explained, particularly focusing on the function of water molecules. Finally, we discuss the prospects for developing treatments for Alzheimer’s disease using MD simulations.     

A Mobile Precursor Determines Amyloid-β Peptide Fibril Formation at Interfaces

The aggregation of peptides into amyloid fibrils plays a crucial role in various neurodegenerative diseases. While it has been generally recognized that fibril formation in vivo may be greatly assisted or accelerated by molecular surfaces, such as cell membranes, little is known about the mechanism of surface-mediated fibrillation. Here we study the role of adsorbed Alzheimer's amyloid-β peptide (Aβ42) on surface-mediated fibrillation using polymer coatings of varying hydrophobicity as well a supported lipid bilayer membrane. Using single molecule fluorescent tracking and atomic force microscopy imaging, we show that weakly adsorbed peptides with two-dimensional diffusivity are critical precursors to fibril growth on surfaces. This growth mechanism is inhibited on the highly hydrophilic surface where the surface coverage of adsorbed peptides is negligible or on the highly hydrophobic surface where the diffusion constant of the majority of adsorbed peptides is too low. Physical properties that favor weakly adsorbed peptides with sufficient translational mobility can locally concentrate peptide molecules on the surface and promote inter-peptide interaction via two-dimensional confinement, leading to fibrillation at Aβ peptide concentration many orders of magnitude below the critical concentration for fibrillation in the bulk solution.     

Mechanistic studies of peptide self-assembly: transient α-helices to stable β-sheets

The pathologic self-assembly of proteins is associated with typically late-onset disorders such as Alzheimer's disease, Parkinson's disease, and type 2 diabetes. Important mechanistic details of the self-assembly are unknown, but there is increasing evidence supporting the role of transient α-helices in the early events. Islet amyloid polypeptide (IAPP) is a 37-residue polypeptide that self-assembles into aggregates that are toxic to the insulin-producing β cells. To elucidate early events in the self-assembly of IAPP, we used limited proteolysis to identify an exposed and flexible region in IAPP monomer. This region includes position 20 where a serine-to-glycine substitution (S20G) is associated with enhanced formation of amyloid fibrils and early onset type 2 diabetes. To perform detailed biophysical studies of the exposed and flexible region, we synthesized three peptides including IAPP(11-25)WT (wild type), IAPP(11-25)S20G, and IAPP(11-25)S20P. Solution-state NMR shows that all three peptides transiently populate the α-helical conformational space, but the S20P peptide, which does not self-assemble, transiently samples a broken helix. Under similar sample conditions, the WT and S20G peptides populate the α-helical intermediate state and β-sheet end state, respectively, of fibril formation. Our results suggest a mechanism for self-assembly that includes the stabilization of transient α-helices through the formation of NMR-invisible helical intermediates followed by an α-helix to β-sheet conformational rearrangement. Furthermore, our results suggest that reducing intermolecular helix-helix contacts as in the S20P peptide is an attractive strategy for the design of blockers of peptide self-assembly.     

Coarse-grained molecular-dynamics simulations of the self-assembly of pentablock copolymers into micelles

Multiblock polymers in aqueous solution, where one or several blocks are hydrophobic, exhibit a rich variety of phases and states of aggregation. In this paper, we investigate a pentablock system ABCBA, where the B block is always hydrophilic and the A and C blocks have varying degrees of hydrophobicity depending on external conditions. We report coarse-grained molecular-dynamics simulations where the solvent is included explicitly and monomers interact via a 6-9 Lennard Jones potential function. The hydrophobic interaction is modeled by tuning the parameter controlling the strength of the interaction between the hydrophobic monomers and the solvent. We investigate the structure and morphology of the micelles for two concrete situations representing changes in temperature and the pH level. The simulated system is directly relevant to a recently synthesized pentablock system consisting of a triblock Pluronic with an added pH-sensitive end group [B. C. Anderson et al., Macromolecules 36, 1670 (2003)].     

Markov-type evolution of materials into a polar state

Assembling polar building blocks into a solid material by a Markov-chain process of unidirectional growth principally results in a metastable state that shows effects of macroscopic polarity. Stochastic polarity formation can be described by probabilities for the attachment of building blocks to a surface. Because of the polar symmetry of the building blocks, there is a fundamental difference in the probabilities for attaching them "tip-first" or "back-first" to growth sites at a surface. A difference in the corresponding probabilities drives the evolution of a vectorial property through a gain in configurational entropy. Examples from the mechanical, the crystalline and the biological world demonstrate growth-induced macroscopic polarity. In crystals, growth upon centrosymmetric seeds can produce twinned crystals with a "sectorwise" pyroelectric effect. Polarity formation in connective tissues is explained by a Markov-chain mechanism, which drives the self-assembly of collagen fibril segments. An unified stochastic growth model brings up a general concept for the formation of materials with polar properties.     

Degradation versus self-assembly of block co-polymer micelles

The stability of micelles self-assembled from block co-polymers can be altered by the degradation of the blocks. Slow degradation shifts the equilibrium size distribution of block co-polymer micelles and changes their properties. The quasi-equilibrium scaling theory shows that the degradation of hydrophobic blocks in the core of micelles destabilizes the micelles, reducing their size, while the degradation of hydrophilic blocks forming coronas of micelles favors larger micelles and may, at certain conditions, induce the formation of micelles from individual chains.     

Biocompatible poly(ethylene glycol)‐poly(γ‐cholesterol‐L‐glutamate) copolymers: Synthesis,characterization, and in vitro studies

A novel amphiphilic poly(ethylene glycol)‐block‐poly(γ‐cholesterol‐L ‐glutamate) (mPEG–PCHLG) diblock copolymer has been synthesized. The mPEG–PCHLG copolymer has good biocompatibility and low toxicity. The mPEG–PCHLG copolymers could aggregate into nanoparticles with PCHLG blocks as the hydrophobic core and PEG blocks as the hydrophilic shell through emulsion solvent evaporation method. The copolymers were characterized by nuclear magnetic resonance spectroscopy, mass spectrum, Fourier transform infrared spectroscopy, and gel permeation chromatography. The particle sizes, size distributions, and zeta potentials of nanoparticles can also be determined by dynamic light scattering and transmission electron microscopy. This work provides a new and facile approach to prepare amphiphilic block copolymer nanoparticles with controllable performances. This novel copolymer may have potential applications in drug delivery and bioimaging applications.© 2012 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2012     

Spontaneous formation of vesicles from mixed amphiphiles with dispersed molecular weight: Monte Carlo simulation

The spontaneous formation of vesicles from amphiphiles with dispersed molecular weight (MW) as well as with mono-MW has been studied by a lattice Monte Carlo simulation. Both pure and mixed amphiphiles were self-assembled into vesicles under appropriate conditions. When mixed amphiphiles were examined, the amphiphiles with longer hydrophilic blocks preferred to segregate into the outer monolayer of the resultant vesicles, which is consistent with the experimental observations in recent literature. The kinetic study reveals that the increase of vesicle size is mainly caused by the mechanism of vesicle fusion at the early stage, and the evaporation-condensation mechanism cannot be neglected at the late stage. The fusion of vesicles is accompanied by translocation of chains from the outer monolayer to the inner monolayer. For mixed amphiphiles, the degree of segregation exhibits a size dependence of the vesicle. Compared to the chains with shorter hydrophilic blocks, those with longer hydrophilic blocks exhibit stronger trends to translocate from the outer monolayer to the inner one in vesicle self-adjustment, which leads to the quasi-equilibrium asymmetric distribution of the hydrophilic blocks in the post-fused vesicles.     

两亲嵌段共聚物胶束用作医用材料

两亲嵌段共聚物可以在水溶液中自组装形成亲水性链段为外壳、疏水性链段为内核的胶束,这种胶束能够用作药物载体而引起人们极大的关注。本文综述了两亲嵌段共聚物胶束用作医用材料的研究进展,主要内容包括医用两亲嵌段共聚物的种类,胶束化,以及用作诊断试剂载体、药物缓释载体、靶向载体等。两亲嵌段共聚物胶束用作磁共振造影剂载体有利于肿瘤的诊断,用作药物缓释载体可以有效增溶难溶性抗肿瘤药物,延长药物在体内的血液循环时间。此外,通过对胶束表面进行修饰或者施加外场,还可以实现靶向功能。因此,两亲嵌段共聚物胶束在医用材料领域有着广阔的发展前景。