Molecular self-assembly is the spontaneous association of molecules under equilibrium conditions into stable, structurally well-defined aggregates joined by noncovalent bonds. Molecular self-assembly is ubiquitous in biological systems and underlies the formation of a wide variety of complex biological structures. Understanding self-assembly and the associated noncovalent interactions that connect complementary interacting molecular surfaces in biological aggregates is a central concern in structural biochemistry. Self-assembly is also emerging as a new strategy in chemical synthesis, with the potential of generating nonbiological structures with dimensions of 1 to 10(2) nanometers (with molecular weights of 10(4) to 10(10) daltons). Structures in the upper part of this range of sizes are presently inaccessible through chemical synthesis, and the ability to prepare them would open a route to structures comparable in size (and perhaps complementary in function) to those that can be prepared by microlithography and other techniques of microfabrication.

Molecular self-assembly and nanochemistry: A chemical strategy for the synthesis of nanostructures

Nothing is solid about proteins. Governing rules and established laws are constantly broken. As an example, the last decade and a half have witnessed the fall of one of the major paradigms in structural biology. Contrarily to the more than a century-old belief that the unique function of a protein is determined by its unique structure, which, in its turn, is defined by the unique amino acid sequence, many biologically active proteins lack stable tertiary and/or secondary structure either entirely or at their significant parts. Such intrinsically disordered proteins (IDPs) and hybrid proteins containing ordered domains and functional IDP regions (IDPRs) are highly abundant in nature, and many of them are associated with various human diseases. Such disordered proteins and regions are very different from ordered and well-structured proteins and domains at a variety of levels and possess well-recognizable biases in their amino acid compositions and amino acid sequences. A characteristic feature of these proteins is their exceptional structural heterogeneity, where different parts of a given polypeptide chain can be ordered (or disordered) to different degrees. As a result, a typical IDP/IDPR contains a multitude of potentially foldable, partially foldable, differently foldable or not foldable structural segments. This distribution of conformers is constantly changing in time, where a given segment of a protein molecule has different structures at different time points. The distribution is also constantly changing in response to changes in the environment. This mosaic structural organization is crucial for their functions and many IDPs are engaged in biological functions that rely on high conformational flexibility and that are not accessible to proteins with unique and fixed structures. As a result, the functional repertoire of IDPs complements that of ordered proteins, with IDPs/IDPRs being often involved in regulation, signaling and control. This Sprenger Briefs volume is dedicated to IDPs and IDPRs and an attempt is made to compress a massive amount of knowledge and into a digest that aims to be of use to those wishing a fast entry into this promising field of structural biology.

Intrinsically Disordered Proteins

This article explores recent advances in the design and engineering of materials wholly or principally constructed from peptides. We focus on materials that are able to respond to changes in their environment (pH, ionic strength, temperature, light, oxidation/reduction state, presence of small molecules or the catalytic activity of enzymes) by altering their macromolecular structure. Such peptide-based responsive biomaterials have exciting prospects for a variety of biomedical and bionanotechnology applications in drug delivery, bio-sensing and regenerative medicine.

Peptide-based stimuli-responsive biomaterials

Supramolecular polymers exhibit fascinating structures, and their properties, and thus applications, depend both on the strength and dynamics of the non-covalent bonds and on the functional properties of the monomeric building blocks. In this Review, we highlight the progress in methods developed to control supramolecular polymerization based on physicochemical insights into the thermodynamics and kinetics of non-covalent interactions. Prerequisites for polymer formation and stability, such as high binding strength (thermodynamics) between complementary receptor units, are briefly discussed, while the main focus is on the kinetic control of pathway selectivity, which in recent years has allowed seed-induced living supramolecular polymerization, chain growth-type supramolecular polymerization and the preparation of specific supramolecular polymer polymorphs and supramolecular block copolymers. Beginning with a historical retrospective, this Review highlights the progress from thermodynamically and kinetically controlled self-assembly processes towards seed-induced living supramolecular polymerization, which allows the formation of highly ordered, functional materials such as supramolecular block copolymers.

Supramolecular polymerization through kinetic pathway control and living chain growth

In this review, we focus on the very recent developments on the use of the stimuli responsive properties of polymer hydrogels for targeted drug delivery, tissue engineering, and biosensing utilizing their different optoelectronic properties. Besides, the stimuli-responsive hydrogels, the conducting polymer hydrogels are discussed, with specific attention to the energy generation and storage behavior of the xerogel derived from the hydrogel. The electronic and ionic conducting gels have been discussed that have applications in various electronic devices, e.g., organic field effect transistors, soft robotics, ionic skins, and sensors. The properties of polymer hybrid gels containing carbon nanomaterials have been exemplified here giving attention to applications in supercapacitors, dye sensitized solar cells, photocurrent switching, etc. Recent trends in the properties and applications of some natural polymer gels to produce thermal and acoustic insulating materials, drug delivery vehicles, self-healing material, tissue engineering, etc., are discussed. Besides the polymer gels, peptide gels of different dipeptides, tripeptides, oligopeptides, polypeptides, cyclic peptides, etc., are discussed, giving attention mainly to biosensing, bioimaging, and drug delivery applications. The properties of peptide-based hybrid hydrogels with polymers, nanoparticles, nucleotides, fullerene, etc., are discussed, giving specific attention to drug delivery, cell culture, bio-sensing, and bioimaging properties. Thus, the present review delineates, in short, the preparation, properties, and applications of different polymer and peptide hydrogels prepared in the past few years.

A review on recent advances in polymer and peptide hydrogels

Controlled supramolecular polymerization of π-systems.

Peptide-based hydrogels are highly promising for various biomedical applications owing to their precise self-assembly, biocompatibility, and sensitivity toward biologically relevant external stimuli. Herein, we report pH-responsive self-assembly and gelation of a highly biocompatible amphiphilic peptide PEP-1. This is an octa-peptide and double mutant of a naturally occurring β-strand peptide fragment of the protein Galectin-1, available in bovine spleen. PEP-1 was synthesized by using the Rink amide resin as the solid support in a homemade apparatus. At pH 7.4, it exhibits spontaneous gelation with very high yield stress of 88.0 Pa and gel-to-sol temperature of 84 °C at C = 2.0 wt %. Microscopy studies revealed entangled fibrillar morphology whereas circular dichroism, Fourier tranform IR, and Thioflavin T assay indicated formation of β-sheet rich secondary structure. The assembled state was found to be stable in neutral pH whereas either decrease or increase in the pH resulted in disassembly owing to the presence of the pH responsive Asp and Lys residues. The gel network showed ability to entrap water-soluble guest molecules such as Calcein which could be selectively released at acidic pH whereas under neutral condition the release was negligible. MTT assay revealed remarkable biocompatibility of the PEP-1 gel as almost 100% cells were alive after 48 h incubation in the presence of PEP-1 (2.0 mg/mL).

pH-Responsive Biocompatible Supramolecular Peptide Hydrogel.

Programming the organization of π-conjugated systems into nanostructures of defined dimensions is a requirement for the preparation of functional materials. Herein, we have achieved high-precision control over the self-assembly pathways and fiber length of an amphiphilic BODIPY dye in aqueous media by exploiting a programmable hydrogen bonding lock. The presence of a (2-hydroxyethyl)amide group in the target BODIPY enables different types of intra- vs. intermolecular hydrogen bonding, leading to a competition between kinetically controlled discoidal H-type aggregates and thermodynamically controlled 1D J-type fibers in water. The high stability of the kinetic state, which is dominated by the hydrophobic effect, is reflected in the slow transformation to the thermodynamic product (several weeks at room temperature). However, this lag time can be suppressed by the addition of seeds from the thermodynamic species, enabling us to obtain supramolecular polymers of tuneable length in water for multiple cycles.

https://www.onlinelibrary.wiley.com/doi/pdf/10.1002/anie.202012710

Pathway and Length Control of Supramolecular Polymers in Aqueous Media via a Hydrogen Bonding Lock

Solvent dependent pathway complexity and seeded supramolecular polymerization

This article discloses H-bonding driven supramolecular polymerization of a core-substituted naphthalene-diimide derivative NDI-1 which exhibits J-aggregation in all tested hydrocarbon solvents however spontaneous gelation was noticed only in linear alkanes in contrast to free flowing solution in their cyclic analogues. Mechanistic investigation by variable temperature UV/Vis studies and analyzing the data using an appropriate model(s) elucidate a highly cooperative self-assembly pathway in linear hydrocarbons (heptane, octane, nonane or decane) in sharp contrast to cyclohexane or methyl-cyclohexane in which an ill-defined polymerization was noticed. This is attributed to the direct participation of linear alkanes in nucleation process by favourable mixing with the peripheral alkyl chains of the NDI monomer which appears not to be the case for cyclic alkanes due to geometry mismatch. While all tested linear hydrocarbons induced nucleation-elongation growth, the thermodynamic parameters were found to depend on the chain length of the alkane. Morphology of the self-assembled polymer was strongly dependent on the growth mechanism as we noticed fibrillar network and short-length rods, respectively, in decane and methyl-cyclohexane. However in presence of small amount of additive (preformed fiber in decane) fibrillar structure was noticed also in MCH corroborating the self-assembly in solution which adopted a cooperative mechanism similar to linear alkanes.

Goutam Ghosh

Papers

Controlled supramolecular polymerization of π-systems.

pH-Responsive Biocompatible Supramolecular Peptide Hydrogel.

Pathway and Length Control of Supramolecular Polymers in Aqueous Media via a Hydrogen Bonding Lock

Solvent dependent pathway complexity and seeded supramolecular polymerization

Solvent Geometry Regulated Cooperative Supramolecular Polymerization.