Precise Generation of Selective Surface-Confined Glycoprotein Recognition Sites

Functional thiolactone assisted imprinting cavities with abundant amines for strong binding of protein imprinted nanospheres

In order to develop new protein imprinting polymerization methods and to prepare protein imprinted nanomaterials with high recognition, a novel protein imprinted strategy is developed in this study by using polyethyleneimine (PEI) for aminolysis of tailor-made thiolactone-based functional monomers and crosslinkers on amine-modified magnetic nanospheres in an aqueous medium. The prepared protein imprinted nanospheres can seize BSA templates in the imprinting polymerization process through multiple hydrogen bonds, and hydrophobic and electrostatic interactions. In addition, the aminolysis reaction also generates abundant amide bonds in the imprinting polymer network, which not only enhances the hydrogen bonding interactions between the imprinted nanospheres and BSA but also improves the stability of the imprinting cavities by increasing the rigidity of the polymer chains. Based on the above advantages, the protein imprinted nanospheres show excellent rebinding specificity for BSA, for which the rebinding capacity is up to 505 ± 15 mg g^-1 and the imprinting factor is 4.09. The protein imprinted nanospheres exhibit fast adsorption kinetics, outstanding reusability, and can selectively separate BSA from a protein mixture and actual biological samples. The generality of this imprinted method is also verified. Thus, this study will provide a new idea for the design of protein imprinted materials with high recognition.

Binding of Proteins to Copolymers of Varying Charges and Hydrophobicity: A Molecular Mechanism and Computational Strategies

Because of their ability to selectively bind to a target protein, copolymer nanoparticles (NPs) containing a selected combination of hydrophobic and charged groups have been frequently reported as potent antibody-like analogues. However, due to the intrinsic disorder of the copolymer NP in terms of its random monomer sequence and the cross-linked copolymer matrix, the copolymer NP is indeed strikingly different from a well-folded protein antibody and the complexation between the copolymer NP and a target protein is likely not due to a lock-key type of interaction but possibly due to a novel and unexplored molecular mechanism. Here, we study a key biomarker protein, vimentin, interacting with a set of random copolymer chains using implicit-water explicit-ion coarse-grained (CG) molecular dynamics (MD) simulations along with biolayer interferometry (BLI) analysis. Due to the charge and hydrophobicity anisotropy on the vimentin dimer (VD) surface, a set of bound copolymers are found inhomogenously adsorbed on the VD, with energetic heterogeneity for different binding sites and cooperative effect in the adsorption. Increasing the charge or hydrophobicity of the copolymer may have different consequences on the adsorption. In this study, we found that with more copolymer charges, the protein coverage increases for copolymers of low hydrophobicity and decreases of high hydrophobicity, which is explained by the distribution and size of various functional patches on the VD in loading those copolymers. Employing a coverage-dependent Langmuir model, we propose a simulation protocol to address the full profile of the copolymer binding free energy through the fit to the simulated binding isotherm. The obtained results correlate well with those from the BLI experiment, indicating the significance of this method for the rational design of the copolymer NP with engineered protein binding affinity.

Optimization of Nanosubstrates toward Molecularly Surface-Functionalized Raman Spectroscopy

Diagnostic advancements require continuous developments of reliable analytical sensors, which can simultaneously fulfill many criteria, including high sensitivity and specificity for a broad range of target analytes. Incorporating the highly sensitive attributes of surface-enhanced Raman spectroscopy (SERS) combined with highly specific analyte recognition capabilities via molecular surface functionalization could address major challenges in molecular diagnostics and analytical spectroscopy fields. Herein, we have established a controllable molecular surface functionalization process for a series of textured gold surfaces. To create the molecularly surface-functionalized SERS platforms, self-assembled benzyl-terminated and benzoboroxole-terminated monolayers were used to compare which thicknesses and root-mean-square (RMS) roughness of planar gold produced the most sensitive and specific surfaces. Optimal functionalization was identified at 80 ± 8 nm thickness and 7.2 ± 1.0 nm RMS. These exhibited a considerably higher SERS signal (70-fold) and improved sensitivity for polysaccharides when analyzed using principal component analysis (PCA) and self-organizing maps (SOM). These findings lay the procedure for establishing the optimal substrate specifications as an essential prerequisite for future studies aiming at developing the feasibility of molecular imprinting for SERS diagnostic applications and the subsequent delivery of advanced, highly selective, and sensitive sensing devices and analytical platforms.

Preparation of a boronate affinity-functionalized metal–organic framework material for selective recognition and separation of glycoproteins at physiological pH

A boronate affinity functionalized metal–organic framework material was successfully prepared for the efficient and selective extraction of OVA glycoprotein from egg white samples and protein powder.

PCage: Fluorescent Molecular Temples for Binding Sugars in Water

The development of synthetic receptors that recognize carbohydrates in water with high selectivity and specificity is challenging on account of their structural complexity and strong hydrophilicity. Here, we report on the design and synthesis of two pyrene-based, temple-shaped receptors for the recognition of a range of common sugars in water. These receptors rely on the use of two parallel pyrene panels, which serve as roofs and floors, capable of forming multiple [C-H···π] interactions with the axially oriented C-H bonds on glycopyranosyl rings in the carbohydrate-based substrates. In addition, eight polarized pyridinium C-H bonds, projecting from the roofs and floors of the temple receptors toward the binding cavities, form [C-H···O] hydrogen bonds, with the equatorially oriented OH groups on the sugars located inside the hydrophobic cavities. Four para-xylylene pillars play a crucial role in controlling the distance between the roof and floor. These temple receptors are highly selective for the binding of glucose and its derivatives. Furthermore, they show enhanced fluorescence upon binding with glucose in water, a property which is useful for glucose-sensing in aqueous solution.

Molecular Boronic Acid-Based Saccharide Sensors

Boronic acids can reversibly bind diols, a molecular feature that is ubiquitous within saccharides, leading to their use in the design and implementation of sensors for numerous saccharide species. There is a growing understanding of the importance of saccharides in many biological processes and systems; while saccharide or carbohydrate sensing in medicine is most often associated with detection of glucose in diabetes patients, saccharides have proven to be relevant in a range of disease states. Herein the relevance of carbohydrate sensing for biomedical applications is explored, and this review seeks to outline how the complexity of saccharides presents a challenge for the development of selective sensors and describes efforts that have been made to understand the underpinning fluorescence and binding mechanisms of these systems, before outlining examples of how researchers have used this knowledge to develop ever more selective receptors.

Combinatorial entropy behaviour leads to range selective binding in ligand-receptor interactions

From viruses to nanoparticles, constructs functionalized with multiple ligands display peculiar binding properties that only arise from multivalent effects. Using statistical mechanical modelling, we describe here how multivalency can be exploited to achieve what we dub range selectivity, that is, binding only to targets bearing a number of receptors within a specified range. We use our model to characterise the region in parameter space where one can expect range selective targeting to occur, and provide experimental support for this phenomenon. Overall, range selectivity represents a potential path to increase the targeting selectivity of multivalent constructs.

The challenges of glycan recognition with natural and artificial receptors

Glycans - simple or complex carbohydrates - play key roles as recognition determinants and modulators of numerous physiological and pathological processes. Thus, many biotechnological, diagnostic and therapeutic opportunities abound for molecular recognition entities that can bind glycans with high selectivity and affinity. This review begins with an overview of the current biologically and synthetically derived glycan-binding scaffolds that include antibodies, lectins, aptamers and boronic acid-based entities. It is followed by a more detailed discussion on various aspects of their generation, structure and recognition properties. It serves as the basis for highlighting recent key developments and technical challenges that must be overcome in order to fully deal with the specific recognition of a highly diverse and complex range of glycan structures.