Backbone Flexibility Research Articles

Synergistic effect of star‐shaped architecture and poly(ethylene glycol) moieties on poly(lactic acid) stereocomplex crystallization behaviors

AbstractStereocomplex (sc) crystal formation represents an important strategy to improve the physical properties of poly(lactic acid) (PLA), including enhanced thermal resistance, anti‐hydrolysis and mechanical performance. Therefore, understanding and controlling the sc crystallization behaviors is an important and widely studied research topic. Herein, we investigate the cooperative effect of star‐shaped PLA chain topology and poly(ethylene glycol) incorporation on sc formation. We synthesize a series of poly(lactides), including poly(l‐lactic acid) (PLLA), poly(d‐lactic acid), star‐shaped PLLA and poly(d‐lactic acid)‐poly(ethylene glycol)‐poly(d‐lactic acid) (DED) triblock copolymer, via ring‐opening polymerization of lactide, followed by solution blending to form PLA stereocomplexes (scPLAs). The chemical structure of the prepared scPLAs is characterized by Fourier transform infrared and nuclear magnetic resonance, whereas the crystallization behavior and spherulite morphology are investigated by wide‐angle X‐ray diffraction, DSC and polarized optical microscopy. Linear PLLA/star‐shaped poly(d‐lactic acid) presents rapid crystallization behaviors and high crystallinity due to the excellent nucleation ability of star‐shaped chain topology. For isothermal crystallization, star‐shaped PLLA/DED exhibits the fastest crystallization kinetics, the highest crystallinity and the lowest crystallization half‐time of all samples. It is found that addition of poly(ethylene glycol) segments can increase chain mobility and backbone flexibility, further facilitating the crystallization of scPLA containing star‐shaped chain architecture. These results demonstrate an effective approach to cooperatively promote scPLA formation, with potential use for practical applications. © 2022 Society of Industrial Chemistry.

Biomass-derived polyphosphazene toward simultaneously enhancing the flame retardancy and mechanical properties of epoxy resins

As one of the most widely used polymers, the intrinsic brittleness and high flammability bring about a stringent requirement for the practical application of epoxy resins (EPs). It is difficult to toughen EP without compromising its mechanical and thermal properties for many conventional toughening agents. Here, a novel furan-derived bio-based polyphosphazene (PFMP) with a flexible backbone and rigid side groups was prepared by the nucleophilic substitution reaction between polydichlorophosphazene (PDCP) and furfuralcohol. The resultant PFMP was incorporated into EP to realize exceptional toughening, strengthening, and flame retardant function. By adding 15% of PFMP, the limit oxygen index value is from 25% (EP) to 33% (EP/PFMP-15) and reaches the UL-94 V-0 rating. According to the cone calorimeter results, EP/PFMP-15 exhibits exceedingly reduced peak heat release rate (pHRR) (50.2%) and total heat release (THR) (49.6%). The significantly increased fire performance index (FPI) and decreased fire growth rate index (FIGRA) of EP/PFMP-15 demonstrate an improvement in its flame retardancy. The catalytic carbonization effect (condensed phase) and radical quenching effect (gas phase) of PFMP account for the greatly improved flame retardancy. Moreover, the impact and tensile tests indicate that PFMP can ameliorate the mechanical performance of EP with a maximum increase of impact strength (111.8%) and elongation at break (35.2%) for EP/PFMP-5. With 15% PFMP added, the tensile strength of EP/PFMP-15 increases by 40.4%. This work demonstrates that PFMP is expected to overcome shortcomings (flammability, toughness, and strength) of EP and spread its applied fields.

Gemdimethyl Peptide Nucleic Acids (α/β/γ-gdm-PNA): E/Z-Rotamers Influence the Selectivity in the Formation of Parallel/Antiparallel gdm-PNA:DNA/RNA Duplexes.

Peptide nucleic acids (PNAs) consist of an aminoethylglycine (aeg) backbone to which the nucleobases are linked through a tertiary amide group and bind to complementary DNA/RNA in a sequence-specific manner. The flexible aeg backbone has been the target for several chemical modifications of the PNA to improve its properties such as specificity, solubility, etc. PNA monomers exhibit a mixture of two rotamers (Z/E) arising from the restricted rotation around the tertiary amide N-CO bond. We have recently demonstrated that achiral gemdimethyl substitution at the α, β, and γ sites on the aeg backbone induces exclusive Z (α-gdm)- or E-rotamer (β-gdm) selectivity at the monomer level. It is now shown that γ/β-gdm-PNA:DNA parallel duplexes are more stable than the analogous antiparallel duplexes, while γ/β-gdm-PNA:RNA antiparallel duplexes are more stable than parallel duplexes. Furthermore, the γ/β-gdm-PNA:RNA duplexes are more stable than the γ/β-gdm-PNA:DNA duplexes. These results with γ/β-gdm-PNA are the reverse of those previously seen with α-gdm-PNA oligomers that stabilized antiparallel α-gdm-PNA:DNA duplexes compared to α-gdm-PNA:RNA duplexes. The stability of antiparallel/parallel PNA:DNA/RNA duplexes is correlated with the preference for Z/E-rotamer selectivity in α/β-gdm-PNA monomers, with Z-rotamers (α-gdm) leading to antiparallel duplexes and E-rotamers (β/γ-gdm) leading to parallel duplexes. The results highlight the role and importance of Z- and E-rotamers in controlling the structural preferences of PNA:DNA/RNA duplexes.

Adsorption of Peptides onto Carbon Nanotubes Grafted with Poly(ethylene Oxide) Chains: A Molecular Dynamics Simulation Study.

Carbon nanotubes (CNTs) display exceptional properties that predispose them to wide use in technological or biomedical applications. To remove the toxicity of CNTs and to protect them against undesired protein adsorption, coverage of the CNT sidewall with poly(ethylene oxide) (PEO) is often considered. However, controversial results on the antifouling effectiveness of PEO layers have been reported so far. In this work, the interactions of pristine CNT and CNT covered with the PEO chains at different grafting densities with polyglycine, polyserine, and polyvaline are studied using molecular dynamics simulations in vacuum, water, and saline environments. The peptides are adsorbed on CNT in all investigated systems; however, the adsorption strength is reduced in aqueous environments. Save for one case, addition of NaCl at a physiological concentration to water does not appreciably influence the adsorption and structure of the peptides or the grafted PEO layer. It turns out that the flexibility of the peptide backbone allows the peptide to adopt more asymmetric conformations which may be inserted deeper into the grafted PEO layer. Water molecules disrupt the internal hydrogen bonds in the peptides, as well as the hydrogen bonds formed between the peptides and the PEO chains.

Effects of membrane lipids on phospholamban pentameric channel structure and ion transportation mechanisms

Protein-lipid interactions are an essential element of the function of many membrane ion-channel proteins. These potential interactions should be considered alongside the diversity and complexity of membrane lipid composition. Phospholamban (PLN) is an inhibitor of sarcoplasmic reticulum Ca2+ ATPase (SERCA). PLN is a 52-residue transmembrane protein encoded by lncRNA, and PLN monomers form stable pentamers of biological function in a lipid bilayer membrane. Some earlier studies suggest that it can form a cationic selective channel, while others suggest that it can only store ions. Here, we report the distribution of different lipids in the membrane and the structural dynamics and conductance properties of PLN pentamers after coarse-grained (CG) and all-atom (AA) molecular dynamics simulations of different systems. The results show that cholesterol is highly enriched around the protein and stabilizes the structure of the PLN pentamer. The absence of cholesterol increases the flexibility of the protein backbone. The conductance properties of monovalent ions and water suggest that they cannot spontaneously permeate through the PLN pentamer channel pore. However, the energy barrier to overcome is much lower in the absence of cholesterol, underlining the need to fully consider multiple lipid species when investigating small transmembrane protein oligomer ion-channel structure and conductance.

A memetic algorithm enables efficient local and global all-atom protein-protein docking with backbone and side-chain flexibility

Protein complex formation is encoded by specific interactions at the atomic scale, but the computational cost of modeling proteins at this level often requires use of simplified energy models and limited conformational flexibility. In particular, use of all-atom energy functions and backbone and side-chain flexibility results in rugged energy landscapes that are difficult to explore. In this study, we develop a protein-protein docking algorithm, EvoDOCK, that combines the strength of a differential evolution algorithm for efficient exploration of the global search space with the benefits of a local optimization method to refine detailed atomic interactions. EvoDOCK enabled accurate and fast local and global protein-protein docking using an all-atom energy function with side-chain flexibility. Comparison with a standard method built on Monte Carlo optimization demonstrated improved accuracy and increases in computational speed of up to 35 times. The evolutionary algorithm also enabled efficient atomistic docking with backbone flexibility.

Synthesis and properties of cationic multiblock polyaramides and polyimides

AbstractPoly(diallyldimethylammonium chloride) (PDADMAC) is a useful material due to its high charge density and alkaline stability, but its hydrophilic nature limits applications to those where the dissolved polymer is appropriate. To make polymers suitable for applications as films and membranes containing the diallyldimethylammonium moiety, multiblock copolymers of polyaramides (PA) and polyimides (PI), materials known for their excellent physical properties and stabilities, were synthesized. Aminophenyl difunctionalized PDADMAC oligomers were synthesized using a disulfide iniferter then counterion exchanged to the hexafluorophosphate anion to produce telechelic oligomers with good solubility in polar aprotic solvents. The oligomers were reacted in situ with the proper difunctional monomers to produce PA, polyetheraramides, PI, and polyetherimides. All the classes of copolymers were synthesized over a range of compositions at high yield and material properties were demonstrated to be a result of both the backbone chemistry and the composition. Several of the synthesized copolymers formed films with good clarity, strength, and flexibility. The copolymers containing ether linkages had increased backbone flexibility and demonstrated better film‐forming properties. The multiblock copolyaramides and copolyimides demonstrate a method to produce materials with excellent thermal stability and good strength and flexibility, making them uniquely capable of serving as water insoluble, cationic films, and membranes.

A bi-stable soft robotic bendable module driven by silicone dielectric elastomer actuators: design, characterization, and parameter study

In this paper, we present a novel concept for a planar soft robotic module actuated by smart artificial muscles. The structure consists of a flexible backbone capable of continuously bending along a plane, and having a rigid plate connected to its top. The actuation is provided by an antagonist-agonist pair of artificial muscle fibers, consisting of silicone-based rolled dielectric elastomer actuator (RDEA) membranes connected to the rigid top plate. When actuated via high voltage, the RDEAs expand and, in turn, cause the structure to bend along a desired direction. The novel prototype concept is described in detail first, and systematic parameter studies are conducted afterwards by means of a physics-based model. Then, an experimental prototype is manufactured and tested, with the aim of validating the dependency of the bending angle performance on the system design parameters. We demonstrate that the bending angle is strongly affected by the choice of the flexible beam geometry, as well as the RDEAs mounting points. It is found that, for some combinations of parameters, the buckling instability of the beam can be suitably triggered by the RDEAs, resulting in large bending angles up to 25°. This feature also allows to keep the robot deformed without supplying any electric power. In contrast, parameters corresponding to mono-stable configurations result in a maximum bending angle of 11° only.

Synthesis of High Molecular Weight Polyethylene and E-MA Copolymers Using Iminopyridine Ni(II) and Pd(II) Complexes Containing a Flexible Backbone and Rigid Axial Substituents

Synthesis of High Molecular Weight Polyethylene and E-MA Copolymers Using Iminopyridine Ni(II) and Pd(II) Complexes Containing a Flexible Backbone and Rigid Axial Substituents

(Invited, Digital Presentation) Outstanding Contributions of Liquid Ammonia on III-V Semiconductors (Photo)-Electrochemistry

The control of the surface or interface chemistry is a key step for new industrial products with high added value. This is critical in the case of III-Vs for which it is still difficult to reach the exceptional performances that are predicted by the III-V’s physic. The III-V MOS have been singled out to be a future technology after silicon CMOS. However, the major difficulty lies in the surface or interface chemistry that is hardly controlled and often uncertain. So far, the surface engineering of III-Vs has not met the quality needed for high performances[1]. Thus for III-Vs like InP and related compounds, dry or wet treatments have been and still are explored. This research takes advantage of the remarkable properties of phosphazene (flexibility of the inorganic backbone, chemical stability...) to passivate III-V semiconductor surfaces. The strength and novelty are based on our capability to develop a polyphosphazene network controlled at the nanometric scale with good anchoring to the III-V lattice[2].This research concerns a fine-tuning of the surface at the nanometric scale allowing their potential use in III-V micro (opto)electronic. The tuning is based on a completely novel III-V surface chemistry inspired by the polyphosphazenes structures[3]. The innovation lies in a totally different (photo-electro)chemical engineering than the ones commonly used on III-Vs. Innovation also concerns the use of liquid ammonia (NH3 Liq.) as a solvent, it allows specific chemical processes on III-Vs, sheltered from water interaction, opening original routes for III-V surface treatment and advanced device fabrication processes. The use of NH3 Liq. is singular for the electronic industry but it is a classical industrial solvent and we claim that introduction of this novelty in the (opto)electronic industry would not be a limiting factor. Indeed NH3 Liq. as an efficient non-aqueous solvent provides ideal conditions for the treatment of semiconductor surface: the high purity (electronic grade quality) and the exclusion of residual active water molecules from the surface. This point is crucial since the formation of unsuitable oxide on the surface during the passivation process at the interface SC/liquid is therefore efficiently excluded. Often the uncontrolled development of superficial oxide seriously hampers the integration of III-Vs in the MOS sectors. In the case of InP semiconductors (for both types), our preliminary results have shown by XPS the electrochemical successful formation of a stable passivating “polyphosphazene like” ultra-thin film obtained by (photo)-electrochemistry in NH3 Liq. (Fig. 1 and 2). Using the phosphorus outers atoms of the InP lattice. As a consequence, the development of well-ordered polyphosphazene of surfaces is unique and very challenging. This research can offer appropriate surface structure design on passivated III-Vs. With this goal in mind, our preliminary results are promising. Indeed, ILV’s expertise in III-V treatments NH3 Liq. provides the formation of stable polyphosphazene on InP and GaP (Fig.3)[4]. Acknowledgements Continuation of this work will be supported by the French National Research Agency (ANR). [1] S.R. Morrisson, Electrochemistry at Semiconductor and Oxidized Metal Electrodes, Plenum Press, New York (1980). [2] A-M. Gonçalves, N. Mézailles, C. Mathieu, P. Le Floch, A. Etcheberry, Chem. Mat,. 22, (2010) 3114-3120. [3] H. R. Allcock, in Chemistry and Application of polyphosphazenes, (Eds: A. Willey and Sons), Willey-Interscience, USA (2003). [4] A-M Gonçalves, C. Njel, D. Aureau, A. Etcheberry. Appl Surf Sci 391 (2016) 44-48. Figure 1

Contribution of the 12-17 hydrophobic region of islet amyloid polypeptide in self-assembly and cytotoxicity.

The islet amyloid polypeptide (IAPP) is a 37-residue aggregation-prone peptide hormone whose deposition as insoluble fibrils in the islets of Langerhans is associated with type II diabetes. Therapeutic interventions targeting IAPP amyloidogenesis, which contributes to pancreatic β-cell degeneration, remain elusive owing to the lack of understanding of the self-assembly mechanisms and of the quaternary proteospecies mediating toxicity. While countless studies have investigated the contributions of the 20–29 amyloidogenic core in self-assembly, IAPP central region, i.e. positions 11 to 19, has been less studied, notwithstanding its potential key role in oligomerization. In this context, the present study aimed at investigating the physicochemical and conformational properties driving IAPP self-assembly and associated cytotoxicity. Computational tools and all-atom molecular dynamics simulation suggested that the hydrophobic 12–17 segment promotes IAPP self-recognition and aggregation. Alanine scanning revealed that the hydrophobic side chains of Leu12, Phe15 and Val17 are critical for amyloid fibril formation. Destabilization of the α-helical folding by Pro substitution enhanced self-assembly when the pyrrolidine ring was successively introduced at positions Ala13, Asn14 and Phe15, in comparison to respective Ala-substituted counterparts. Modulating the peptide backbone flexibility at position Leu16 through successive incorporation of Pro, Gly and α-methylalanine, inhibited amyloid formation and reduced cytotoxicity, while the isobutyl side chain of Leu16 was not critical for self-assembly and IAPP-mediated toxicity. These results highlight the importance of the 12–17 hydrophobic region of IAPP for self-recognition, ultimately supporting the development of therapeutic approaches to prevent oligomerization and/or fibrillization.

Cooperativity and fragility in furan-based polyesters with different glycolic subunits as compared to their terephthalic counterparts

This works aims to investigate the effect of the molecular groups found in polyester backbones (type of ring in the acidic subunit and length of the glycolic subunit) on the molecular dynamics. The investigation is done on three furan-based polyesters (PEF, PPF and PBF) as compared to their terephthalic counterparts (PET, PTT, and PBT) after full quenching from the molten state. The segmental molecular dynamics is investigated with MT-DSC, FSC and DRS. It is shown that the cooperativity decreases as the length of the glycolic subunit increases in both furan-based and terephthalic polyesters. No direct correlation between the fragility index and the cooperativity is observed in furan-based polyesters containing glycolic subunits of different lengths. The differences in the isochoric fragilities obtained for the furan-based polyesters and their terephthalic counterparts has been assumed to result from the combination of backbone flexibility and packing efficiency of the macromolecular chains in the amorphous phase.

Rotavirus RNA chaperone mediates global transcriptome-wide increase in RNA backbone flexibility.

Due to genome segmentation, rotaviruses must co-package eleven distinct genomic RNAs. The packaging is mediated by virus-encoded RNA chaperones, such as the rotavirus NSP2 protein. While the activities of distinct RNA chaperones are well studied on smaller RNAs, little is known about their global effect on the entire viral transcriptome. Here, we used Selective 2′-hydroxyl Acylation Analyzed by Primer Extension and Mutational Profiling (SHAPE-MaP) to examine the secondary structure of the rotavirus transcriptome in the presence of increasing amounts of NSP2. SHAPE-MaP data reveals that despite the well-documented helix-unwinding activity of NSP2 in vitro, its incubation with cognate rotavirus transcripts does not induce a significant change in the SHAPE reactivities. However, a quantitative analysis of mutation rates measured by mutational profiling reveals a global 5-fold rate increase in the presence of NSP2. We demonstrate that the normalization procedure used in deriving SHAPE reactivities from mutation rates can mask an important global effect of an RNA chaperone. Analysis of the mutation rates reveals a larger effect on stems rather than loops. Together, these data provide the first experimentally derived secondary structure model of the rotavirus transcriptome and reveal that NSP2 acts by globally increasing RNA backbone flexibility in a concentration-dependent manner.

Design, synthesis, spectroscopic characterizations, antidiabetic, in silico and kinetic evaluation of novel curcumin-fused aldohexoses

Curcumin (bis-α,β-unsaturated β-diketone) plays an important role in the prevention of numerous diseases, including diabetes. Curcumin, as an enzyme inhibitor, has ideal structural properties including hydrophobic nature, flexible backbone, and several available hydrogen bond (H-bond) donors and acceptors. In this study, curcumin-fused aldohexose derivatives 3(a-c) were synthesized and used as influential agents in the treatment of diabetes with inhibitory properties against two carbohydrate-hydrolyzing enzymes α-glucosidase (α-Gls) and α-amylase (α-Amy) which are known to be significant therapeutic targets for the reduction of postprandial hyperglycemia. These compounds were isolated, purified, and then spectrally characterized via FT-IR, Mass, 1H, and 13C NMR, which strongly confirmed the targeted product's formation. Also, their inhibitory properties against α-Gls and α-Amy were evaluated spectroscopically. The Results indicated that all compounds strongly inhibited α-Amy and α-Gls by mixed and competitive mechanisms, respectively. The intrinsic fluorescence of α-Amy was quenched by the interaction with compounds 1 and 3b through a dynamic quenching mechanism, and the 1 and 3b/α-Amy complexes were spontaneously formed, mainly driven by the hydrophobic interaction and hydrogen bonding. Fourier transform infrared spectra (FT-IR) comprehensively verified that the binding of compounds 1 and 3b to α-Amy would change the conformation and microenvironment of α-Amy, thereby inhibiting the enzyme activity. Docking and molecular dynamics (MD) simulations showed that all compounds interacted with amino acid residues located in the active pocket site of the proteins. In vivo studies confirmed the plasma glucose diminution after the administration of compound 3b to Wistar rats. Accordingly, the results of the current work may prompt the scientific communities to investigate the possibility of compound 3b application in the clinic.

Antibody Recognition of Different Staphylococcus aureus Wall Teichoic Acid Glycoforms.

Wall teichoic acids (WTAs) are glycopolymers decorating the surface of Gram-positive bacteria and potential targets for antibody-mediated treatments against Staphylococcus aureus, including methicillin-resistant (MRSA) strains. Through a combination of glycan microarray, synthetic chemistry, crystallography, NMR, and computational studies, we unraveled the molecular and structural details of fully defined synthetic WTA fragments recognized by previously described monoclonal antibodies (mAbs 4461 and 4497). Our results unveiled the structural requirements for the discriminatory recognition of α- and β-GlcNAc-modified WTA glycoforms by the complementarity-determining regions (CDRs) of the heavy and light chains of the mAbs. Both mAbs interacted not only with the sugar moiety but also with the phosphate groups as well as residues in the ribitol phosphate (RboP) units of the WTA backbone, highlighting their significant role in ligand specificity. Using elongated WTA fragments, containing two sugar modifications, we also demonstrated that the internal carbohydrate moiety of α-GlcNAc-modified WTA is preferentially accommodated in the binding pocket of mAb 4461 with respect to the terminal moiety. Our results also explained the recently documented cross-reactivity of mAb 4497 for β-1,3/β-1,4-GlcNAc-modified WTA, revealing that the flexibility of the RboP backbone is crucial to allow positioning of both glycans in the antibody binding pocket.

Evolution of Stronger SARS-CoV-2 Variants as Revealed Through the Lens of Molecular Dynamics Simulations.

Using molecular dynamics simulations, the protein–protein interactions of the receptor-binding domain of the wild-type and seven variants of the severe acute respiratory syndrome coronavirus 2 spike protein and the peptidase domain of human angiotensin-converting enzyme 2 were investigated. These variants are alpha, beta, gamma, delta, eta, kappa, and omicron. Using 100 ns simulation data, the residue interaction networks at the protein–protein interface were identified. Also, the impact of mutations on essential protein dynamics, backbone flexibility, and interaction energy of the simulated protein–protein complexes were studied. The protein–protein interface for the wild-type, delta, and omicron variants contained several stronger interactions, while the alpha, beta, gamma, eta, and kappa variants exhibited an opposite scenario as evident from the analysis of the inter-residue interaction distances and pair-wise interaction energies. The study reveals that two distinct residue networks at the central and right contact regions forge stronger binding affinity between the protein partners. The study provides a molecular-level insight into how enhanced transmissibility and infectivity by delta and omicron variants are most likely tied to a handful of interacting residues at the binding interface, which could potentially be utilized for future antibody constructs and structure-based antiviral drug design. Supplementary InformationThe online version contains supplementary material available at 10.1007/s10930-022-10065-6.

Impact of the Dicarboxylic Acid Chain Length on Intermolecular Interactions with Lidocaine

Acid–base multicomponent systems have become a popular choice as a strategy to fine-tune the physicochemical properties of active pharmaceutical ingredients. Current prediction tools based on the principles of anticrystal engineering cannot always accurately predict the nature of intermolecular interactions within a multicomponent system. Even small changes in the physicochemical parameters of parent components can result in unexpected outcomes, and many salt, cocrystal, and ionic liquid forms are still being discovered empirically. In this work, we aimed to establish structural consistency in a series of mixtures comprising lidocaine (LID) with decanedioic, undecanedioic, dodecanedioic, and tridecanedioic acids and to explore how length and flexibility of the acid carbon backbone affect the molecular recognition, crystallization, and thermal behavior of the expected binary systems. We found that neat grinding of LID with dicarboxylic acids results in the formation of eutectic phases. The observed eutectic melting points deviated from the ideal eutectic temperatures predicted by the Schroeder van Laar model because of hydrogen bonding between the reacting components within the mixtures. Furthermore, thermal and infrared analysis provided evidence for the possible formation of new phases stemming from partial ionization of the counterions. Besides, the structure of a previously undetermined form I of the tridecanedioic acid was solved by single crystal X-ray diffraction.

O-Glycan-Dependent Interaction between MUC1 Glycopeptide and MY.1E12 Antibody by NMR, Molecular Dynamics and Docking Simulations.

Anti-mucin1 (MUC1) antibodies have been widely used for breast cancer diagnosis and treatment. This is based on the fact that MUC1 undergoes aberrant glycosylation upon cancer progression, and anti-MUC1 antibodies differentiate changes in glycan structure. MY.1E12 is a promising anti-MUC1 antibody with a distinct specificity toward MUC1 modified with an immature O-glycan (NeuAcα(2-3)Galβ(1-3)GalNAc) on a specific Thr. However, the structural basis for the interaction between MY.1E12 and MUC1 remains unclear. The aim of this study is to elucidate the mode of interaction between MY.1E12 and MUC1 O-glycopeptide by NMR, molecular dynamics (MD) and docking simulations. NMR titration using MUC1 O-glycopeptides suggests that the epitope is located within the O-linked glycan and near the O-glycosylation site. MD simulations of MUC1 glycopeptide showed that the O-glycosylation significantly limits the flexibility of the peptide backbone and side chain of the O-glycosylated Thr. Docking simulations using modeled MY.1E12 Fv and MUC1 O-glycopeptide, suggest that VH mainly contributes to the recognition of the MUC1 peptide portion while VL mainly binds to the O-glycan part. The VH/VL-shared recognition mode of this antibody may be used as a template for the rational design and development of anti-glycopeptide antibodies.

Bulky oxadithiolate-bridged [FeFe]‑hydrogenase mimics [Fe2(μ-R2odt)(CO)4(κ2-diphosphine)] (R = Ph and H) with chelating diphosphines

In order to develop an attractive generation of bulky oxadithiolate-bridged [FeFe]‑hydrogenase mimics with chelating diphosphines, two new series of asymmetrically diphosphine-substituted diiron model complexes [Fe2(μ-R2odt)(CO)4(κ2-diphosphine)] (3–5) with bulky Ph2odt bridge and their reference counterparts (6–8) with common odt bridge were obtained from the Me3NO-assisted substitutions of diiron hexacarbonyl precursors [Fe2(μ-R2odt)(CO)6] (R2odt = (SCHR)2O, R = Ph (1) and H (2)) with different diphosphines such as (Ph2P)2NBn (labelled PNBnP, Bn = benzyl), (Ph2PCH2)2NBn (PCNBnCP), and (Ph2PCH2)2CH2 (DPPP)), respectively. All the as-prepared complexes have been characterized by elemental analysis, IR plus NMR spectroscopies, and particularly by X-ray crystallography for 3–8. It is interesting to note that complexes 3 and 6 chelating by small bite-angle PNBnP diphosphine have the favorable dibasal isomer whereas analogues 4, 5 and 7, 8 chelating by flexible backbone PCNBnCP or DPPP ligands possess the main apical-basal isomer in solution or in the solid state. Further, the electrochemical properties of two pairs of representative complexes 3, 6 and 5, 8 are explored and compared by cyclic voltammetry (CV) in the absence and presence of trifluoroacetic acid (CF3CO2H) as proton source, indicating that the complete protonations of 3, 6 and 5, 8 with higher concentration of CF3CO2H lead to two new catalytic waves for the electrocatalytic proton reduction to hydrogen (H2).

Development of Continuum Robot Arm and Gripper for Harvesting Cherry Tomatoes

Smart farming technology is becoming of the actual topics in the modern world of technology. Contemporary farming technology expands robot applications by using AI for the recognition of variable patterns. Moreover, the agriculture field demands a safety robot, due to the fragile surrounded confined space and it must be adaptable to extremely constrained working environments. Therefore, this research paper presents a novel tomato harvesting robot arm based on a continuum robot structure. The proposed continuum robot arm flexible backbone structure provides safety and efficient work in a confined workspace. This research paper consists of three parts: the first part of the paper contains the robot design and the newly designed tomato harvesting gripper tool. The second part of the paper describes the machine learning part for detecting matured tomatoes and the distance measuring technique with a single camera. The third part of the research paper explains robot kinematics and control algorithms. The final part of the research paper explains the experimental results. As a result of the conducted experiment, the tomato harvesting speed of the proposed robot was 56 s for a single tomato. Meanwhile, the tomato recognition accuracy was 96 percent.