Scanning Probe Microscopy Characterization of Biomolecules enabled by Mass-Selective, Soft-landing Electrospray Ion Beam Deposition.

Scanning probe microscopy (SPM), in particular at low temperature (LT) under ultra-high vacuum (UHV) conditions, offers the possibility of real-space imaging with resolution reaching the atomic level. However, its potential for the analysis of complex biological molecules has been hampered by requirements imposed by sample preparation. Transferring molecules onto surfaces in UHV is typically accomplished by thermal sublimation in vacuum. This approach however is limited by the thermal stability of the molecules, i.e. not possible for biological molecules with low vapour pressure. Bypassing this limitation, electrospray ionisation offers an alternative method to transfer molecules from solution to the gas-phase as intact molecular ions. In soft-landing electrospray ion beam deposition (ESIBD), these molecular ions are subsequently mass-selected and gently landed on surfaces which permits large and thermally fragile molecules to be analyzed by LT-UHV SPM. In this concept, we discuss how ESIBD+SPM prepares samples of complex biological molecules at a surface, offering controls of the molecular structural integrity, three-dimensional shape, and purity. These achievements unlock the analytical potential of SPM which is showcased by imaging proteins, peptides, DNA, glycans, and conjugates of these molecules, revealing details of their connectivity, conformation, and interaction that could not be accessed by any other technique.

Visualizing Chiral Interactions in Carbohydrates Adsorbed on Au(111) by High-Resolution STM Imaging.

Carbohydrates are the most abundant organic material on Earth and the structural "material of choice" in many living systems. Nevertheless, design and engineering of synthetic carbohydrate materials presently lag behind that for protein and nucleic acids. Bottom-up engineering of carbohydrate materials demands an atomic-level understanding of their molecular structures and interactions in condensed phases. Here, high-resolution scanning tunneling microscopy (STM) is used to visualize at submolecular resolution the three-dimensional structure of cellulose oligomers assembled on Au(1111) and the interactions that drive their assembly. The STM imaging, supported by ab initio calculations, reveals the orientation of all glycosidic bonds and pyranose rings in the oligomers, as well as details of intermolecular interactions between the oligomers. By comparing the assembly of D- and L-oligomers, these interactions are shown to be enantioselective, capable of driving spontaneous enantioseparation of cellulose chains from its unnatural enantiomer and promoting the formation of engineered carbohydrate assemblies in the condensed phases.

Covalent transfer of chemical gradients onto a graphenic surface with 2D and 3D control.

Control over the functionalization of graphenic materials is key to enable their full application in electronic and optical technologies. Covalent functionalization strategies have been proposed as an approach to tailor the interfaces' structure and properties. However, to date, none of the proposed methods allow for a covalent functionalization with control over the grafting density, layer thickness and/or morphology, which are key aspects for fine-tuning the processability and performance of graphenic materials. Here, we show that the no-slip boundary condition at the walls of a continuous flow microfluidic device offers a way to generate controlled chemical gradients onto a graphenic material with 2D and 3D control, a possibility that will allow the sophisticated functionalization of these technologically-relevant materials.

Grafting Ink for Direct Writing: Solvation Activated Covalent Functionalization of Graphene.

Covalent functionalization of graphene (CFG) has shown attractive advantages in tuning the electronic, mechanical, optical, and thermal properties of graphene. However, facile, large-scale, controllable, and highly efficient CFG remains challenging and often involves highly reactive and volatile compounds, requiring complex control of the reaction conditions. Here, a diazonium-based grafting ink consisting of only two components, i.e., an aryl diazonium salt and the solvent dimethyl sulfoxide (DMSO) is presented. The efficient functionalization is attributed to the combination of the solvation of the diazonium cations by DMSO and n-doping of graphene by DMSO, thereby promoting electron transfer (ET) from graphene to the diazonium cations, resulting in the generation of aryl radicals which subsequently react with the graphene. The grafting density of CFG is controlled by the reaction time and very high levels of functionalization, up to the failing of the Tuinstra-Koenig (T-K) relation, while the functionalization layer remains at monolayer height. The grafting ink, effective for days at room temperature, can be used at ambient conditions and renders the patterning CFG by direct writing as easy as writing on paper. In combination with thermal sample treatment, reversible functionalization is possible by subsequent writing/erasing cycles.

Detection and Stabilization of a Previously Unknown Two-Dimensional (Pseudo)polymorph using Lateral Nanoconfinement.

We report on the detection and stabilization of a previously unknown two-dimensional (2D) pseudopolymorph of an alkoxy isophthalic acid using lateral nanoconfinement. The self-assembled molecular networks formed by the isophthalic acid derivative were studied at the interface between covalently modified graphite and an organic solvent. When self-assembled on graphite with moderate surface coverage of covalently bound aryl groups, a previously unknown metastable pseudopolymorph was detected. This pseudopolymorph, which was presumably "trapped" in between the surface bound aryl groups, underwent a time-dependent phase transition to the stable polymorph typically observed on pristine graphite. The stabilization of the pseudopolymorph was then achieved by using an alternative nanoconfinement strategy, where the domains of the pseudopolymorph could be formed and stabilized by restricting the self-assembly in nanometer-sized shallow compartments produced by STM-based nanolithography carried out on a graphite surface with a high density of covalently bound aryl groups. These experimental results are supported by molecular mechanics and molecular dynamics simulations, which not only provide important insight into the relative stabilities of the different structures, but also shed light onto the mechanism of the formation and stabilization of the pseudopolymorph under nanoscopic lateral confinement.

Chirality from scratch: enantioselective adsorption in geometrically controlled lateral nanoconfinement.

Chiral symmetry breaking in molecular adsorption at the solid/liquid interface by lateral geometric nanoconfinement is demonstrated. The chiral nanoconfinement is created at the interface of achiral covalently modified highly-oriented pyrolytic graphite and a racemate by in situ scanning probe lithography. Enantioselective adsorption of chiral molecules is achieved by adjusting the relative orientation between the nanoconfining walls and substrate symmetry direction.

Iodide mediated reductive decomposition of diazonium salts: towards mild and efficient covalent functionalization of surface-supported graphene.

Covalent functionalization of graphene is highly sought after, not only in view of the potential applications of the chemically modified material, but also because it brings fundamental insight into the chemistry of graphene. Thus, strategies that yield chemically modified graphene with densely grafted films of aryl groups via simple experimental protocols have been the focus of intense research. Here we report a mild, straightforward and efficient approach to graphene/graphite functionalization using iodide mediated reductive dediazoniation of aryldiazonium salts. The experimental protocol employs aqueous solutions of the reagents. The reaction proceeds rapidly at room temperature without the need of any environmental or electrochemical control. The covalently modified surfaces were characterized at the nanometer scale using a combination of complementary surface analytical techniques. The degree of covalent functionalization, and the morphology, as well as the thickness of the grafted films were studied at the molecular level using Raman spectroscopy and scanning probe microscopy, respectively. Furthermore, solution phase UV-Vis spectroscopy was employed to understand the mechanistic aspects. This work demonstrates a facile and scalable covalent modification method compatible for both bulk and monolayer functionalization of graphene.

Double layer crystallization of heptahelicene on noble metal surfaces.

Resolution of enantiomers of chiral compounds via crystallization is the dominant method in chemical industry, but chiral recognition at the molecular level during this process is still poorly understood. Using single metal surfaces in ultrahigh vacuum as model system, the enantio-related transition from the monolayer structure into a double layer of the racemic mixture of heptahelicene has been studied with scanning tunneling microscopy. Submolecular resolution reveals enantiopure second layers on Ag(111) and almost enantiopure second layers on Au(111). In analogy to previous results on Cu(111), it is concluded that transition from the 2D first layer racemate into a layered racemate occurs.

Preferred Formation of Minority Concomitant Polymorphs in 2D Self-Assembly under Lateral Nanoconfinement.

Control over polymorph formation in the crystallization of organic molecules remains a huge scientific challenge. Now, preferential formation is presented of one polymorph, formed by chiral molecules, in controlled two-dimensional (2D) nanoconfinement conditions at a liquid-solid interface. So-called nanocorrals to control concomitant polymorph formation were created in situ via a nanoshaving protocol at the interface between 1-phenyloctane and covalently modified highly-oriented pyrolytic graphite (HOPG). The preferentially formed polymorphs, which were less stable in the large-scale monolayers, could be selected simply by varying the orientation of the square nanocorrals with respect to the HOPG lattice.

Biasing Enantiomorph Formation via Geometric Confinement: Nanocorrals for Chiral Induction at the Liquid-Solid Interface.

Nanocorrals created by scanning probe lithography on covalently modified graphite surfaces are used to induce a chiral bias in the enantiomorphic assembly of a prochiral molecule at the liquid/graphite interface. By controlling the orientation of the nanocorrals with respect to the underlying graphite surface, the nanocorral handedness can be freely chosen and thus a chiral bias in molecular self-assembly is created at an achiral surface solely by the scanning probe lithography process.

Diastereoselective self-assembly of bisheptahelicene on Cu(111).

Stereochemical effects during two-dimensional crystallization of bisheptahelicene diastereomers on a Cu(111) surface have been studied with scanning tunnelling microscopy. The (M,M)- and (P,P)-enantiomers crystallize into a monolayer racemate lattice, whereas the (M,P)-diastereomers aggregate into their own monolayer phase.

Chirality-Dependent Electron Spin Filtering by Molecular Monolayers of Helicenes.

The interaction of low-energy photoelectrons with well-ordered monolayers of enantiopure helical heptahelicene molecules adsorbed on metal surfaces leads to a preferential transmission of one longitudinally polarized spin component, which is strongly coupled to the helical sense of the molecules. Heptahelicene, composed of only carbon and hydrogen atoms, exhibits only a single helical turn but shows excess in longitudinal spin polarization of about P Z = 6 to 8% after transmission of initially balanced left- and right-handed spin polarized electrons. Insight into the electronic structure, that is, the projected density of states, and the spin-dependent electron scattering in the helicene molecule is gained by using spin-resolved density functional theory calculations and a model Hamiltonian approach, respectively. Our results support the semiclassical picture of electronic transport along a helical pathway under the influence of spin-orbit coupling induced by the electrostatic molecular potential.

Hierarchical self-assembly of enantiopure and racemic helicenes at the liquid/solid interface: from 2D to 3D.

The performance of organic nanostructures is closely related to the organization of the functional molecules. Frequently, molecular chirality plays a central role in the way molecules assemble at the supramolecular level. Herein we report the hierarchical self-assembly of benzo-fused tetrathia[7]helicenes on solid surfaces, from a single surface-bound molecule to well-defined microstructures, using a combination of various characterization techniques assisted by molecular modeling simulations. Similarities as well as discrepancies are revealed between homochiral and heterochiral aggregations by monitoring the hierarchical nucleation of helicenes on surfaces, where the impact of enantiopurity, concentration and adsorbate-substrate interaction on molecular organization are disclosed.

Heterochiral to Homochiral Transition in Pentahelicene 2D Crystallization Induced by Second-Layer Nucleation.

Gaining insight into molecular recognition at the molecular level, in particular, during nucleation of crystallites, is challenging and calls for studying well-defined model systems. Investigated by means of submolecular resolution scanning tunneling microscopy and theoretical molecular modeling, we report chiral recognition phenomena in the 2D crystallization of the helical chiral aromatic hydrocarbon pentahelicene on a Cu(111) surface. Homochiral, van der Waals bonded dimers constitute building blocks for self-assembly but form heterochiral as well as homochiral long-range-ordered structures. 2D racemate crystals, built up by homochiral dimers of both enantiomers, are observed at coverages close to a full monolayer. As soon as the coverage leads to second-layer nucleation, the dense racemate phase in the first layer disappears and a homochiral dimer conglomerate phase of lower 2D density appears. Our results show that, at the onset of second-layer nucleation, a local change of enantiomeric composition in the first layer occurs, causing the transition from a 2D racemate to a 2D conglomerate.

Pasteur's Experiment Performed at the Nanoscale: Manual Separation of Chiral Molecules, One by One.

Understanding the principles of molecular recognition is a difficult task and calls for investigation of appropriate model systems. Using the manipulation capabilities of scanning tunneling microscopy (STM) we analyzed the chiral recognition in self-assembled dimers of helical hydrocarbons at the single molecule level. After manual separation of the two molecules of a dimer with a molecule-terminated STM tip on a Cu(111) surface, their handedness was subsequently determined with a metal atom-terminated tip. We find that these molecules strongly prefer to form heterochiral pairs. Our study shows that single molecule manipulation is a valuable tool to understand intermolecular recognition at surfaces.

From Homochiral Clusters to Racemate Crystals: Viable Nuclei in 2D Chiral Crystallization.

The quest for enantiopure compounds raises the question of which factors favor conglomerate crystallization over racemate crystallization. Studying nucleation and crystal growth at surfaces with submolecular-resolution scanning tunneling microscopy is a suitable approach to better understand intermolecular chiral recognition. Racemic heptahelicene on the Ag(100) surface shows a transition from homochiral nuclei to larger racemic motifs, although the extended homochiral phase exhibits higher density. The homochiral-heterochiral transition is explained by the higher stability of growing nuclei due to a better match of the molecular lattice to the substrate surface. Our observations are direct visual proof of viable nuclei.

2D conglomerate crystallization of heptahelicene.

Two-dimensional (2D) nucleation and crystallization of the helical aromatic hydrocarbon heptahelicene on the single crystalline copper(100) surface has been studied with scanning tunnelling microscopy. In contrast to previously observed racemic 2D crystals on Cu(111), separation into homochiral domains is observed for Cu(100).

Chiral conflict among different helicenes suppresses formation of one enantiomorph in 2D crystallization.

Diastereomeric interactions in 2D crystals formed at solid surfaces serve as excellent models for understanding molecular recognition in biomineralization. Adsorption of a pentahelicene racemate on a Au(111) surface leads to 2D conglomerate crystallization, i.e., homochiral mirror domains, as observed by scanning tunneling microscopy. Upon mixing 26% of (M)-heptahelicene into the racemate monolayer, only the (M)-pentahelicene enantiomorph is observed. This effect is explained by a preferred heterochiral interaction between the different helicene species, suppressing the formation of the pure (P)-pentahelicene enantiomorph. These results shine new light onto stereoselective molecular recognition mediated by van der Waals forces.