Atomic structure of highly ordered pyrolytic graphite doped with boron

Boron-doped carbon was prepared by the high-temperature reaction of B₂O₃ with the highly ordered pyrolytic graphite (HOPG). In order to reveal the effect of the boron doping on the HOPG structure, several experimental tools were employed such as X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD), scanning tunneling microscopy (STM), and atomic force microscopy (AFM). While the interlayer spacing of the graphite plane remains virtually unchanged, the boron doping makes the graphite plane of HOPG more disordered. Both the STM and the AFM studies show that the boron-doped HOPG surface is deformed not only in its bonding geometry, but also in its electronic structure. The overall results imply that the boron atom is substituted for the carbon atom rather than is intercalated into the graphite layers.     

Immobilization of metallothionein on highly oriented pyrolytic graphite for biosensor design

Immobilization of protein molecules on solid supports or surfaces in a controlled fashion is an important task for protein analysis at the solid/solution or solid/gas interface and biosensor fabrication. In this paper, the structure and biological activities of metallothionein (MT) layers immobilized on highly oriented pyrolytic graphite (HOPG) surfaces by means of two different strategies based on unspecific adsorption/chemisorption (MT‐HOPG system) and covalent binding (MT‐modified HOPG system) were studied respectively. The MT layers obtained by covalent binding to a previously functionalized HOPG surface are smooth and show a close‐packed ordered monolayer in contrast to those obtained by direct adsorption of the protein on substrate, which are disordered and relatively rough. Both adsorbed proteins exhibit reversible electron transfer at 0.25 V (Ag/AgCl) after immersion in CuSO₄ solution, whereas redox current of MT‐modified HOPG system is four times larger than that of MT‐HOPG system. Moreover, the MTs adsorbed on bare HOPG surfaces are obviously denatured. All the above results show that covalent binding strategies lead to high structural regularity and mechanical stability of the adsorbed protein molecules with a maintained biological activity, which is prospective for applications in immobilizing MT on a transducer for biosensor design. Copyright © 2009 John Wiley & Sons, Ltd.     

Self-assembly of amphiphilic hexapyridinium cations at the air/water interface and on HOPG surfaces.

Mono- and multilayers of a novel amphiphilic hexapyridinium cation with six eicosyl chains (3) are spread at the air/water interface as well as on highly ordered pyrolytic graphite (HOPG). On water, the monolayer of 3 is investigated by recording surface pressure/area and surface potential/area isotherms, and by Brewster angle microscopy (BAM). Self-organized tubular micelles with an internal edge-on orientation of molecules form at the air/water interface at low surface pressure whereas multilayers are present at high surface pressure, after a phase transition. Packing motifs suggesting a tubular arrangement of the constituting molecules were gleaned from atomic force microscopy (AFM) investigations of Langmuir-Blodgett (LB) monolayers being transferred on HOPG at different surface pressures. These LB film structures are compared to the self-assembled monolayer (SAM) of 3 formed via adsorption from a supersaturated solution, which is studied by scanning tunnelling microscopy (STM). On HOPG the SAM of 3 consists of nanorods with a highly ordered edge-on packing of the aromatic rings and an arrangement of alkyl chains which resembles the packing of molecules at the air/water interface at low surface pressure. Additional details of the molecular packing were gleaned from single-crystal X-ray structure analysis of the hexapyridinium model compound 2b, which possesses methyl instead of eicosyl residues.     

Structural evolution of hexa-peri-hexabenzocoronene adlayers in heteroepitaxy on n-pentacontane template monolayers

The growth and structure of self-assembled adlayers of hexakis(n-dodecyl)-peri-hexabenzocoronene (HBC-C12) adsorbed on highly ordered pyrolitic graphite (HOPG) decorated by an n-pentacontane (n-C50H102) monolayer have been investigated by scanning tunneling microscopy (STM). Whereas on HOPG the HBC-C12 molecules readily self-assemble into a unique stable 2D structure, on the [n-C50H102 monolayer/graphite] system we observe morphological phase transitions with formation of time dependent alpha, beta, and gamma phases (alpha-->beta-->gamma). The initial alpha-phase is similar to that obtained on bare graphite, while intermediate beta- and final gamma-structures present molecular dimers and rows, respectively. The observed two-dimensional polymorphism is due to weak interaction between HBC-C12 molecules and n-C50H102-modified graphite substrate. Our results constitute an important step toward the control of the growth and structure of highly ordered monolayers of functional conjugated molecules by modifying the graphite surface with an n-alkane monolayer of appropriate chain length.     

An experimental and theoretical study of the formation of nanostructures of self-assembled cyanuric acid through hydrogen bond networks on graphite

The self-assembly of cyanuric acid into ordered nanostructures on a crystalline substrate, highly ordered pyrolytic graphite (HOPG), has been investigated at low temperature under ultrahigh vacuum (UHV) conditions by means of scanning tunneling microscopy in conjunction with theoretical simulations. Many domains with different self-assembly patterns were observed. One such domain represents the formation of an open 2D rosette (cyclic) structure from the self-assembly process, the first observation of this type of structure for pure cyanuric acid on a graphite substrate. Each self-assembled domain exhibits characteristic superstructures formed through different hydrogen bond networks at low coverage and low deposition rate. Experimental observation of coexistent, two-dimensional crystalline structures with distinct hydrogen bond patterns is supported by energy minimizations and molecular dynamics calculations, which show multiple stable structures for this molecule when self-assembled on graphite.     

Discrete solvation layering in confined binary liquids

The solvation force profiles of squalane/octamethylcyclotetrasiloxane (OMCTS) mixtures confined between Si3N4 tips and highly oriented pyrolytic graphite (HOPG) and hexadecane/OMCTS confined between alkanethiol-functionalized tips and freshly cleaved mica have been measured by atomic force microscopy. Measurements on HOPG reveal oscillatory behavior where discrete solvation layers of both squalane and OMCTS are observed in a single force curve. The large repulsive force of the first solvation layer (squalane) on HOPG indicates that it is strongly bound. Oscillatory behavior is also observed for hexadecane/OMCTS on mica excepting that the oscillations are found in the attractive regime. The OMCTS layers in this case are less ordered with slightly larger (approximately 1 A) periodicities. These results are in agreement with computer simulations for binary liquid mixtures but differ qualitatively from surface force apparatus experiments.     

Self-organization of gold-containing hydrogen-bonded rosette assemblies on graphite surface

The self-organization of supramolecular structures, in particular gold-containing hydrogen-bonded rosettes, on highly oriented pyrolytic graphite (HOPG) surfaces was investigated by tapping-mode atomic force microscopy (TM-AFM) and scanning tunneling microscopy (STM). TM-AFM and high-resolution STM results show that these hydrogen-bonded assemblies self-organize to form highly ordered domains on HOPG surfaces. We find that a subtle change in one of the building blocks induces two different orientations of the assembly with respect to the surface. These results provide information on the control over the construction of supramolecular nanoarchitectures in 2D with the potential for the manufacturing of functional materials based on structural manipulation of molecular components.     

正十八烷醇在HOPG上形成自组装膜的吸附特性

研究了正十八烷醇在高定向热解石墨(HOPG)上形成自组装膜的吸附特性, 正十八烷醇在室温下从溶液中吸附至HOPG上形成整齐定向排列的单层自组装膜. 通过扫描隧道显微镜(STM)、接触角测量和X射线光电子能谱(XPS)分析了正十八烷醇单层自组装膜在HOPG上的结构. 实验结果表明, 正十八烷醇自组装膜在基底上成平铺或直立形态, 由于分子在基底上覆盖程度的不同, 会导致它在基底上排列的方式有所不同.     

OBSERVATION OF DNA PARTIAL DENATURATION BY ATOMIC FORCE MICROSCOPY

Atomic force microscopy was used to investigate the DNA-cetyltrimethylammonium bromide (CTAB) complexes adsorbed on highly ordered pyrolytic graphite (HOPG). These complexes, at low concentrations, can automatically spread out on the surface of HOPG. The DNA-CTAB complexes display a typically extended structure rather than a globular structure. Partially denaturated DNA produced by binding CTAB to DNA is directly observed by AFM with high resolution. The three-dimensional resolution of partially denaturated DNA obtained by AFM is not available by any other technique at present.     

Molecular engineering of supramolecular scaffold coatings that can reduce static platelet adhesion

Novel supramolecular coatings that make use of low-molecular weight ditopic monomers with guanine end groups are studied using fluid tapping AFM. These molecules assemble on highly oriented pyrolytic graphite (HOPG) from aqueous solutions to form nanosized banding structures whose sizes can be systematically tuned at the nanoscale by tailoring the molecular structure of the monomers. The nature of the self-assembly in these systems has been studied through a combination of the self-assembly of structural derivatives and molecular modeling. Furthermore, we introduce the concept of using these molecular assemblies as scaffolds to organize functional groups on the surface. As a first demonstration of this concept, scaffold monomers that contain a monomethyl triethyleneglycol branch were used to organize these "functional" units on a HOPG surface. These supramolecular grafted assemblies have been shown to be stable at biologically relevant temperatures and even have the ability to significantly reduce static platelet adhesion.     

Stabilization of graphene sheets by a structured benzene/hexafluorobenzene mixed solvent

Applications requiring pristine graphene derived from graphite demand a solution stabilization method that utilizes an easily removable media. Using a combination of molecular dynamics simulations and experimental techniques, we investigate the solublization/suspension of pristine graphene sheets by an equimolar mixture of benzene and hexafluorobenzene (C(6)H(6)/C(6)F(6)) that is known to form an ordered structure solidifying at 23.7 °C. Our simulations show that the graphene surface templates the self-assembly of the mixture into periodic layers extending up to 30 ? from both sides of the graphene sheet. The solvent structuring is driven by quadrupolar interactions and consists of stacks of alternating C(6)H(6)/C(6)F(6) molecules rising from the surface of the graphene. These stacks result in density oscillations with a period of about 3.4 ?. The high affinity of the 1:1 C(6)H(6)/C(6)F(6) mixture with graphene is consistent with observed hysteresis in Wilhelmy plate measurements using highly ordered pyrolytic graphite (HOPG). AFM, SEM, and TEM techniques verify the state of the suspended material after sonication. As an example of the utility of this mixture, graphene suspensions are freeze-dried at room temperature to produce a sponge-like morphology that reflects the structure of the graphene sheets in solution.     

Cross‐sectional structural characterization of the surface of exfoliated HOPG using HRTEM‐EELS

We analyzed the surface atomic structure of highly oriented pyrolytic graphite (HOPG) substrate exfoliated with adhesive tape, using high‐resolution transmission electron microscopy and scanning transmission electron microscopy‐electron energy‐loss spectroscopy (STEM‐EELS). The surface step height of the exfoliated HOPG substrate was determined using high‐angle annular dark‐field‐scanning transmission electron microscopy (HAADF‐STEM) images and the depth profiles of the EELS spectra of a cross‐sectioned thin foil specimen prepared via focused ion beam milling. The exfoliated surface of the HOPG substrate presented disordered and curved graphene layers. The STEM‐EELS measurements indicated that upon exfoliation, the surface of the HOPG substrate reacted with atmospheric water and oxygen molecules.     

高氯酸根阴离子在HOPG中嵌入行为的EC-STM研究

运用电化学扫描隧道显微镜（EC-STM）和循环伏安（CV）技术对高氯酸根阴离子ClO₄^-在高序热解石墨（HOPG）中的电化学嵌入行为进行了研究. 通过观察嵌入前后石墨台阶处高度的变化,比较了不同高度的台阶对嵌入的影响,讨论了ClO₄^-离子嵌入石墨的可行性、可逆性和嵌入速率. 研究表明,3层以上的台阶位才有可能观察到由四阶和三阶嵌入引起的台阶高度变化,4 ~ 8个原子层高度的石墨台阶可以实现ClO₄^-在台阶处较为可逆的四阶嵌入,但1 ~ 2层台阶处无法观察到嵌入引起的台阶高度变化,嵌入反应通常会伴随台阶的剥离和脱落现象. 四阶的嵌入反应较三阶可逆,二阶和一阶时,嵌入所需反应电势较高,此时氧化反应较为剧烈,嵌入反应被掩盖,很难观察到台阶高度的变化,更多的形貌变化是台面和台阶处不可逆的损坏如剥落、断层、黑坑等.     

Nanoscale ordered structure of fullerenes on the surface of highly oriented pyrolytic graphite

The formation of an ordered arrangement of C₆₀ molecules as path-like structures on the surface of highly oriented pyrolytic graphite (HOPG) is reported for the first time with theoretical implementations. Fullerene nucleation and deposition from solutions with different concentrations of C₆₀ is performed under ambient conditions without electrochemical processes. Scanning tunneling microscopy (STM) is used to study the surface topography. The results reveal new aspects of fullerene deposition that can potentially aid in modeling with theoretical simulations.     

The use of surface tension to predict the formation of 2D arrays of latex spheres formed via the Langmuir-Blodgett-like technique

Highly ordered hexagonal arrays of latex spheres on highly ordered pyrolytic graphite (HOPG) have been prepared from a Langmuir-Blodgett-like (LB-like) technique using both polymers and surfactants as spreading agents. The role of spreading agent concentration in forming a well-ordered, stable monolayer at the air-liquid interface was studied by means of atomic force microscopy, scanning electron microscopy, optical microscopy, and surface tension measurements for three different systems: a nonionic surfactant, octylphenoxy poly(ethyleneoxy)ethanol (Igepal CO 630); an anionic surfactant, sodium dodecyl sulfate; and a low-molecular-weight, water-soluble polymer, polyacrylamide. For both the anionic surfactant and the water soluble polymer, a correlation was found between a unique feature in surface tension measurements of the latex-spreading agent mixture and the concentrations at which hexagonal arrays of latex spheres form on the surface of HOPG. For the nonionic surfactant, no ordered structures were found on HOPG for any surfactant concentration, consistent with no appearance of the unique feature in surface tension measurements. These results show that a tensiometer can be used to determine the conditions under which well-ordered latex films have the possibility of forming on a substrate using the LB-like technique; however, other factors, such as pulling speed and surface chemistry, play a role as well.     

Bioinspired hybrid systems based on oligothiophenes and peptides (ALA-GLY)<Subscript>n</Subscript>: Computer-aided simulation of adsorption layers

This review presents the results of atomistic molecular dynamic simulation during the adsorption of hybrid molecules, which are co-oligomers of thiophene and peptide (biomimetic) segments. A surface of highly ordered pyrolitic graphite (HOPG) is used as an adsorbent. The processes of self-organization are investigated as a function of the temperature and adsorption intensity for two types of hybrids, such as diblock and triblock cooligomers (with a central thiophene block). The structure of the formed adsorption layers is studied in detail. In the self-organizing associates, the emergence of possible π stacking in the thiophene segment is considered. The motifs of the secondary structure in the peptide blocks and their evolution with increasing adsorption intensity are examined.     

Adsorption of humic acid onto carbonaceous surfaces: atomic force microscopy study

The adsorption of humic acid (HA) onto highly ordered pyrolytic graphite (HOPG) surfaces at different concentrations has been studied by atomic force microscopy. When HA concentration was increased from 10 to 1,000 mg/L, HA can sequentially form spherical particles, layered structures, and connected blocks on HOPG surfaces. The findings of the layer structures and small amount of fine chains have been verified and discussed. When HA was acidified by addition of acetic acid, it changed into small rigid particles. These results indicated that HA can be considered as supramolecular associations of self-assembling heterogeneous and relatively small molecules, and a small amount of polymers. The present results are important for understanding HA molecular structures and their adsorption characteristic on carbonaceous surfaces.     

Random coils, beta-sheet ribbons, and alpha-helical fibers: one peptide adopting three different secondary structures at will

To potentially cure neurodegenerative diseases, we need to understand on a molecular level what triggers the complex folding mechanisms and shifts the equilibrium from functional to pathological isoforms of proteins. The development of small peptide models that can serve as tools for such studies is of paramount importance. We describe the de novo design and characterization of an alpha-helical coiled coil based model peptide that contains structural elements of both alpha-helical folding and beta-sheet formation. Three distinct secondary structures can be induced at will by adjustment of pH or concentration. Low concentrations at pH 4.0 yield globular particles of the unfolded peptide, while at the same pH, but at higher concentration, defined beta-sheet ribbons are formed. In contrast, at high concentrations and pH 7.4, the peptide forms highly ordered alpha-helical fibers. Thus, this system allows one to systematically study now the consequences of the interplay between peptide and protein primary structure and environmental factors for peptide and protein folding on a molecular level.     

Laminated morphology of nontwisting beta-sheet fibrils constructed via peptide self-assembly

A synthetic peptide has been de novo designed that self-assembles into beta-sheet fibrils exhibiting a nontwisted, stacked morphology. The stacked morphology is constituted by 2.5 nm wide filaments that laterally associate to form flat fibril laminates exceeding 50 nm in width and micrometers in length. The height of each fibril is limited to the length of exactly one peptide monomer in an extended beta-strand conformation, approximately 7 nm. Once assembled, these highly ordered, 2-D structures are stable over a wide range of pH and temperature and exhibit characteristics similar to those of amyloid fibrils. Furthermore, the rate of assembly and degree of fibril lamination can be controlled with kinetic parameters of pH and temperature. Finally, the presence of a diproline peptide between two beta-sheet-forming strands in the peptide sequence is demonstrated to be an important factor in promoting the nontwisting, laminated fibril morphology.     

Genetic engineering combined with deep UV resonance Raman spectroscopy for structural characterization of amyloid-like fibrils

Elucidating the structure of the cross-beta core in large amyloid fibrils is a challenging problem in modern structural biology. For the first time, a set of de novo polypeptides was genetically engineered to form amyloid-like fibrils with similar morphology and yet different strand length. Differential ultraviolet Raman spectroscopy allowed for separation of the spectroscopic signatures of the highly ordered beta-sheet strands and turns of the fibril core. The relationship between Raman frequencies and Ramachandran dihedral angles of the polypeptide backbone indicates the nature of the beta-sheet and turn structural elements.