Structures of palmitoyl-L and DL-lysine monolayers at the air-water interface--polarization modulation infrared reflection absorption spectroscopic study

Polarization modulation infrared reflection absorption spectroscopy (PM-IRAS) was applied to measure the IR spectra of palmitoyl-DL-lysine (L-PL) and palmitoyl-DL-lysine (DL-PL) at the air-water interface. The spectra in the amide I and II regions were simulated by using the extinction coefficients of the amide I and II bands of L-PL and DL-PL determined by the analyses of the IR external reflection spectra of the Langmuir-Blodget (LB) films prepared on a Ge plate (Yasukawa et al. J. Mol. Struct. 2005, 735-736, 53), indicating the angle between the plane of the secondary amide group (the amide plane) and the surface normal in the L-PL monolayer to be about 20 degrees and the angle in the DL-PL monolayer to be about 37 degrees. Comparison of the tilt angles with the corresponding angles in the LB films (about 20 degrees for the LB film of L-PL; about 49 degrees for the LB film of DL-PL) indicated that, upon being transferred to the solid substrate from the air-water interface, the L-PL monolayer keeps the orientation of the amide plane virtually unchanged, while the DL-PL monolayer changes the orientation appreciably to a horizontal direction. The orientation change of the amide plane was interpreted as due to the accommodation of irregularly oriented palmitoyl groups into the LB films of DL-PL on the solid substrate.     

Determination of molecular ordering at a buried interface and the effect of interfacial ordering on thin film crystallization by second harmonic generation

It is demonstrated that by using optical second harmonic generation the orientation and alignment of molecules in the interfacial layer between two solids, a thin solid molecular film and a metal substrate, can be determined. The pyridine molecules in the interfacial layer underneath the film are found to align along the [110] direction of the Ag(110) surface with a small tilt angle (approximately 11 degrees) from the surface normal. This interfacial ordering is found to have a notable effect in inducing crystallization at the heterogeneous boundary of the amorphous molecular film.     

LB film structure of poly(2-methoxy,5-(8-methoxy-3,6-dioxa-1-undecoxy)-p-phenylene vinylene) studied by spectroscopy

A PPV derivative, poly(2-methoxy,5-(8-methoxy-3,6-dioxa-1-undecoxy)-p-phenylene vinylene), has been synthesized by the Gilch route to study the influence of a long alkyl side chain and a di(ethylene oxide) methyl ether group on the multilayer structure obtained by Langmuir-Blodgett (LB) technique. UV-visible, PL, and FTIR spectra are applied to study the conformation and orientation of the MMDU-PPV molecules in multilayer organization. MMDU-PPV is apt to form a transferable monolayer film, in which the plane of its pi system is perpendicular to the air-water interface. The adjacent conjugated main chains of MMDU-PPV in LB films are aligned in parallel fashion and packed with the plane of its pi system approximately perpendicular to the layer plane and not organized to compact pi-stacking structure for introducing di(ethylene oxide) methyl ether (DEOM) side chains to conjugated main chains. The long alkyl side chains are characterized by all trans-zigzag conformation and average tilt angle of 36+/-1.5 degrees. The layer-by-layer multilayer of MMDU-PPV obtained by Langmuir-Blodgett technique exhibits some in-plane anisotropy and more pure photoluminescence than that of the dilute MMDU-PPV solution.     

Anisotropic molecular structure in dip-coated films of linear poly(ethylene imine) studied by infrared multiple-angle incidence resolution spectrometry

Molecular structure in dip-coated films of linear poly(ethylene imine) (LPEI) on a germanium (Ge) substrate in dried and hydrated conditions have been analyzed by infrared multiple-angle incidence resolution spectrometry (IR MAIRS). The MAIRS-IP (in-plane) and -OP (out-of-plane) spectra of the dried film exhibited largely different patterns from each other, which indicated that LPEI molecules had an apparent molecular orientation with respect to the substrate surface. Although the film exhibited no peak in X-ray diffraction patterns, the low-crystallinity film has been found to have highly oriented molecular structure. Many key bands indicated that the molecules were involved in the double-stranded helix structure, which is specific to the anhydrate crystal of LPEI, with nearly perpendicular orientation. The Davydov splitting of the NH stretching vibration mode was readily captured by the IR MAIRS spectra, which also supported the helix standing model. When the film was stored in a humid condition, on the other hand, IR MAIRS spectra revealed that the helix was resolved to be straight chains, but the perpendicular orientation was kept unchanged. In addition, the MAIRS spectra also revealed molecular orientation of the water molecules of crystallization. The unique molecular arrangements are understandable by considering that the stabilization energy in the polymer monolayer directly attached on the substrate surface is minimized by the standing-molecule arrangements.     

10,12-双炔甘三酸镉盐LB膜的FT-IR光谱

近年来,由于LB膜在功能器件中(如光电子器件,微型电池、低维半导体、热释电探测器等)显示出了令人兴奋的应用前景,因此有越来越多的人致力于LB膜的研究工作.其中对LB膜的成膜质量的评价,特别是LB膜的分子取向问题,是一个非常引人关注的问题.此外,对于碳原子数大于20,熔点小于45℃的系列双炔酸(R—C≡C—C≡C—R′)可以利用LB技术制备多层膜.这类LB膜在紫外光或电子束的作用下可以迅速发生聚合.利     

Reversible helix sense inversion in surface-grafted poly(beta-phenethyl-L-aspartate) films

The reversible manipulation of the helix screw sense in surface-grafted poly(beta-phenethyl-L-aspartate) (PPELA) films by means of external stimuli was investigated. Ringopening polymerization of beta-phenethyl-L-aspartate N-carboxyanhydride initiated from primary amino-functionalized silicon and quartz substrates results in surface-grafted PPELA films in which the end-grafted polypeptide chains have a right-handed alpha-helical conformation. Upon annealing of the film at 150 degrees C for 30 min, a helix screw sense inversion takes place and the grafted chains adopt a left-handed pi-helical conformation. In the solid state, this left-handed pi-helical form is completely stable and cannot be changed by reheating and/or cooling. Upon immersion of the annealed grafted film in chloroform or other helicogenic solvents, the grafted polypeptide chains completely revert to their original right-handed alpha-helical form. Successive annealing and solvent treatment steps show that this helix sense inversion cycle can be repeated many times.     

聚(ε-己内酯)薄膜结晶形貌及分子取向研究

用匀胶机通过溶液铸膜方法在硅片和铝箔基板上分别制备具有不同厚度的聚(ε-己内酯)(PCL)薄膜. 通过原子力显微镜(AFM)和偏光衰减全反射傅里叶红外光谱(ATR-FTIR)对薄膜中PCL的结晶形貌、 片晶生长方式及分子链取向进行了研究. AFM结果表明, 在200 nm或更厚的薄膜中, PCL主要以侧立(edge-on)片晶的方式生长; 对于厚度小于200 nm的薄膜, PCL片晶更倾向于以平躺(flat-on)的方式生长. 这种片晶生长方式的改变在硅片和铝箔基板上都表现出同样的倾向. 此外, 在15 nm或更薄的薄膜中, PCL结晶由通常的球晶结构变为树枝状晶体. 偏光ATR-FTIR结果表明, 当膜厚小于200 nm时, 薄膜结晶中PCL分子链沿垂直于基板表面方向取向, 并且膜越薄, 取向程度越高, 与AFM的观测结果一致.     

Computational models for the helix tilt angle

The concept of hydrophobic imbalance and that of hydrophobic and hydrophilic centers are used along with side chain models in the computation of helix orientation and tilt angle in or near a membrane. Rotamer statistics are used to infer typical side chain positions and chain length for each amino acid, and the results are used in fast computation of helix orientation. Sliding windows are used to compute local tilt angles on long alpha-helices that defy idealized modeling and generate tilt angle profiles. Seven different procedures based on different formulas and hydrophobicity scales are used for comparison. These procedures generated very similar tilt angle profiles. These profiles provide insights into helix deformation, membrane destabilization, and similarity and differences between membrane proteins.     

Comparison of "Polarization inversion with spin exchange at magic angle" and "geometric analysis of labeled alanines" methods for transmembrane helix alignment

Using the model alpha-helical peptide acetyl-GGALW5LALALALALALALW19LAGA-ethanolamide ("GWALP23"), we have compared the polarization inversion with spin exchange at magic angle method and geometric analysis of labeled alanines method for estimating the transmembrane helix orientation. For GWALP23 in bilayers of a short lipid, dilauroylphosphatidylcholine, we find general agreement between the two methods, with a static helix tilt of about 11degrees-13degrees with respect to the bilayer normal.     

Formation and structure of self-assembled monolayers of alkanethiolates on palladium

The adsorption of n-alkanethiols onto polycrystalline thin films of palladium containing a strong (111) texture produces well-organized, self-assembled monolayers. The organization of the alkane chains in the monolayer and the nature of the bonding between the palladium and the thiol were studied by contact angle measurements, optical ellipsometry, reflection absorption infrared spectroscopy (RAIRS), and X-ray photoelectron spectroscopy (XPS). The XPS data reveals that a compound palladium-sulfide interphase is present at the surface of the palladium film. The RAIR spectra, ellipsometry data, and wetting properties show that the palladium-sulfide phase is terminated with an organized, methyl-terminated monolayer of alkanethiolates. The local molecular environment of the alkane chains transitions from a conformationally disordered, liquidlike state to a mostly all-trans, crystalline-like structure with increasing chain length (n = 8-26). The intensities and dichroism of the methylene and methyl stretching modes support a model for the average orientation of an ensemble of all-trans-conformer chains with a tilt angle of approximately 14-18 degrees with respect to the surface normal and a twist angle of the CCC plane relative to the tilt plane of approximately 45 degrees. The SAMs are stable in air, although the sulfur present at the surface oxidizes in air over a period of 2-5 days at room temperature. The differences in chain organization between SAMs formed by microcontact printing and by solution deposition are also examined by RAIRS and XPS.     

Anisotropy in Langmuir layers of a bent-core liquid crystal

Langmuir layers of a symmetric bent-core molecule with hydrocarbon end chains and two chlorine atoms substituted on the central phenyl ring of the bent core were characterized by a combination of surface pressure isotherms, Brewster angle microscopy, and surface potential measurements. These layers were found to be optically anisotropic, in contrast to Langmuir layers of similar molecules with different substitutions on the core. After compression, the orientation of the optical axis was essentially uniform over the film. Upon decompression, the film broke into uniform islands or domains. Measuring domain reflectivity while changing the domain orientation allowed the determination of the tilt angle with respect to both domain features and the film normal, as well as the refractive index anisotropy. The tilt angle, near 90 degrees, suggests that the bent-core molecules lie quite flat on the surface.     

Surface-mediated photoalignment of discotic liquid crystals on azobenzene polymer films

This paper describes a simple strategy for the formation of photoaligned and micropatterned discotic liquid crystal (DLC) film on the surface of photoirradiated azobenzene-containing polymer thin film. The key material for the surface-mediated photoalignment of the DLCs was poly[4-(4-cyanophenylazo)phenyl methacrylate] (pMAzCN). Optical anisotropy was generated in a pMAzCN film by oblique exposure to nonpolarized light which resulted in angle-selective photoisomerization and reorientation of the azobenzenes. Subsequent annealing of the film at 240 degrees C enhanced the photoaligned state of the p-cyanoazobenzenes due to strong intermolecular dipole-dipole interaction and semicrystalline nature of the pMAzCN. This combination of photoirradiation and subsequent annealing of the pMAzCN film made it possible to realize the surface-assisted orientation control of a DLC molecule, which displays both columnar (Col) and discotic nematic (N(D)) phases over 152 degrees C. When the pMAzCN film was exposed to linearly polarized light from the surface normal, the DLC molecules showed homeotropic orientation with the director perpendicular to the substrate surface. In the contrast, oblique irradiation of the pMAzCN film with nonpolarized light gave rise to tilted DLC orientation with well-ordered optical birefringence at the N(D) phase. Rapid cooling from the N(D) phase produced a well-aligned glassy N(D) state at room temperature, which was adequately stable for 10 months even though no covalent cross-linking among the DLCs was performed. The spatial orientation of photoaligned DLCs in both their bulk film and in their interface region was characterized by means of optical birefringence, X-ray diffraction, and fluorescence measurements. At the N(D) phase, the DLC molecules were aligned in a hybrid manner such that their tilt angles varied throughout the thickness of DLC film. The direction of tilted DLCs was opposite to the propagation of the actinic nonpolarized light. The photoaligned DLC films exhibited polarized fluorescence emission with an s-polarized/p-polarized intensity ratio of 4.1, despite the nonpolarized excitation of only DLC at outmost surface. These results indicate that the three-dimensionally aligned azobenzene moieties of the pMAzCN thin film were transferred to the tilted DLC molecules at air/DLC interface. Finally, we demonstrated micrometer-scale photopatterned orientation of DLC molecules on the pMAzCN surface by oblique nonpolarized irradiation of the film through a photomask.     

Electrochemical growth of two-dimensional gold nanostructures on a thin polypyrrole film modified ITO electrode

Two-dimensional gold nanostructures have been fabricated by electrochemical deposition of gold nanoparticles onto indium tin oxide (ITO) glass substrate modified with thin polypyrrole film. By controlling the electrodeposition conditions, gold nanoparticles with dendritic rod, sheet, flower-like (consisting of staggered nanosheets), and pinecone-like structures were generated. The flower-like gold nanoparticles showed high catalytic activity on electrochemical reduction of oxygen, and its activity was measured to be approximately 25 times that of gold pinecones and 10(4) times that of gold nanosheets in terms of gold weight. The pinecone-like nanoparticles can form a compact film with nano-/microscale binary structure like a lotus leaf surface. After modification with n-dodecanethiol, the surface showed superhydrophobic properties with a water contact angle of 153.4 degrees and a tilt angle of 4.4 degrees (5 microL droplet).     

Direct observation of a self-assembled monolayer of heptyl xanthate at the germanium/water interface: a polarized FTIR study

The adsorption of heptyl xanthate on germanium has been studied by the attenuated total reflection (ATR) technique. Polarized infrared light was used in situ to determine the average orientation of the alkyl chain in heptyl xanthate adsorbed at the germanium/solution interface. Spectra reveal the formation of closely packed xanthate ions with the alkyl chains in the all-trans conformation. The average tilt angle of the alkyl chains of heptyl xanthate was approximately 47 degrees from the surface normal.     

Polarization modulation infrared reflection-absorption spectroscopy studies of the influence of perfluorinated compounds on the properties of a model biological membrane

A combination of the Langmuir-Blodgett and Langmuir-Schaefer techniques has been used to build a 1,2-dimyristoyl- sn-glycero-3-phosphocholine (DMPC) bilayer at a Au(111) electrode surface with hydrogen-substituted acyl chains in the top leaflet (solution side) and deuterium-substituted acyl chains in the bottom leaflet (gold side). Polarization modulation infrared reflection-absorption spectroscopy was used to determine changes in the conformation and orientation of the acyl chains of DMPC caused by the incorporation of two selected perfluorinated compounds, perfluorooctanoic acid (PFOA) and perfluorooctanesulfonic acid (PFOS), into the top leaflet of the bilayer. The incorporation of perfluorinated compounds into the DMPC bilayer caused a broadening of the methylene peaks and a shift in the methylene band positions toward higher frequencies. In addition, the tilt angle of the acyl chains decreased in comparison to the tilt angle of a pure DMPC bilayer. The reported tilt angles were smaller upon insertion of PFOS ( approximately 24 degrees ) than in the presence of PFOA ( approximately 30 degrees ). Overall, the results show that the incorporation of the perfluorinated acids has an effect on the bilayer similar to that of cholesterol by increasing the membrane fluidity and thickness due to a decrease in the tilt angle of the acyl chains.     

Monitoring orientation and dynamics of membrane-bound melittin utilizing dansyl fluorescence

Melittin is a cationic hemolytic peptide isolated from the European honey bee, Apis mellifera. In spite of a number of studies, there is no consensus regarding the orientation of melittin in membranes. In this study, we used a melittin analogue that is covalently labeled at its amino terminal (Gly-1) with the environment-sensitive 1-dimethylamino-5-sulfonylnaphthalene (dansyl) group to obtain information regarding the orientation and dynamics of the amino terminal region of membrane-bound melittin. Our results show that the dansyl group in Dns-melittin exhibits red edge excitation shift in vesicles of 1,2-dioleoyl-sn-glycero-3-phosphocholine, implying its localization in a motionally restricted region of the membrane. This is further supported by wavelength-dependent anisotropy and lifetime changes and time-resolved emission spectra characterized by dynamic Stokes shift, which indicates relatively slow solvent relaxation in the excited state. Membrane penetration depth analysis using the parallax method shows that the dansyl group is localized at a depth of approximately 18 A from the center of the bilayer in membrane-bound Dns-melittin. Further analysis of dansyl and tryptophan depths in Dns-melittin shows that the tilt angle between the helix axis of membrane-bound melittin and the bilayer normal is approximately 70 degrees. Our results therefore suggest that melittin adopts a pseudoparallel orientation in DOPC membranes at low concentration.     

X-ray study of substrate-induced alignment of a smectic A liquid crystal

Abstract

We have performed a structural study of the liquid crystal (LC) octylcyanobiphenyl (8CB), deposited on gratings and flat surfaces, using high resolution X-ray scattering as a function of film thickness. 8CB is a room temperature smectic A₂, with a layer spacing of 31·6 Å. Glass was used as substrate and treated with either one of the organic surfactants MAP or DMOAP. Surface tension forces cause the liquid crystal molecules to align perpendicularly with respect to the plane of the substrate at the air interface. Competing with the LC-air interface, which is a strong aligner, a grating at the LC-substrate interface produces distortions in the smectic layering with an excess of elastic energy, which favours alignment parallel to the substrate and the grooves. Our purpose was to detect the onset and evolution of parallel alignment as a function of film thickness. The studies used 9 keV (1·403 Å) X-rays focused to a spot size of 2 mm² at the sample position. In-plane scans, which detect the smectic layers perpendicular to the plane of the substrate, were done at angles φ = 0° and 90° with respect to the gratings to ascertain the molecular orientation, at a nominal X-ray incidence angle of α = 0°. In order to observe regions of varying smectic layer orientation within the film, we performed a series of scans where the out-of-plane tilt angle χ changed from 0°, corresponding to scattering in the plane of the film, to 90°, which corresponds to scattering normal to the surface of the film. The results from these scans were fitted to a multilayer model where the orientation of the smectic layers varies as a function of film depth. The analysis confirmed our earlier observations that surface tension at the air interface plays a dominant role in the alignment of the LC molecules.     

Molecular self-assembly at bare semiconductor surfaces: preparation and characterization of highly organized octadecanethiolate monolayers on GaAs(001)

Through rigorous control of preparation conditions, organized monolayers with a highly reproducible structure can be formed by solution self-assembly of octadecanethiol on GaAs (001) at ambient temperature. A combination of characterization probes reveal a structure with conformationally ordered alkyl chains tilted on average at 14 +/- 1 degrees from the surface normal with a 43 +/- 5 degrees twist, a highly oleophobic and hydrophobic ambient surface, and direct S-GaAs attachment. Analysis of the tilt angle and film thickness data shows a significant mismatch of the average adsorbate molecule spacings with the spacings of an intrinsic GaAs(001) surface lattice. The monolayers are stable up to approximately 100 degrees C and exhibit an overall thermal stability which is lower than that of the same monolayers on Au[111] surfaces. A two-step solution assembly process is observed: rapid adsorption of molecules over the first several hours to form disordered structures with molecules lying close to the substrate surface, followed by a slow densification and asymptotic approach to final ordering. This process, while similar to the assembly of alkanethiols on Au[111], is nearly 2 orders of magnitude slower. Finally, despite differences in assembly rates and the thermal stability, exchange experiments with isotopically tagged molecules show that the octadecanethiol on GaAs(001) monolayers undergo exchange with solute thiol molecules at roughly the same rate as the corresponding exchanges of the same monolayers on Au[111].     

Structural and optical properties of DNA layers covalently attached to diamond surfaces

Label-free detection of DNA molecules on chemically vapor-deposited diamond surfaces is achieved with spectroscopic ellipsometry in the infrared and vacuum ultraviolet range. This nondestructive method has the potential to yield information on the average orientation of single as well as double-stranded DNA molecules, without restricting the strand length to the persistence length. The orientational analysis based on electronic excitations in combination with information from layer thicknesses provides a deeper understanding of biological layers on diamond. The pi-pi* transition dipole moments, corresponding to a transition at 4.74 eV, originate from the individual bases. They are in a plane perpendicular to the DNA backbone with an associated n-pi* transition at 4.47 eV. For 8-36 bases of single- and double-stranded DNA covalently attached to ultra-nanocrystalline diamond, the ratio between in- and out-of-plane components in the best fit simulations to the ellipsometric spectra yields an average tilt angle of the DNA backbone with respect to the surface plane ranging from 45 degrees to 52 degrees . We comment on the physical meaning of the calculated tilt angles. Additional information is gathered from atomic force microscopy, fluorescence imaging, and wetting experiments. The results reported here are of value in understanding and optimizing the performance of the electronic readout of a diamond-based label-free DNA hybridization sensor.     

Effect of Film Thickness on the Columnar Packing Structures of Discotic Supramolecules in Thin Films

The effects of film thickness on the columnar packing structure of discotic supramolecules in a thin supported film have been investigated by grazing‐incidence small‐angle X‐ray scattering technique using magnetically aligned cobalt octa(n‐decylthio)porphyrazine (CoS10) films on octadecyltrichlorosilane (OTS)‐functionalized substrates as model systems. Magnetically aligned CoS10 films with a range of film thicknesses (49–845 nm) form uniaxially oriented ‘edge‐on’ columnar superstructures with their columnar directors perpendicular to the applied magnetic field. However, the orientational ordering of the columnar packing in the plane perpendicular to the applied magnetic field is strongly dependent on the film thickness. While being damped by the elasticity of the side chains of CoS10, the strong interfacial interaction at the film‐substrate interface propagates up to 50–100 nm from the substrate, maintaining the orientation of columnar packing in the plane perpendicular to the applied magnetic field. When the distance from the film‐substrate interface becomes larger than about 100 nm, symmetric tilting of columnar layer orientation, which saturates at 11.5°, occurs due to longitudinal edge dislocations induced by accumulated elastic deformation.