Molecular self-assembly of solid-supported protein crystals

Highly ordered protein arrays have been proposed as a means for templating the organization of nanomaterials. Toward this end, we investigate the ability of the protein streptavidin to self-assemble into various configurations on solid-supported phospholipids. We identify two genetic variants of streptavidin (comprising amino acids 14-136 and 13-139) and examine their molecular organization at the liquid-solid interface. Our results demonstrate that the structural differences between these two protein variants affect both crystalline lattice and domain morphology. In general, these results for the liquid-solid interface are similar and consistent with those at the air-water interface with a few notable differences. Analogous to crystallization at the air-water interface, both forms of streptavidin yield H-like domains with lattice parameters that have C222 symmetry at pH 7. At pH 4, the native, truncated form of streptavidin yields needle-like domains consisting of molecules arranged in P1 symmetry. Unlike crystalline domains grown at the air-water interface, however, the lattice parameters of this P1 crystal are unique and have not yet been reported. The presence of a solid substrate does not appear to dramatically alter streptavidin's two-dimensional crystallization behavior, suggesting that local intermolecular interactions between proteins are more significant than interactions between the interface and protein. Our results also demonstrate that screening the electrostatic repulsion between protein molecules by modulating ionic strength will increase growth rate while decreasing crystalline domain size and macroscopic defects. Finally, we show that these domains are indeed functional by attaching biotinylated gold nanoparticles to the crystals. The ability to modulate molecular configuration, crystalline defects, and domain size on a functional array supports the potential application of this system toward materials assembly.     

Manipulating energy landscapes to tune ordering in biotemplated nanoparticle arrays

Two-dimensional non-close-packed crystals of the protein streptavidin, grown on phospholipid membranes, can serve as nanoscale templates capable of directing the formation of ordered nanoparticle arrays through site-specific electrostatic adsorption. Here we examine the effects of both interparticle and nanoparticle/lipid membrane electrostatic interactions on the degree of structural order exhibited by the templated nanoparticle array. Interparticle electrostatic repulsion is shown to have only marginal influence on nanoparticle ordering. In contrast, the degree of order exhibited by the templated array can be tuned by controlling the charge on the lipid membrane. Analysis of the local and global structure of arrays generated with negatively charged gold nanoparticles (～6 nm) indicate improved long-range order when the lipid membrane supporting the protein crystal is derived from cationic lipid molecules as opposed to zwitterionic phospholipids. Furthermore, as nanoparticle size is reduced (～3 nm), the presence of a charged lipid membrane is found to be essential, as smaller particles do not adhere to streptavidin crystals grown on zwitterionic membranes. These findings demonstrate that the composition of the lipid support can influence the efficacy of directed-assembly processes which utilize protein templates and are important results toward enhancing control over bottom-up nanofabrication applications.     

Crystalline protein domains and lipid bilayer vesicle shape transformations

Cellular membranes can take on a variety of shapes to assist biological processes including endocytosis. Membrane-associated protein domains provide a possible mechanism for determining membrane curvature. We study the effect of tethered streptavidin protein crystals on the curvature of giant unilamellar vesicles (GUVs) using confocal, fluorescence, and differential interference contrast microscopy. Above a critical protein concentration, streptavidin domains align and percolate as they form, deforming GUVs into prolate spheroidal shapes in a size-dependent fashion. We propose a mechanism for this shape transformation based on domain growth and jamming. Osmotic deflation of streptavidin-coated GUVs reveals that the relatively rigid streptavidin protein domains resist membrane bending. Moreover, in contrast to highly curved protein domains that facilitate membrane budding, the relatively flat streptavidin domains prevent membrane budding under high osmotic stress. Thus, crystalline streptavidin domains are shown to have a stabilizing effect on lipid membranes. Our study gives insight into the mechanism for protein-mediated stabilization of cellular membranes.     

Templated assembly of biomembranes on silica microspheres using bacteriorhodopsin conjugates as structural anchors

Membrane proteins are some of the most sophisticated molecules found in nature. These molecules have extraordinary recognition properties; hence, they represent a vast source of specialized materials with potential uses in sensing and screening applications. However, the strict requirement of the native lipid environment to preserve their structure and functionality presents an impediment in building biofunctional materials from these molecules. In general, the purification protocols remove the native lipid support structures found in the cellular environment that stabilize the membrane proteins. Furthermore, the membrane protein structure is often highly complex, typified by large, multisubunit complexes that not only span the lipid bilayer but also contain large (>2 nm) cytoplasmic and extracellular domains that protrude from the membrane. The present study is focused on using a biomimetic approach to build a stable, fluid microenvironment to be used to incorporate larger membrane proteins of interest into a tether-supported lipid bilayer membrane adequately spaced above a substrate passivated to liposome fusion and nonspecific adsorption. Our aim is to reintroduce the supporting structures of the native cell membrane using self-assembled supramolecular complexes constructed on microspheres in an artificial cytoskeleton motif. Central to our architecture is to utilize bacteriorhodopsin (bR), a transmembrane protein, as a biomembrane anchoring molecule to be tethered to surfaces of interest as a sparse structural element in the design. Compared to a typical lipid tether, which inserts into one leaflet of the lipid bilayer, bR anchoring provides an over 8-fold greater hydrophobic surface area in contact with the bilayer. In the work presented here, the silica microsphere surface was biofunctionalized with streptavidin to make it a suitable supporting interface. This was achieved by self-assembly of (p-aminophenyl)trimethoxysilane on the silica surface followed by subsequent conjugation of biotin-PEG3400 (PEG = poly(ethylene glycol) and PEG2000 for further passivation and the binding of streptavidin. We have conjugated bR with biotin-PEG3400 through amine-based coupling to use it as a tether. The biotin-PEG-bR conjugate was further labeled with Texas Red to facilitate localization via fluorescence imaging. Confocal microscopy was utilized to analyze the microsphere surface at different stages of surface modification by employing fluorescent staining techniques. Sparely tethered supported lipid bilayer membranes were constructed successfully on streptavidin-functionalized silica particles (5 mum) using a detergent-based method in which tethered bR nucleates self-assembly of the bilayer membrane. The fluidity of the supported membranes was analyzed using fluorescence recovery after photobleaching in confocal imaging detection mode. The phospholipid diffusion coefficients obtained from these studies indicated that nativelike fluidity was achieved in the tether-supported membranes, thus providing a prospective microenvironment for insertion of membrane proteins of interest.     

Efficient delivery of streptavidin to mammalian cells: clathrin-mediated endocytosis regulated by a synthetic ligand

The efficient delivery of macromolecules to living cells presents a formidable challenge to the development of effective macromolecular therapeutics and cellular probes. We describe herein a novel synthetic ligand termed "Streptaphage" that enables efficient cellular uptake of the bacterial protein streptavidin by promoting noncovalent interactions with cholesterol and sphingolipid-rich lipid raft subdomains of cellular plasma membranes. The Streptaphage ligand comprises an N-alkyl derivative of 3 beta-cholesterylamine linked to the carboxylate of biotin through an 11-atom tether. Molecular recognition between streptavidin and this membrane-bound ligand promotes clathrin-mediated endocytosis, which renders streptavidin partially intracellular within 10 min and completely internalized within 4 h of protein addition. Analysis of protein uptake in Jurkat lymphocytes by epifluorescence microscopy and flow cytometry revealed intracellular fluorescence enhancements of over 300-fold (10 microM ligand) with >99% efficiency and low toxicity. Other mammalian cell lines including THP-1 macrophages, MCF-7 breast cancer cells, and CHO cells were similarly affected. Structurally related ligands bearing a shorter linker or substituting the protonated steroidal amine with an isosteric amide were ineffective molecular transporters. Confocal fluorescence microscopy revealed that Streptaphage-induced uptake of streptavidin functionally mimics the initial cellular penetration steps of Cholera toxin, which undergoes clathrin-mediated endocytosis upon binding to the lipid raft-associated natural product ganglioside GM1. The synthetic ligand described herein represents a designed cell surface receptor capable of targeting streptavidin conjugates into diverse mammalian cells by hijacking the molecular machinery used to organize cellular membranes. This technology has potential applications in DNA delivery, tumor therapy, and stimulation of immune responses.     

Silica colloidal crystals as three-dimensional scaffolds for supported lipid films

This report describes the assembly of laterally diffusive lipid layers within the pores of colloidal crystals for potential application in membrane-based sensing. The amount of lipid encapsulated within colloidal crystals depends upon the method used to introduce the lipid to the crystalline substrate. Relative to a planar supported lipid bilayer, lipid loading in a 6.6 microm thick crystal was 15-73 times greater, as observed by fluorescence microscopy. Protein adsorption studies indicate that the crystal pores are open and that the silica surface of the crystal is passivated with respect to adsorption of a model protein when coated with POPC. Furthermore, the mesoporous environment of the colloidal crystal is found to protect lipid films from drying and rehydration processes that destroy planar supported lipid bilayers. The potential of colloidal crystal encapsulated lipid films for chemical sensing is demonstrated by a model protein binding assay.     

Studies on structures of lipid A-monophosphate clusters

Single crystalline clusters of lipid A-monophosphate were grown from organic dispersions containing 5-15% (v/v) water at various volume fractions, φ, and temperatures. The morphology of the single lipid A-monophosphate crystals was either rhombohedral or hexagonal. The hexagonal crystals were needlelike or cylindrical in shape, with the long dimension parallel to the c axis of the unit cell. The crystalline clusters were studied using electron microscopy and x-ray powder diffraction. Employing molecular location methods following a Rietveld refinement and whole-pattern refinement revealed two monoclinic crystal structures in the space groups P2(1) and C2, both converged with R(F) = 0.179. The two monoclinic crystal structures were packing (hydrocarbon chains) and conformational (sugar) polymorphs. Neither of these two structures had been encountered previously. Only intramolecular hydrogen bonding was observed for the polymorphs, which were located between the amide and the carboxyl groups. Another crystalline structure was found in the volume-fraction range 2.00 × 10(-3) ≤ φ ≤ 2.50 × 10(-3), which displayed hexagonal symmetry. The hexagonal symmetry of the self-assembled lipid A-monophosphate crystalline phase might be reconciled with the monoclinic symmetry found at low-volume-fractions. Therefore, lowering the symmetry from cubic, i.e., Ia 3d, to rhombohedral R 3 m, and finally to the monoclinic space group C2 was acceptable if the lipid A-monophosphate anion was completely orientationally ordered.     

High-affinity tags fused to s-layer proteins probed by atomic force microscopy

Two-dimensional, crystalline bacterial cell surface layers, termed S-layers, are one of the most commonly observed cell surface structures of prokaryotic organisms. In the present study, genetically modified S-layer protein SbpA of Bacillus sphaericus CCM 2177 carrying the short affinity peptide Strep-tag I or Strep-tag II at the C terminus was used to generate a 2D crystalline monomolecular protein lattice on a silicon surface. Because of the genetic modification, the 2D crystals were addressable via Strep-tag through streptavidin molecules. Atomic force microscopy (AFM) was used to investigate the topography of the single-molecules array and the functionality of the fused Strep-tags. In high-resolution imaging under near-physiological conditions, structural details such as protein alignment and spacing were resolved. By applying molecular recognition force microscopy, the Strep-tag moieties were proven to be fully functional and accessible. For this purpose, streptavidin molecules were tethered to AFM tips via approximately 8-nm-long flexible polyethylene glycol (PEG) linkers. These functionalized tips showed specific interactions with 2D protein crystals containing either the Strep-tag I or Strep-tag II, with similar energetic and kinetic behavior in both cases.     

Soft lithographic patterning of supported lipid bilayers onto a surface and inside microfluidic channels

We present simple soft lithographic methods for patterning supported lipid bilayer (SLB) membranes onto a surface and inside microfluidic channels. Micropatterns of polyethylene glycol (PEG)-based polymers were fabricated on glass substrates by microcontact printing or capillary moulding. The patterned PEG surfaces have shown 97 +/- 0.5% reduction in lipid adsorption onto two dimensional surfaces and 95 +/- 1.2% reduction inside microfluidic channels in comparison to glass control. Atomic force microscopy measurements indicated that the deposition of lipid vesicles led to the formation of SLB membranes by vesicle fusion due to hydrophilic interactions with the exposed substrate. Furthermore, the functionality of the patterned SLBs was tested by measuring the binding interactions between biotin (ligand)-labeled lipid bilayer and streptavidin (receptor). SLB arrays were fabricated with spatial resolution down to approximately 500 nm on flat substrate and approximately 1 microm inside microfluidic channels, respectively.     

Spontaneous formation and characterization of silica mesoporous crystal spheres with reverse multiply twinned polyhedral hollows

A crystal is an object with translational symmetry. Basic research into and production of new materials necessitates the preparation of crystals of a particular morphology and with well-defined crystal defects. In this work, we found novel silica mesoporous crystal spheres with polyhedral hollows (icosahedral, such as those observed for proteins of virus capsids, decahedral, Wulff polyhedral, etc.) formed by the reverse multiply twinned bicontinuous double diamond mesostructure. Vesicles with a low-curvature lamellar structure were first formed by the self-assembly of amphiphilic carboxylic acid molecules in the presence of a nonionic surfactant and then underwent a structural transformation process that gave a reverse multiply twinned mesoporous shell while maintaining the hollow shape. These polyhedral hollow crystals showed an enhanced contrast of backscattering signatures relative to the incident acoustic signals and thus could be used as a potential contrast agent in medical ultrasonography with drug loadings in the mesopores.     

Influence of surface chemistry and protein concentration on the adsorption rate and S-layer crystal formation

Bacterial crystalline surface layers (S-layers) are the outermost envelope of prokaryotic organisms representing the simplest biological membranes developed during evolution. In this context, the bacterial protein SbpA has already shown its intrinsic ability to reassemble on different substrates forming protein crystals of square lattice symmetry. In this work, we present the interaction between the bacterial protein SbpA and five self-assembled monolayers carrying methyl (CH(3)), hydroxyl (OH), carboxylic acid (COOH) and mannose (C(6)H(12)O(6)) as functional groups. Protein adsorption and S-layer formation have been characterized by atomic force microscopy (AFM) while protein adsorption kinetics, mass uptake and the protein layer viscoelastic properties were investigated with quartz crystal microbalance with dissipation monitoring (QCM-D). The results indicate that the protein adsorption rate and crystalline domain area depend on surface chemistry and protein concentration. Furthermore, electrostatic interactions tune different protein rate adsorption and S-layer recrystallization pathways. Electrostatic interactions induce faster adsorption rate than hydrophobic or hydrophilic interactions. Finally, the shear modulus and the viscosity of the recrystallized S-layer on CH(3)C(6)S, CH(3)C(11)S and COOHC(11)S substrates were calculated from QCM-D measurements. Protein-protein interactions seem to play a main role in the mechanical stability of the formed protein (crystal) bilayer.     

Ligand-induced reorganization and assembly in synthetic lipid membranes

Membrane targetting of soluble ligands accompanied by assembly of membrane components into functional superstructures underlies biological signal transduction and a variety of other processes ranging from blood coagulation to biomineralization. Protein or lipid components provide the interactions required for targetting and specific orientation of bound molecules; the membrane's fluidity allows reorganization and sampling of intermolecular contacts required for assembly into superstructures. We are developing synthetic membrane-based recognition systems capable of reproducing important features of biological targetting and assembly. Systems such as these may open up new routes to controlling molecular architecture in materials and devices. Specially designed metal-chelating receptor/reporter lipids have been used to study lipid reorganization induced by binding of metal-complexing ligands. Proteins and peptides are targetted to the Cu²⁺- and Ni²⁺-complexing lipids via coordination interactions with surface histidines. Binding and assembly of multivalent ligands are accompanied by reorganization of the lipid receptors, as measured by fluorescence spectroscopy and fluorescence microscopy. Coordination interactions between protein and chelating lipid components can be used for direct assembly into superstructures such as patterned lipid monolayers and two-dimensional protein crystals.     

Colloidal crystals from surface-tension-assisted self-assembly: a novel matrix for single-molecule experiments

In this work, we develop a new method of creating colloidal crystals with cavities for the entrapment and long-term observation of single biomolecules. Colloidal crystals are first fabricated using surface-tension-assisted self-assembly. Surface tension helps to reduce the interparticle distance between dispensed colloids. Subsequently, the colloids are used as a matrix in which single fluorescently tagged molecules can be tracked using fluorescence microscopy. This method has a high efficiency of self-assembly for small volumes (4 microL) of colloidal suspensions (polystyrene colloids with diameters of 1000, 500, 200, and 100 nm) at low concentration (1% w/w). The spatial hindrance effect on the diffusion of molecules and their entrapment is discussed on the basis of fluorescence correlation spectroscopy results from the diffusion of molecules with different hydrodynamic radii in the cavities of colloidal crystals formed from micrometer- to nanometer-sized polystyrene spheres. Single horseradish peroxidase molecules turning over fluorescent products are tracked over a few seconds. This shows that colloidal crystals can be used to test the function of single molecules of enzymes and protein under controlled spatial confinement.     

Lipid nanotube formation from streptavidin-membrane binding

A novel transformation of giant lipid vesicles to produce nanotubular structures was observed upon the binding of streptavidin to biotinylated membranes. Unlike membrane budding and tubulation processes caused by proteins involved with endocytosis and vesicle fusion, streptavidin is known to crystallize at near the isoelectric point (pI 5 to 6) into planar sheets against biotinylated films. We have found, however, that at neutral pH membranes of low bending rigidity (<10kT), such as 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), spontaneously produce tubular structures with widths ranging from micrometers to below the diffraction limit (<250 nm) and lengths spanning up to hundreds of micrometers. The nanotubes were typically held taut between surface-bound vesicles suggesting high membrane tension, yet the lipid nanotubes exhibited a fluidic nature that enabled the transport of entrained vesicles. Confocal microscopy confirmed the uniform coating of streptavidin over the vesicles and nanotubes. Giant vesicles composed of lipid membranes of higher bending energy exhibited only aggregation in the presence of streptavidin. Routes toward the development of these highly curved membrane structures are discussed in terms of general protein-membrane interactions.     

Structure and dynamics of crystalline protein layers bound to supported lipid bilayers

We study proteins at the surface of bilayer membranes using streptavidin and avidin bound to biotinylated lipids in a supported lipid bilayer (SLB) at the solid-liquid interface. Using X-ray reflectivity and simultaneous fluorescence microscopy, we characterize the structure and fluidity of protein layers with varied relative surface coverages of crystalline and noncrystalline protein. With continuous bleaching, we measure a 10-15% decrease in the fluidity of the SLB after the full protein layer is formed. We propose that this reduction in lipid mobility is due to a small fraction (0.04) of immobilized lipids bound to the protein layer that create obstacles to membrane diffusion. Our X-ray reflectivity data show a 40 A thick layer of protein, and we resolve an 8 A layer separating the protein layer from the bilayer. We suggest that the separation provided by this water layer allows the underlying lipid bilayer to retain its fluidity and stability.     

Morphological orders of spherulitic crystal textures in Belousov-Zhabotinsky-type oscillatory reaction system

The morphological orders of spherulitic crystal patterns in a Belousov-Zhabotinsky-type oscillatory reaction system were studied. The experiments showed that the morphology of crystal patterns were highly dependent on the reaction temperature. The reaction was initially carried out at 30 °C, leading to the growth of multi-centred spherulitic patterns. The single-centred spherulitic patterns with fairly large crystal fibrils were obtained at 35°C. A number of undersized crystal assemblies with fractal geometry were also investigated at 25°C. The gross morphology of the crystal patterns was examined using optical microscopy and a scanning electron microscope which revealed the fibrous organisations. A particle-mediated self-assembly scheme was proposed for the growth of the spherulitic patterns. The insight into the nucleation mechanism, growth behaviour, and morphological orders of the growing patterns is discussed in detail. The crystal phases, ordering of textures, and composition of the crystals were characterised by thermal and X-ray diffraction techniques.     

The molecular basis of self-assembly of dendron-rod-coils into one-dimensional nanostructures

We describe here a comprehensive study of solution and solid-state properties of self-assembling triblock molecules composed of a hydrophilic dendron covalently linked to an aromatic rigid rod segment, which is in turn connected to a hydrophobic flexible coil. These dendron-rod-coil (DRC) molecules form well-defined supramolecular structures that possess a ribbonlike morphology as revealed by transmission-electron and atomic-force microscopy. In a large variety of aprotic solvents, the DRC ribbons create stable networks that form gels at concentrations as low as 0.2% by weight DRC. The gels are thermally irreversible and do not melt at elevated temperatures, indicating high stability as a result of strong noncovalent interactions among DRC molecules. NMR experiments show that the strong interactions leading to aggregation involve mainly the dendron and rodlike blocks, whereas oligoisoprene coil segments remain solvated after gelation. Small-angle X-ray scattering (SAXS) profiles of different DRC molecules demonstrate an excellent correlation between the degree-of-order in the solid-state and the stability of gels. Studies on two series of analogous molecules suggest that self-assembly is very sensitive to subtle structural changes and requires the presence of at least four hydroxyl groups in the dendron, two biphenyl units in the rod, and a coil segment with a size comparable to that of the rodlike block. A detailed analysis of crystal structures of model compounds revealed the formation of stable one-dimensional structures that involve two types of noncovalent interactions, aromatic pi-pi stacking and hydrogen bonding. Most importantly, the crystal structure of the rod-dendron compound shows that hydrogen bonding not only drives the formation of head-to-head cyclic structures, but also generates multiple linkages between them along the stacking direction. The cyclic structures are tetrameric in nature and stack into ribbonlike objects. We believe that DRC molecules utilize the same arrangement of hydrogen bonds and stacking of aromatic blocks observed in the crystals, explaining the exceptional stability of the nanostructures in extremely dilute solutions as well the thermal stability of the gels they form. This study provides mechanistic insights on self-assembly of triblock molecules, and unveils general strategies to create well-defined one-dimensional supramolecular objects.     

Visualizing the crystal structure and locating the catalytic activity of micro- and mesoporous ZSM-5 zeolite crystals by using in situ optical and fluorescence microscopy

A combination of optical and fluorescence microscopy was used to study the morphology of micro‐ and mesoporous H‐ZSM‐5 zeolite crystals (17×4×4 μm) and to evaluate, in a spatially resolved manner, the effect of mesoporosity, introduced via desilication, on catalytic performance. For this purpose, the oligomerization of various styrene molecules was used as a model reaction, in which the carbocation intermediates formed in the zeolite pores act as reporter molecules. In situ confocal fluorescence measurements after the template removal process showed that the crystals generally consist of three different subunits that have pyramidal boundaries with each other. Examination of these crystals during styrene oligomerization revealed differences in the catalytic activity between the purely microporous and the combined micro‐ and mesoporous crystals. The introduction of intracrystalline mesoporosity limits the formation to dimeric carbocation intermediates and facilitates the transport of styrene molecules inside the zeolite volume. This leads to a more uniform coloration and fluorescence pattern of the crystals. Moreover, the oligomerization of various styrene compounds, which differ in their reactivity, provides a good way of estimating the Brønsted acid strength in a spatially resolved manner, showing a nonhomogeneously distributed Brønsted acidity over the volume of the crystals. More detailed information on the structure of the ZSM‐5 crystals was revealed for mesoporous crystals during the oligomerization of 4‐methoxystyrene. This reaction induced an “explosion” of the crystal leading to the formation of a complex system with at least eight different subunits. Finally, polarized‐light microscopy was used to unravel the pore geometry in these individual building blocks. The observed differences in catalytic behavior between micro‐ and mesoporous ZSM‐5 crystals are strengthened by the microspectroscopic techniques employed, which show that upon desilication the crystal morphology is affected, the product distribution is changed towards less conjugated carbocation intermediates, and that a gradient in Brønsted acid strength appears to be present.     

Influence of functional groups on the self-assembly of liquid crystals

Functional groups in the molecule play an important role in the molecular o rganization process.To reveal the influence of functional groups on the self-assembly at interface,herein,the self-assembly structures of three liquid crystal molecules,which only differ in the functional groups,are explicitly characterized by using scanning tunneling microscopy(STM).The high-resolution STM images demonstrate the difference between the supramolecular assembly structures of three liquid crystal molecules,which attribute to the hydrogen bonding interaction and π-π stacking interaction between different functional groups.The density functional theory(DFT) results also confirm the influence of these functional groups on the self-assemblies.The effort on the self-assembly of liquid crystal molecules at interface could enhance the understanding of the supramolecular assembly mechanism and benefit the further application of liquid crystals.