Structures of Cytochrome b_5 Mutated at the Charged Surface-Residues and Their Interactions with Cytochrome c

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Ferrocenyl-functionalized silica nanoparticles: preparation, characterization, and molecular recognition at interfaces

Ferrocenyl-functionalized silica nanoparticles (Fc-SiO(2), 6a-6c) of about 60 nm with supramolecular "guest" properties were prepared. Nanoparticles 6a-6c differed by the addition of different molar ratios of starting compounds during the functionalization step, i.e., 1:0, 1:10, and 1:90 of 2-ferrocenyl amidoethoxyethanol and diethylene glycol for 6a,6b, and 6c, respectively. X-ray photoelectron spectroscopy (XPS) proved the presence of ferrocenyl groups on the surfaces of 6a-6c, whereas the elemental analysis revealed an iron content of particles 6a-6c of 0.10-0.16%. Dynamic light scattering (DLS) results showed that, compared with 6a, 6b dispersed well in aqueous media, possibly due to the presence of diethylene glycol at the surfaces of 6b that significantly increases its overall hydrophilicity. Cyclic voltammetry of 6b indicated a totally irreversible system and a "mixed" diffusion-adsorption behavior, which is attributed to sluggish electron transfer. The shifted |I(p,C)/I(p,A*)| ratio showed that the ferrocenyl groups are robustly attached to the nanoparticle surface within the experimental potential range. The supramolecular recognition of Fc-SiO(2) nanoparticles at interfaces was verified by their adsorption on beta-cyclodextrin (beta-CD) self-assembled monolayers, as monitored by surface plasmon resonance (SPR) spectroscopy. The ability of the Fc-SiO(2) nanoparticles to form host-guest interactions was also demonstrated by the attachment of beta-CD-functionalized Au nanoparticles (2.8 nm) on the Fc-SiO(2) surfaces, when mixed in solution.     

Total Synthesis of Ouabagenin and Ouabain

All done! A full account of the total synthesis of ouabagenin and ouabain has been described. The synthesis was achieved through a polyanionic cyclization strategy. Degradation studies provide an ultimate proof for a key intermediate observed in the synthesis.

     

Gd(III) chelates as NMR probes of protein-protein interactions. Case study: rubredoxin and cytochrome c3

Two cyclen-derived Gd probes, [Gd-DOTAM](3+) and [Gd-DOTP](5-) (DOTAM = 1,4,7,10-tetraazacyclododecane-1,4,7,10-tetraacetamide; DOTP = 1,4,7,10-tetraazacyclododecane-1,4,7,10-tetrakis(methylenephosphonate)), were assessed as paramagnetic relaxation enhancement (PRE)-inducing probes for characterization of protein-protein interactions. Two proteins, Desulfovibrio gigas rubredoxin and Desulfovibrio gigas cytochrome c(3), were used as model partners. In a (1)H NMR titration it was shown that [Gd-DOTP](5-) binds to cytochrome c(3) near heme IV, causing pronounced PREs, characterized by line width broadenings of the heme methyl resonances at ratios as low as 0.08. A K(d) of 23 ± 1 μM was calculated based on chemical shift perturbation of selected heme methyl resonances belonging to three different heme groups, caused by allosteric effects upon [Gd-DOTP](5-) binding to cytochrome c(3) at a molar ratio of 2. The other probe, [Gd-DOTAM](3+), caused PREs on a well-defined patch near the metal center of rubredoxin (especially the patch constituted by residues D19-G23 and W37-S45, which broaden beyond detection). This effect was partially reversed for some resonances (C6-Y11, in particular) when cytochrome c(3) was added to this system. Both probes were successful in causing reversible PREs at the partner binding site, thus showing to be good probes to identify partners' binding sites and since the interaction is reversible to structurally characterize protein complexes by better defining the complex interface.     

Weak interactions and molecular recognition in systems involving electron transfer proteins

Electrostatic interactions and other weak interactions between amino acid side chains on protein surfaces play important roles in molecular recognition, and the mechanism of their intermolecular interactions has gained much interest. We established that charged peptides are useful for investigating the molecular recognition character of proteins and their molecular interaction induced structural changes. Positively charged lysine peptides competitively inhibited electron transfer from reduced cytochrome f (cyt f or cytochrome c (cyt c) to oxidized plastocyanin (PC), due to neutralization of the negatively charged site of PC by formation of PC-lysine peptide complexes. Lysine peptides also inhibited electron transfer from cyt c to cytochrome c peroxidase. Likewise, negatively charged aspartic acid peptides interacted with the positively charged sites of cytfand cyt c, and competitively inhibited electron transfer from reduced cytfor cyt c to oxidized PC and from [Fe(CN)6]4- to oxidized cyt c. Changes in the geometry and a shift to a higher redox potential of the active site Cu of PC on oligolysine binding were detected by spectroscopic and electrochemical measurements, owing to the absence of absorption in the visible region for lysine peptides. Structural and redox potential changes were also observed for cyt f and cyt c by interaction with aspartic acid peptides.     

Cytochrome c-crown ether complexes as supramolecular catalysts: cold-active synzymes for asymmetric sulfoxide oxidation in methanol

A series of supramolecular complexes of various cytochrome c proteins with 18-crown-6 derivatives behave as cold-active synzymes in the H2O2 oxidation of racemic sulfoxides. This interesting behavior contrasts with native functionality, where the employed proteins act as electron transfer carriers. ESI-MS. UV, CD, and Raman spectroscopic characterizations reveal that four or five 18-crown-6 molecules strongly bind to the surface of the cytochrome c and also that nonnatural low-spin hexacoordinate heme structures are induced in methanol. Significantly, crown ether complexation can convert catalytically inactive biological forms to catalytically active artificial forms. Horse heart, pigeon breast, and yeast cytochromes c all stereoselectively oxidize (S)-isomers of methyl tolyl sulfoxide and related sulfoxides upon crown ether complexation. These supramolecular catalysts show the highest efficiency and enantiomer selectivity at -40 degrees C in the H202-dependent sulfoxide oxidation, while oxidative decomposition of the heme moieties predominantly occurs at room temperature. The oxidation reactivity of the employed sulfoxides is apparently related to steric constraints and electrochemical oxidation potentials of their S=O bonds. Among the cytochrome c complexes, yeast cytochrome c demonstrates the lowest catalytic activity and degradation reactivity. It has a significantly different protein sequence, suggesting that crown ether complexation effectively activates heme coordination but may additionally alter the native backbone structure. The proper combination of cytochrome c proteins, 18-crown-6 receptors, and external circumstances can be used to successfully generate "protein-based supramolecular catalysts" exhibiting nonbiological reactivities.     

Molecular Rods with Oligospiroketal Backbones as Anchors in Biological Membranes

Getting stuck in : A hydrophobic molecular rod with terminal fluorescent moieties has been synthesized. The insertion of the rod into membranes was investigated and shown to incorporate efficiently into model and biological membranes (see picture; gray C, blue N, red O). Those rods can be used as stable membrane‐associated anchors for functionalization of membrane surfaces.

     

Anion sensing using colorimetric amidourea based receptors incorporated into a 1,3-disubstituted calix[4]arene

The synthesis of amidourea-based colorimetric anion sensors 1 and 2 and the evaluation of these sensors using anions such as acetate , fluoride (F⁻), hydrogen phosphate and hydrogenpyrophosphate (pyr) in DMSO is described. While 1 has a single amidourea moiety, 2 has two such receptors incorporated into a lower-rim 1,3-disubstituted calix[4]arene scaffold. Whilst both sensors gave rise to red shifts in their absorption spectra upon anion recognition, the sensing of F⁻ and pyr gave rise to large changes with concomitant colour changes from yellow to purple, which were visible to the naked eye.     

Promoting Cardiomyogenesis of hBMSC with a Forming Self‐Assembly hBMSC Microtissues/HA‐GRGD/SF‐PCL Cardiac Patch Is Mediated by the Synergistic Functions of HA‐GRGD

Bone marrow‐derived mesenchymal stem cell microtissues (BMSCMT) enhanced cardiomyogenesis in vitro and cardiac repairs of myocardial infarcted hearts in vivo are documented. Producing human BMSCMT onto patches in vitro for cardiac tissue engineering has not been reported. For possibly producing human bone marrow–derived mesenchymal stem cell microtissues (hBMSCMT) on an elastic silk fibroin (SF)‐poly(ε‐caprolactone) (PCL) based patches is hereby designed. After an elastic SF‐PCL (SP) patch is fabricated, hyaluronic acid (HA)/SF‐PCL(HSP) and HA‐GRGD/SF‐PCL(HGSP) patches are fabricated by photochemically grafting HA and HA‐GRGD onto SP surfaces. The results show that the proliferations of hBMSC on HGSP patches significantly exceed those on the other patches, as determined by 3‐(4,5‐dimethylthiazol‐2‐yl)‐5‐(3‐carboxymethoxyphenyl)‐2‐(4‐sulfophenyl)‐2H‐tetrazolium assay. Notably, the formation of 5‐aza inducing cardiomyogenic differentiations of hBMSCMT/HGSP patches is observed with typical sizes of ≈317 μm wide and 26 μm high. The cardiomyogenesis of hBMSCMT/HGSP patches including the expressions of cardiac‐specific genes (e.g., Gata4) and proteins (e.g., connexin43 (CX43)) significantly exceeds those of hBMSC monolayer on the HSP and SP patches. Promoting in vitro cardiomyogenesis of hBMSC with forming cardiomyogenic differentiation of hBMSCMT/HGSP hybrid patch is possibly mediated by the synergistic functions of HA‐GRGD on enhancing the activity of F‐actin. The hBMSCMT/HGSP cardiac patch may be further employed to cardiac tissue engineering.

     

Tandem mass spectrometry of protein—Protein complexes: Cytochrome c—Cytochrome b 5

An improved method to interpret triple quadrupole MS/MS experiments of complexes of large ions is presented and applied to a study of the complex formed by the proteins cytochrome c and cytochrome b5. Modeling of the activation and dissociation process shows that most of the reaction occurs near the collision cell exit where ions have the highest internal energies. Experiments at different collision cell pressures or with different collision gases (Ne, Ar, Kr) are interpreted with a previously proposed collision model (Chen et al., Rapid Commun. Mass Spectrom. 1998, 12, 1003-1010) to calculate the internal energy added to ions to cause dissociation. Small but systematic differences under different experimental conditions are attributed to different times available for reaction. A method to correct for this is presented. Ne, Ar, and Kr are found to have similar energy transfer efficiencies. Complexes of cytochrome c and cytochrome b5 are detected in ESI mass spectra but with abundances less than expected from the solution equilibrium. Dissociation of the cytochrome c-cytochrome b5 complexes with charge k gives as the most abundant fragments, cytochrome b5(+3) and cytochrome c+(k-3). Adding charges to the complex destabilizes it. A series of cytochrome c variants with Lys residues thought to be involved in solution binding replaced by Ala showed no differences in the energy required to induce dissociation of the gas phase complex. The implications for the binding of the gas phase ions are inconclusive.     

Nanosensing of Fcγ receptors on macrophages

Determining the distribution of specific binding sites on biological samples with high spatial accuracy (in the order of several nanometer) is an important challenge in many fields of biological science. Combination of high-resolution atomic force microscope (AFM) topography imaging with single-molecule force spectroscopy provides a unique possibility for the detection of specific molecular recognition events. The identification and localization of specific receptor binding sites on complex heterogeneous biosurfaces such as cells and membranes are of particular interest in this context. Simultaneous topography and recognition imaging was used to unravel the nanolandscape of cells of the immune system such as macrophages. The most studied phagocytic receptors include the Fc receptors that bind to the Fc portion of immunoglobulins. Here, nanomapping of FcγRs (Fc receptors for immunoglobulin G (IgG)) was performed on fixed J774.A1 mouse macrophage cell surfaces with magnetically coated AFM tips functionalized with Fc fragments of mouse IgG via long and flexible poly(ethylene glycol) linkers. Because of possible AFM tip engulfment on living macrophages, appropriate cell fixation procedure leaving the binding activity of FcγRs practically intact was elaborated. The recognition maps revealed prominent spots (microdomains) more or less homogeneously distributed on the macrophage surface with the sizes from 4 to 300 nm. Typical recognition image contained about ∼4% of large clusters (>200 nm), which were surrounded by a massive number (∼50%) of small-size (4–30 nm) and the rest by middle-size (50, 150 nm) domains. These spots were detected from the decrease of oscillation amplitude during specific binding between Fc-coated tip and FcγRs on macrophage surfaces. In addition, the effect of osmotic swelling on the topographical landscape of macrophage surfaces and on the reorganization of FcγRs was investigated.     

Recent Development of Durable and Self‐Healing Surfaces with Special Wettability

Artificial special wetting surfaces have drawn much interest due to their important applications in many fields. Nevertheless, tremendous challenges still remain for the fabrication of wetting surfaces with durable and self‐healing properties. Here, recent progress of durable, self‐healing wetting surfaces is highlighted by discussing the fabrications of several typical wetting surfaces including superhydrophobic surfaces, superamphiphobic surfaces, underwater superoleophobic surfaces, and high hydrophilic antifouling surfaces based on expertise and related research experience. To conclude, some perspectives on the future research and development of these special wetting surfaces are presented.

     

Surface plasmon resonance spectroscopy-based high-throughput screening of ligands for use in affinity and displacement chromatography

We describe an approach that uses surface plasmon resonance (SPR) spectroscopy and self-assembled monolayers (SAMs) for the high-throughput screening of ligands for use in displacement and affinity chromatographic processes. We identified a set of commercially available organic amines and allowed them to react with SAMs presenting interchain carboxylic anhydride groups; the resulting surfaces presented ligands of interest in a background of carboxylic acid groups. We used SPR spectroscopy to determine the extent of adsorption of two model proteinslysozyme and cytochrome conto these "multimodal" surfaces and to select promising "affinity" ligands for further characterization. The attachment of selected ligands to UltraLink Biosupport resulted in beads with a significantly greater affinity for lysozyme than for cytochrome c that would be suitable for use in affinity chromatographic processes. Furthermore, we also used the screens to design "affinity displacers"small molecules that selectively retain lysozyme on chromatographic resins, while displacing cytochrome c. The combination of SPR spectroscopy and SAMs represents a powerful technique for identifying novel ligands that enable the purification of complex protein mixtures.     

Towards Nanowriting on Plastics: Dip‐Pen Nanolithography of Acrylamido‐Functionalized Oligonucleotides on Polystyrene

Model high density DNA arrays have been realized by direct deposition with Dip‐Pen Nanolithography of acrylamido‐functionalized oligonucleotides (23‐mer) on spin‐coated, flat polystyrene surfaces. A highly specific interaction between the acrylamide end functionality and polystyrene was found. The surface morphology of the model array was studied by atomic force microscopy (AFM). Spots are clearly seen both in topography and demodulation modes. The array withstands the hybridization process with label free, complementary oligonucleotides and the following cleaning procedures. The final AFM characterization showed significant changes especially in demodulation images which may be an indication that molecular recognition between complementary oligos has occurred.

     

Heterobifunctional Poly(ethylene glycol) Derivatives for the Surface Modification of Gold Nanoparticles Toward Bone Mineral Targeting

Heterobifunctional poly(ethylene glycol)s can be used for many biomedical applications ranging from solubility enhancement of hardly soluble compounds to surface modification of medical devices. In order to modify gold nanoparticles as model particles for drug targeting applications, PEG derivatives are synthesized that possess a high affinity for gold surfaces, namely a thioalkyl function, known to form stable monolayers on gold. Additionally a bisphosphonate function is introduced in the PEG molecule to allow targeting of hydroxyapatite rich tissues, like bone. Gold nanoparticles are modified using the synthesized bifunctional PEG and investigated for their stability in biological fluids and their ability to bind to hydroxyapatite granules in these fluids.

     

Bifunctional Nanoparticles Constructed Using One‐Pot Encapsulation of a Fluorescent Polymer and Magnetic (Fe3O4) Nanoparticles in a Silica Shell

Integration of biocompatible silica with a fluorescent polymer (PDDF) and superparamagnetic iron oxide nanoparticles (Fe₃O₄) to form uniform core–shell nanostructures has the great potential to form particles for use in multimodal bioimaging applications. Core–shell nanoparticles (PDDF/Fe₃O₄@SiO₂) exhibit fluorescent and magnetic properties that are favorable for their use in magnetic separation and guiding applications, as well as optical and magnetic resonance (MR) imaging capabilities. With the biological analysis in an in vitro intracellular permeation and cytotoxicity test, chemical conjugation of the surface using folic acid (FA) molecules can provide the nanoparticles with cell‐targeting properties, localizing the nanoparticles to folate receptors (FRs) on target KB cells that over‐express the FRs.

     

Post‐Plasma Grafting of AEMA as a Versatile Tool to Biofunctionalise Polyesters for Tissue Engineering

In the last decade, substantial research in the field of post‐plasma grafting surface modification has focussed on the introduction of carboxylic acids on surfaces by grafting acrylic acid (AAc). In the present work, we report on an alternative approach for biomaterial surface functionalisation. Thin poly‐ε‐caprolactone (PCL) films were subjected to a dielectric barrier discharge Ar‐plasma followed by the grafting of 2‐aminoethyl methacrylate (AEMA) under UV‐irradiation. X‐ray photoelectron spectroscopy (XPS) confirmed the presence of nitrogen. The ninhydrin assay demonstrated, both quantitatively and qualitatively, the presence of free amines on the surface. Confocal fluorescence microscopy (CFM), atomic force microscopy (AFM) and scanning electron microscopy (SEM) were used to visualise the grafted surfaces, indicating the presence of pAEMA. Static contact angle (SCA) measurements indicated a permanent increase in hydrophilicity. Furthermore, the AEMA grafted surfaces were applied for comparing the physisorption and covalent immobilisation of gelatin. CFM demonstrated that only the covalent immobilisation lead to a complete coverage of the surface. Those gelatin‐coated surfaces obtained were further coated using fibronectin. Osteosarcoma cells demonstrated better cell‐adhesion and cell‐viability on the modified surfaces, compared to the pure PCL films.

     

Unequivocal determination of metal atom oxidation state in naked heme proteins: Fe(III)myoglobin, Fe(III)cytochrome c, Fe(III)cytochrome b5, and Fe(III)cytochrome b5 L47R

Unambiguous determination of metal atom oxidation state in an intact metalloprotein is achieved by matching experimental (electrospray ionization 9.4 tesla Fourier transform ion cyclotron resonance) and theoretical isotopic abundance mass distributions for one or more holoprotein charge states. The ion atom oxidation state is determined unequivocally as Fe(III) for each of four gas-phase unhydrated heme proteins electrosprayed from H2O: myoglobin, cytochrome c, cytochrome b5, and cytochrome b5 L47R (i.e., the solution-phase oxidation state is conserved following electrospray to produce gas-phase ions). However, the same Fe(III) oxidation state in all four heme proteins is observed after prior reduction by sodium dithionite to produce Fe(II) heme proteins in solution: thus proving that oxygen was present during the electrospray process. Those results bear directly on the issue of similarity (or lack thereof) of solution-phase and gas-phase protein conformations. Finally, infrared multiphoton irradiation of the gas-phase Fe(III)holoproteins releases Fe(III)heme from each of the noncovalently bound Fe(III)heme proteins (myoglobin, cytochrome b5 and cytochrome b5 L47R), but yields Fe(II)heme from the covalently bound heme in cytochrome c.     

Hydrophobic forces, electrostatic steering, and acid-base bridging between atomically smooth self-assembled monolayers and end-functionalized PEGolated lipid bilayers

A molecular level understanding of interaction forces and dynamics between asymmetric apposing surfaces (including end-functionalized polymers) in water plays a key role in the utilization of molecular structures for smart and functional surfaces in biological, medical, and materials applications. To quantify interaction forces and binding dynamics between asymmetric apposing surfaces in terms of their chemical structure and molecular design we developed a novel surface forces apparatus experiment, using self-assembled monolayers (SAMs) on atomically smooth gold substrates. Varying the SAM head group functionality allowed us to quantitatively identify, rationalize, and therefore control which interaction forces dominated between the SAM surfaces and a surface coated with short-chain, amine end-functionalized polyethylene glycol (PEG) polymers extending from a lipid bilayer. Three different SAM-terminations were chosen for this study: (a) carboxylic acid, (b) alcohol, and (c) methyl head group terminations. These three functionalities allowed for the quantification of (a) specific acid-base bindings, (b) steric effects of PEG chains, and (c) adhesion of hydrophobic segments of the polymer backbone, all as a function of the solution pH. The pH-dependent acid-base binding appears to be a specific and charge mediated hydrogen bonding interaction between oppositely charged carboxylic acid and amine functionalities, at pH values above the acid pK(A) and below the amine pK(A). The long-range electrostatic "steering" of acid and base pairs leads to remarkably rapid binding formation and high binding probability of this specific binding even at distances close to full extension of the PEG tethers, a result which has potentially important implications for protein folding processes and enzymatic catalysis.