Peptoid oligomers with alpha-chiral, aromatic side chains: sequence requirements for the formation of stable peptoid helices.

The achiral backbone of oligo-N-substituted glycines or "peptoids" lacks hydrogen-bond donors, effectively preventing formation of the regular, intrachain hydrogen bonds that stabilize peptide alpha-helical structures. Yet, when peptoids are N-substituted with alpha-chiral, aromatic side chains, oligomers with as few as five residues form stable, chiral, polyproline-like helices in either organic or aqueous solution. The adoption of chiral secondary structure in peptoid oligomers is primarily driven by the steric influence of these bulky, chiral side chains. Interestingly, peptoid helices of this class exhibit intense circular dichroism (CD) spectra that closely resemble those of peptide alpha-helices. Here, we have taken advantage of this distinctive spectroscopic signature to investigate sequence-related factors that favor and disfavor stable formation of peptoid helices of this class, through a comparison of more than 30 different heterooligomers with mixed chiral and achiral side chains. For this family of peptoids, we observe that a composition of at least 50% alpha-chiral, aromatic residues is necessary for the formation of stable helical structure in hexameric sequences. Moreover, both CD and 1H-13C HSQC NMR studies reveal that these short peptoid helices are stabilized by the placement of an alpha-chiral, aromatic residue on the carboxy terminus. Additional stabilization can be provided by the presence of an "aromatic face" on the helix, which can be patterned by positioning aromatic residues with three-fold periodicity in the sequence. Extending heterooligomer chain length beyond 12-15 residues minimizes the impact of the placement, but not the percentage, of alpha-chiral aromatic side chains on overall helical stability. In light of these new data, we discuss implications for the design of helical, biomimetic peptoids based on this structural motif.     

Tuning the Excited State of Photoactive Building Blocks for Metal‐Templated Self‐Assembly

The reaction of 2,2′:4,4′′:4′,4′′′‐quaterpyridyl (qtpy), with d⁶ ruthenium(II) (Ru^II), and rhenium(I) (Re^I) metal centers has been investigated. The pendant pyridyl groups on the products have also been methylated to produce a second series of complexes containing coordinated Meqtpy²⁺. The absorption spectra of the complexes are dominated by intraligand and charge‐transfer bands. The ruthenium(II) complexes display broad unstructured luminescence consistent with emission from a Ru(d)→diimine(π*) manifold in acetonitrile solutions. In aqueous solutions, their emissions are weaker and the lifetimes are shorter. This effect is particularly acute for complexes incorporating coordinated dipyridylpyrazine, dppz, ligands. Although the emission of the ruthenium(II) complexes containing Meqtpy²⁺ is generally shorter than their qtpy analogs, it is notable that solvent‐dependent effects are much less intense. The rhenium(I) complexes also display broad unstructured luminescence but, compared with the ruthenium(II) systems, they have a relatively short lifetime in acetonitrile. Electrochemical studies reveal that all of the Ru^II complexes display chemically reversible metal‐based oxidations. Re^I complexes only display irreversible metal‐based oxidations. In most cases, the reduction processes were not fully chemically reversible. The electrochemical and optical studies reveal that the nature of the lowest excited state of these complexes—particularly, the systems incorporating dppz—is highly dependent on the nature of the coordinated ligands. Calculations indicate that, although the excited state of most of the complexes is centered on the qtpy or Meqtpy²⁺ ligands, the excited state of the complexes containing dppz ligands is switched away from the dppz by qtpy methylation. A crystallographic study on one of the dicationic ruthenium(II) structures reveals that it forms an inclusion complex with benzene.     

Stabilising Peptoid Helices Using Non‐Chiral Fluoroalkyl Monomers

Stability towards protease degradation combined with modular synthesis has made peptoids of considerable interest in the fields of chemical biology, medicine, and biomaterials. Given their tertiary amide backbone, peptoids lack the capacity to hydrogen‐bond, and as such, controlling secondary structure can be challenging. The incorporation of bulky, charged, or chiral aromatic monomers can be used to control conformation but such building blocks limit applications in many areas. Through NMR and X‐ray analysis we demonstrate that non‐chiral neutral fluoroalkyl monomers can be used to influence the K_cis/trans equilibria of peptoid amide bonds in model systems. The cis‐isomer preference displayed is highly unprecedented given that neither chirality nor charge is used to control the peptoid amide conformation. The application of our fluoroalkyl monomers in the design of a series of linear peptoid oligomers that exhibit stable helical structures is also reported.     

From Distinct Metallopeptoids to Self-Assembled Supramolecular Architectures

The construction of synthetic protein mimics is a central goal in chemistry. A known approach for achieving this goal is the self-assembly of synthetic biomimetic sequences into supramolecular structures. Obtaining different 3D structures via a simple sequence modification, however, is still challenging. Herein we present the design and synthesis of biomimetic architectures, via the self-assembly of distinct copper-peptoid duplexes. We demonstrate that changing only one non-coordinating side-chain within the peptoids—sequence-specific N-substituted glycine oligomers—leads to different supramolecular structures. Four peptoid trimers incorporating 2,2’-bipyridine and pyridine ligands, and a non-coordinating but rather a structure-directed bulky group were synthesized, and their solutions were treated with Cu²⁺ in a 1:1 ratio. Single-crystal X-ray analysis of the products revealed the self-assembly of each peptoid into a metallopeptoid duplex, followed by the self-assembly of multiple duplexes and their packing into a three-dimensional supramolecular architecture via hydrogen bonding and π–π interactions. Tuning the non-coordinating side-chain enables to regulate both the final structure being either a tightly packed helical rod or a nano-channel, and the pore width of the nano-channels. Importantly, all the metallopeptoids structures are stable in aqueous solution as verified by cryo-TEM measurements and supported by UV/Vis and EPR spectroscopies and by ESI-MS analysis. Thus, we could also demonstrate the selective recognition abilities of the nano-channels towards glycerol.     

Controlling the Direction of the Molecular Axis of Rod‐Shaped Binuclear Ruthenium Complexes on Single‐Walled Carbon Nanotubes

We report the synthesis of a mixed‐valence ruthenium complex, bearing pyrene moieties on one side of the ligands as anchor groups. Composites consisting of mixed‐valence ruthenium complexes and SWNTs were prepared by noncovalent π–π interactions between the SWNT surface and the pyrene anchors of the Ru complex. In these composites, the long axis of the Ru complexes was aligned in parallel to the principal direction of the SWNT. The optimized conformation of these complexes on the SWNT surface was calculated by molecular mechanics. The composites were examined by UV/Vis absorption and FT‐IR spectroscopy, XPS, and SEM analysis. Furthermore, their electrochemical properties were evaluated. Cyclic voltammograms of the composites showed reversible oxidation waves at peak oxidation potentials (Ep_ox) = 0.86 and 1.08 V versus Fc⁺/Fc, which were assigned to the Ru^II‐Ru^II/Ru^II‐Ru^III and the Ru^II‐Ru^III/Ru^III‐Ru^III oxidation events of the dinuclear ruthenium complex, respectively. Based on these observations, we concluded that the electrochemical properties and mixed‐valence state of the dinuclear ruthenium complexes were preserved upon attachment to the SWNT surface.     

Comparative Study of Ruthenium(II) and Ruthenium(III) Complexes with the Ligand dmbpy (dmbpy = 4, 4′‐Dimethyl‐2, 2′‐bipyridine)

The complex cis‐[Ru^III(dmbpy)₂Cl₂](PF₆) ( 2 ) (dmbpy = 4, 4′‐dimethyl‐2, 2′‐bipyridine) was obtained from the reaction of cis‐[Ru^II(dmbpy)₂Cl₂] ( 1 ) with ammonium cerium(IV) nitrate followed by precipitation with saturated ammonium hexafluoridophosphate. The ¹H NMR spectrum of the Ru^III complex confirms the presence of paramagnetic metal atoms, whereas that of the Ru^II complex displays diamagnetism. The ³¹P NMR spectrum of the Ru^III complex shows one signal for the phosphorus atom of the PF₆^– ion. The perspective view of each [Ru^II/III(dmbpy)₂Cl₂]^0/+ unit manifests that the ruthenium atom is in hexacoordinate arrangement with two dmbpy ligands and two chlorido ligands in cis position. As the oxidation state of the central ruthenium metal atom becomes higher, the average Ru–Cl bond length decreases whereas the Ru–N (dmbpy) bond length increases. The cis‐positioned dichloro angle in Ru^III is 1.3° wider than that in the Ru^II. The dihedral angles between pair of planar six‐membered pyridyl ring in the dmbpy ligand for the Ru^II are 4.7(5)° and 5.7(4)°. The observed inter‐planar angle between two dmbpy ligands in the Ru^II is 89.08(15)°, whereas the value for the Ru^III is 85.46(20)°.     

Helical peptoid mimics of magainin-2 amide

A series of peptoid oligomers were designed as helical, cationic, and facially amphipathic mimics of the magainin-2 amide antibacterial peptide. We used circular dichroism spectroscopy to determine the conformation of these peptoids in aqueous buffer and in the presence of bacterial membrane-mimetic lipid vesicles, composed of a 7:3 mol ratio of POPE:POPG. We found that certain peptoids, which displayed characteristically helical CD in buffer and lipid vesicles, exhibit selective (nonhemolytic) and potent antibacterial activity against both Gram-positive and Gram-negative bacteria. In contrast, peptoids that exhibit weak CD, reminiscent of that of a peptide random coil, were ineffective antibiotics. In a manner similar to the natural magainin peptides, we find a correlation between peptoid lipophilicity and hemolytic propensity. We observe that a minimum length of approximately 12 peptoid residues may be required for antibacterial activity. We also see evidence that a helix length between 24 and 34 A may provide optimal antibacterial efficacy. These results provide the first example of a water-soluble, structured, bioactive peptoid.     

Stable helical peptoids via covalent side chain to side chain cyclization

Peptoids are oligomeric N-substituted glycines with potential as biologically relevant compounds. Helical peptoids provide an attractive fold for the generation of protein-protein interaction inhibitors. The generation of helical peptoid folds in organic and aqueous media has been limited to strict design rules, as peptoid-folding is mainly directed via the steric direction of alpha-chiral side-chains. Here a new methodology is presented to induce helical folds in peptoids with the aid of side chain to side chain cyclization. Cyclic peptoids were generated via solid-phase synthesis and their folding was studied. The cyclization induces significant helicity in peptoids in organic media, aids the folding in aqueous media, and requires the incorporation of only relatively few chiral aromatic side chains.     

NLO active CuII/RuII and CdII/RuII coordination-organometallic complexes: synthesis,structural characterization and photoluminescence properties

Cu^II/Ru^II and Cd^II/Ru^II hybrid complexes [Cu(L_1–3)(NC₅H₄C≡CRu(dppe)₂Cl)] (1a-3a) and [Cd(L_1-3)(NC₅H₄C≡CRu(dppe)₂Cl)] (1b–3b) have been prepared by reaction of trans-[RuCl(dppe)₂(C≡C-py-3)] (1) with copper or cadmium acetate in the presence of Schiff base ligands L_H1–3 (where L_H = 2-(pyrrole-2-yl-methylidine)aminophenol (L_H1), 5-bromo-2-(pyrrole-2-yl-methylidine)aminophenol (L_H2) and 5-nitro-2-(pyrrole-2-yl-methylidine)aminophenol (L_H3)). The hybrid materials were characterized on the basis of elemental analyses, TEM, IR, UV–visible, ¹H NMR, and ³¹P NMR spectral studies. TEM overview observations revealed well-dispersed spherical nanoparticles of ~60 nm are formed. Quasireversible redox behavior is observed for Cu^II/Ru^II complexes corresponding to Cu^I/Cu^II and Ru^II/Ru^III couples. All the complexes exhibit blue-green emission as a result of fluorescence from the intraligand (π → π*) emission excited state with good quantum yield. The second-order nonlinear optical (NLO) properties of Cu^II/Ru^II and Cd^II/Ru^II complexes have been investigated by the Kurtz-powder method. The second harmonic generation efficiency of these complexes show that these complexes are NLO active and display good second-order nonlinear optical activity.     

Helical peptoid mimics of lung surfactant protein C

Among the families of peptidomimetic foldamers under development as novel biomaterials and therapeutics, poly-N-substituted glycines (peptoids) with alpha-chiral side chains are of particular interest for their ability to adopt stable, helical secondary structure in organic and aqueous solution. Here, we show that a peptoid 22-mer with a biomimetic sequence of side chains and an amphipathic, helical secondary structure acts as an excellent mimic of surfactant protein C (SP-C), a small protein that plays an important role in surfactant replacement therapy for the treatment of neonatal respiratory distress syndrome. When integrated into a lipid film, the helical peptoid SP mimic captures the essential surface-active behaviors of the natural protein. This work provides an example of how an abiological oligomer that closely mimics both the hydrophobic/polar sequence patterning and the fold of a natural protein can also mimic its biophysical function.     

Chiral tether-mediated stabilization and helix-sense control of complementary metallo-double helices

A series of novel Pt^II-linked double helices were prepared by inter- or intrastrand ligand-exchange reactions of the complementary duplexes composed of chiral or achiral amidine dimer and achiral carboxylic acid dimer strands joined by trans-Pt^II–acetylide complexes with PPh₃ ligands using chiral and achiral chelating diphosphines. The structure and stability of the Pt^II-linked double helices were highly dependent on the diphosphine structures. An interstrand ligand exchange took place with chiral and achiral 1,3-diphosphine-based ligands, resulting in trans-Pt^II-bridged double helices, whose helical structures were quite stable even in dimethyl sulfoxide (DMSO) due to the interstrand cross-link, whereas a 1,2-diphosphine-based ligand produced non-cross-linked cis-Pt^II-linked duplexes, resulting from an intrastrand ligand-exchange that readily dissociated into single strands in DMSO. When enantiopure 1,3-diphosphine-based ligands were used, the resulting trans-Pt^II-bridged double helices adopted a preferred-handed helical sense biased by the chirality of the bridged diphosphines. Interestingly, the interstrand ligand exchange with racemic 1,3-diphosphine toward an optically-active Pt^II-linked duplex, composed of chiral amidine and achiral carboxylic acid strands, was found to proceed in a diastereoselective manner, thus forming complete homochiral trans-Pt^II-bridged double helices via a unique chiral self-sorting.     

Expanded bite angles in tridentate ligands. Improving the photophysical properties in bistridentate RuII polypyridine complexes

Bistridentate metal complexes as photosensitizers are ideal building blocks in the construction of rod-like isomer-free assemblies for intramolecular photoinduced charge separation. Approaches to obtain long-lived luminescent metal-to-ligand charge transfer excited states in bistridentate Ru^II polypyridine complexes via the manipulation of metal-centered state energies are discussed. Following an introduction to general strategies to prolong the excited state lifetimes, more recent work is explored in detail where tridentate ligands with expanded 2,2′:6′,2″-terpyridine cores are utilized. The synthesis of these tridentate ligands and their corresponding Ru^II complexes is covered. Bistridentate Ru^II complexes with microsecond metal-to-ligand charge transfer excited state lifetimes are described, and are used in electron donor–photosensitizer–electron acceptor assemblies for efficient vectorial photoinduced charge separation.     

Synthesis,Electrochemistry, and Photophysical Studies of Ruthenium(II) Polypyridine Complexes with D–π–A–π–D Type Ligands and Their Application Studies as Organic Memories

A new class of ruthenium(II) polypyridine complexes with a series of D–π–A–π–D type (D=donor, A=acceptor) ligands was synthesized and characterized by ¹H NMR spectroscopy, mass spectrometry, and elemental analysis. The photophysical and electrochemical properties of the complexes were also investigated. The newly synthesized ruthenium(II) polypyridine complexes were found to exhibit two intense absorption bands at both high‐energy (λ=333–369 nm) and low‐energy (λ=520–535 nm) regions. They are assigned as intraligand (IL) π→π* transitions of the bipyridine (bpy) and π‐conjugated bpy ligands, and IL charge‐transfer (CT) transitions from the donor to the acceptor moiety with mixing of dπ(Ru^II)→π*(bpy) and dπ(Ru^II)→π*(L) MLCT characters, respectively. In addition, all complexes were demonstrated to exhibit intense red emissions at approximately λ=727–744 nm in degassed dichloromethane at 298 K or in n‐butyronitrile glass at 77 K. Nanosecond transient absorption (TA) spectroscopy has also been carried out, establishing the presence of the charge‐separated state. In order to understand the electrochemical properties of the complexes, cyclic voltammetry has also been performed. Two quasi‐reversible oxidation couples and three quasi‐reversible reduction couples were observed. One of the ruthenium(II) complexes has been utilized in the fabrication of memory devices, in which an ON/OFF current ratio of over 10⁴ was obtained.     

Directed,intramolecular electron and energy transfer in mixed-valence dimers

Laser flash photolysis on a series of unsymmetrical ruthenium dimers has provided evidence for directed, intramolecular excitation energy transfer by a one-electron pathway for mixed-valence, Ru^II-Ru^III, dimers and by simple energy transfer for Ru^II-Ru^II dimers.     

Structure and catalytic activity of the ruthenium(I) sawhorse‐type complex [Ru2{μ,η2‐CF3(CF2)5COO}2(DMSO)2(CO)4]

The title compound, cis‐di‐μ‐perfluoroheptanoato‐κ⁴O:O′‐bis[dicarbonyl(dimethyl sulfoxide‐κS)ruthenium(I)](Ru—Ru), [Ru₂(C₇F₁₃O₂)₂(C₂H₆OS)₂(CO)₄], is a sawhorse‐type dinuclear ruthenium complex with two bridging perfluoroheptanoate ligands, and with two dimethyl sulfoxide (DMSO) ligands in the axial positions coordinating via the S atoms. It is a new example of a compound with an aliphatic fluorinated carboxylate ligand. The Ru—Ru bond distance of 2.6908 (3) Å indicates a direct Ru—Ru interaction. The compound is an active catalyst in transvinylation of propionic acid with vinyl acetate.     

Toward the synthesis of artificial proteins: the discovery of an amphiphilic helical peptoid assembly

While nature exploits folded biopolymers to achieve molecular recognition and catalysis, comparable abiological heteropolymer systems have been difficult to create. We synthesized and identified abiological peptoid heteroploymers capable of binding a dye. Using combinatorial synthesis, we constructed a library of 3400 amphiphilic 15-mer peptoids on an ultra-high-capacity beaded support. Individual macrobeads, each containing a single peptoid sequence, were arrayed into plates, cleaved, and screened in aqueous solution to locate dye binding heteropolymer assemblies. Resynthesis and characterization demonstrated the formation of defined helical assemblies as judged by size-exclusion chromatography, circular dichroism, and analytical ultracentrifugation. Inspired by nature's process of sequence variation and natural selection, we identified rare abiological sequence-specific heteropolymers that begin to mimic the structure and functional properties of their biological counterparts.     

The Tunable Luminescence of Ruthenium(II) Complexes Containing Different Tetrazolate Ligands

Three luminescent mononuclear Ru^II compounds, [Ru^II(bpy)₂( L¹ )](BF₄) ( 1 ), [Ru^II(bpy)₂( L² )](BF₄) ( 2 ), and the neutral compound [Ru^II(bpy)₂( L³ )] ( 3 ), were obtained, by treatment of [Ru^II(bpy)₂Cl₂] with the tetrazolate (tz)-containing ligands L¹ – L³ . All the compounds were well characterized by IR, UV/Vis, and ¹H NMR and their redox properties were also investigated by cyclic voltammogram. The crystal structure of 3 was determined by X-ray crystallography and it clearly shows that the Ru^II ion is octahedrally coordinated by two bpy ligands and a deprotonated L³ ligand. After introduction of these tz ligands, 1 – 3 are more sensitive towards the change of micro-environment of solvents as compared with that of [Ru^II(bpy)₃]²⁺. This effect is most obvious in 3 , since it contains a 2^– ligand L³ . The slight modification of diimine ligand make these complexes have potential applications as sensors.     

Development and use of an atomistic CHARMM‐based forcefield for peptoid simulation

Peptoids are positional isomers of peptides: peptoid sidechains are attached to backbone nitrogens rather than α‐carbons. Peptoids constitute a class of sequence‐specific polymers resistant to biological degradation and potentially as diverse, structurally and functionally, as proteins. While molecular simulation of proteins is commonplace, relatively few tools are available for peptoid simulation. Here, we present a first‐generation atomistic forcefield for peptoids. Our forcefield is based on the peptide forcefield CHARMM22, with key parameters tuned to match both experimental data and quantum mechanical calculations for two model peptoids (dimethylacetamide and a sarcosine dipeptoid). We used this forcefield to demonstrate that solvation of a dipeptoid substantially modifies the conformations it can access. We also simulated a crystal structure of a peptoid homotrimer, H‐(N‐2‐phenylethyl glycine)₃‐OH, and we show that experimentally observed structural and dynamical features of the crystal are accurately described by our forcefield. The forcefield presented here provides a starting point for future development of peptoid‐specific simulation methods within CHARMM. © 2013 Wiley Periodicals, Inc.     

Ruthenium(II)–Polyimine–Coumarin Light‐Harvesting Molecular Arrays: Design Rationale and Application for Triplet–Triplet‐Annihilation‐Based Upconversion

Ru^II–bis‐pyridine complexes typically absorb below 450 nm in the UV spectrum and their molar extinction coefficients are only moderate (ε<16 000 M ^?1 cm^?1). Thus, Ru^II–polyimine complexes that show intense visible‐light absorptions are of great interest. However, no effective light‐harvesting ruthenium(II)/organic chromophore arrays have been reported. Herein, we report the first visible‐light‐harvesting Ru^II–coumarin arrays, which absorb at 475 nm (ε up to 63 300 M ^?1 cm^?1, 4‐fold higher than typical Ru^II–polyimine complexes). The donor excited state in these arrays is efficiently converted into an acceptor excited state (i.e., efficient energy‐transfer) without losses in the phosphorescence quantum yield of the acceptor. Based on steady‐state and time‐resolved spectroscopy and DFT calculations, we proposed a general rule for the design of Ru^II–polypyridine–chromophore light‐harvesting arrays, which states that the ¹IL energy level of the ligand must be close to the respective energy level of the metal‐to‐ligand charge‐transfer (M LCT) states. Lower energy levels of ¹IL/³IL than the corresponding ¹M LCT/³M LCT states frustrate the cascade energy‐transfer process and, as a result, the harvested light energy cannot be efficiently transferred to the acceptor. We have also demonstrated that the light‐harvesting effect can be used to improve the upconversion quantum yield to 15.2 % (with 9,10‐diphenylanthracene as a triplet‐acceptor/annihilator), compared to the parent complex without the coumarin subunit, which showed an upconversion quantum yield of only 0.95 %.     

Constructing High‐Generation Sierpiński Triangles by Molecular Puzzling

Three generations of metalated trigonal supramolecular architectures, so‐called metallo‐triangles, were assembled from terpyridine (tpy) complexes. The first generation (G1) metallo‐triangles were directly obtained by reacting a bis(terpyridinyl) ligand with a 60° bite angle and Zn^II ions. The direct self‐assembly of G2 and G3 triangles by mixing organic ligands and Zn^II, however, only generated a mixture of G1 and G2, as well as a trace amount of insoluble polymer‐like precipitate. Therefore, a modular strategy based on the connectivity of ⟨tpy−Ru²⁺−tpy⟩ was employed to construct two metallo‐organic ligands for the assembly of G2 and G3 Sierpiński triangles. The metallo‐organic ligands L^A and L^B with multiple free terpyridines were obtained through Suzuki cross‐coupling of the Ru^II complexes, and then assembled with Zn^II or Cd^II to obtain high‐generation metallo‐triangular architectures in nearly quantitative yield. The G1–G3 architectures were characterized by NOESY and DOSY NMR spectroscopy, ESI‐MS, TWIM‐MS, and transmission electron microscopy.