Photoreduction of the ferredoxin/ferredoxin-NADP(+)-reductase complex by a linked ruthenium polypyridyl chromophore.

Photosynthetic ferredoxin and its main partner ferredoxin-NADP(+)-reductase (FNR) are key proteins during the photoproduction of reductive power involved in photosynthetic growth. In this work, we used covalent attachment of ruthenium derivatives to different cysteine mutants of ferredoxin to trigger by laser-flash excitation both ferredoxin reduction and subsequent electron transfer from reduced ferredoxin to FNR. Rates and yields of reduction of the ferredoxin [2Fe-2S] cluster by reductively quenched Ru* could be measured for the first time for such a low redox potential protein whereas ferredoxin-FNR electron transfer was characterized in detail for one particular Ru-ferredoxin covalent adduct. For this adduct, the efficiency of FNR single reduction by reduced ferredoxin was close to 100% under both first-order and diffusion-limited second-order conditions. Interprotein intracomplex electron transfer was measured unambiguously for the first time with a fast rate of c. 6500s(-1). Our measurements point out that Ru photosensitizing is a powerful approach to study the functional interactions of ferredoxin with its numerous partners besides FNR.

NIR dual luminescence from an extended porphyrin. Spectroscopy, photophysics and theory.

Spectroscopic and photophysical properties of an extended Zn porphyrin with fused bis(tetraazaanthracene) arms including a 2,9-diphenyl-1,10-phenanthroline incorporated in a polyether macrocycle are investigated in solvents of different polarity pointing to the presence of two emitting singlet excited states. The absorption and emission features are identified and ascribed, on the basis of solvent polarity dependence, to a π-π* and to a charge transfer (CT) state, respectively. Whereas the intraligand π-π* transition is assigned to the intense absorption observed at 442-455 nm, the CT states contribute to the bands at 521-525 nm and 472-481 nm. The theoretical analysis of the absorption spectrum confirms the presence of two strong bands centered at 536 and 437 nm corresponding to CT and π-π* states, respectively. Weak CT transitions are calculated at 657 and 486 nm. Two emission maxima are observed in toluene at 724 nm from a (1)π-π* state and at 800 nm from a (1)CT state, respectively. (1)CT bands shift bathochromically by increasing the solvent polarity whereas the energy of the (1)π-π band is less affected. Likewise, the emission yield and lifetime associated with the low energy (1)CT band are strongly affected by solvent polarity. This is rationalized by a (1)π-π* → (1)CT internal conversion driven by solvent polarity, this process being competitive with the (1)π-π* to ground state deactivation channel. Time resolved absorption spectra indicate the presence of two triplet states, a short-lived one (nanoseconds range) and a longer lived one (hundreds of microsecond range) ascribed to a (3)π-π* and a (3)CT, respectively. For them, a conversion mechanism similar to that of the singlet excited states is suggested.

Solid-state carbon-13 NMR and computational characterization of the N719 ruthenium sensitizer adsorbed on TiO2 nanoparticles.

The ruthenium-containing sensitizing dye N719 grafted on TiO2 nanoparticles was investigated by solid-state NMR. The carbon resonances are assigned by means of (13)C cross-polarized dipolar dephasing experiments. DFT calculations of the carbon magnetic shielding tensors accurately describe the changes in chemical shifts observed upon grafting onto a titania surface via one or two carboxylic functions in the plane defined by the two isothiocyanate groups.

Structure-property relationships based on Hammett constants in cyclometalated iridium(III) complexes: their application to the design of a fluorine-free FIrPic-like emitter.

While phosphorescent cyclometalated iridium(iii) complexes have been widely studied, only correlations between oxidation potential EOX and Hammett constant σ, and between the redox gap (ΔEREDOX = EOX-ERED) and emission or absorption wavelength (λabs, λem) have been reported. We present now a quantitative model based on Hammett parameters that rationalizes the effect of the substituents on the properties of cyclometalated iridium(iii) complexes. This simple model allows predicting the apparent redox potentials as well as the electrochemical gap of homoleptic complexes based on phenylpyridine ligands with good accuracy. In particular, the model accounts for the unequal effect of the substituents on both the HOMO and the LUMO energy levels. Consequently, the model is used to anticipate the emission maxima of the corresponding complexes with improved reliability. We demonstrate in a series of phenylpyridine emitters that electron-donating groups can effectively replace electron-withdrawing substituents on the orthometallated phenyl to induce a blue shift of the emission. This result is in contrast with the common approach that uses fluorine to blue shift the emission maximum. Finally, as a proof of concept, we used electron-donating substituents to design a new fluorine-free complex, referred to as EB343, matching the various properties, namely oxidation and reduction potentials, electrochemical gap and emission profile, of the standard sky-blue emitter FIrPic.

Charged bis-cyclometalated iridium(III) complexes with carbene-based ancillary ligands.

Charged cyclometalated (C(^)N) iridium(III) complexes with carbene-based ancillary ligands are a promising family of deep-blue phosphorescent compounds. Their emission properties are controlled primarily by the main C(^)N ligands, in contrast to the classical design of charged complexes where N(^)N ancillary ligands with low-energy π* orbitals, such as 2,2'-bipyridine, are generally used for this purpose. Herein we report two series of charged iridium complexes with various carbene-based ancillary ligands. In the first series the C(^)N ligand is 2-phenylpyridine, whereas in the second one it is 2-(2,4-difluorophenyl)-pyridine. One bis-carbene (:C(^)C:) and four different pyridine-carbene (N(^)C:) chelators are used as bidentate ancillary ligands in each series. Synthesis, X-ray crystal structures, and photophysical and electrochemical properties of the two series of complexes are described. At room temperature, the :C(^)C: complexes show much larger photoluminescence quantum yields (ΦPL) of ca. 30%, compared to the N(^)C: analogues (around 1%). On the contrary, all of the investigated complexes are bright emitters in the solid state both at room temperature (1% poly(methyl methacrylate) matrix, ΦPL 30-60%) and at 77 K. Density functional theory calculations are used to rationalize the differences in the photophysical behavior observed upon change of the ancillary ligands. The N(^)C:-type complexes possess a low-lying triplet metal-centered ((3)MC) state mainly deactivating the excited state through nonradiative processes; in contrast, no such state is present for the :C(^)C: analogues. This finding is supported by temperature-dependent excited-state lifetime measurements made on representative N(^)C: and :C(^)C: complexes.

Photonic modulation of electron transfer with switchable phase inversion.

Photochromes may be reversibly photoisomerized between two metastable states and their properties can influence, and be influenced by, other chromophores in the same molecule through energy or electron transfer. In the photochemically active molecular tetrad described here, a porphyrin has been covalently linked to a fullerene electron acceptor, a quinoline-derived dihydroindolizine photochrome, and a dithienylethene photochrome. The porphyrin first excited singlet state undergoes photoinduced electron transfer to the fullerene to generate a charge-separated state. The quantum yield of charge separation is modulated by the two photochromes: one isomer of each quenches the porphyrin excited state, reducing the quantum yield of electron transfer to near zero. Interestingly, when the molecule is illuminated with white light, the quantum yield decreases as the white light intensity is increased, generating an out-of-phase response of the quantum yield to white light. However, when the same experiment is performed in the presence of additional, steady-state UV illumination, a phase inversion occurs. The quantum yield of electron transfer now increases with increasing white light intensity. Such effects illustrate emergent complexity in a relatively simple system and could find applications in molecular logic, photochemical labeling and drug delivery, and photoprotection for artificial photosynthetic molecules. The photochemistry leading to this behavior is discussed.

A new generation of platinum and iodine free efficient dye-sensitized solar cells.

We report a series of cobalt complexes with various polypyridyl ligands, where the oxidation potential is tuned from 0.17 to 0.34 V vs. ferrocene. The highest occupied molecular orbitals (HOMO) of the cobalt complexes were stabilized by adding electron acceptor groups on pyridyl or replacing pyridyl by pyrazole. These complexes are then used as one-electron redox mediators in dye sensitized solar cells (DSSCs) together with polymer based cathode resulting in an excellent performance. The performance of DSSCs using the molecularly engineered cobalt redox shuttle and poly(3,4-alkylthiophenes) based cathode is better than the triiodide/iodide redox shuttle with platinized cathode. The use of high surface area poly(3,4-propylenedioxythiophene) based nanoporous layers allows higher catalytic activity thus minimizing the electrode-electrolyte interface issues.

Near-infrared dual luminescence from an extended zinc porphyrin.

The photophysical characterization of an extended zinc porphyrin is reported. Fusion of bis-tetraazaanthracene on the porphyrin ring causes an unusual dual luminescence ascribed to two non-equilibrated singlet excited states.

Acid-induced degradation of phosphorescent dopants for OLEDs and its application to the synthesis of tris-heteroleptic iridium(III) bis-cyclometalated complexes.

Investigations of blue phosphorescent organic light emitting diodes (OLEDs) based on [Ir(2-(2,4-difluorophenyl)pyridine)(2)(picolinate)] (FIrPic) have pointed to the cleavage of the picolinate as a possible reason for device instability. We reproduced the loss of picolinate and acetylacetonate ancillary ligands in solution by the addition of Brønsted or Lewis acids. When hydrochloric acid is added to a solution of a [Ir(C^N)(2)(X^O)] complex (C^N = 2-phenylpyridine (ppy) or 2-(2,4-difluorophenyl)pyridine (diFppy) and X^O = picolinate (pic) or acetylacetonate (acac)), the cleavage of the ancillary ligand results in the direct formation of the chloro-bridged iridium(III) dimer [{Ir(C^N)(2)(µ-Cl)}(2)]. When triflic acid or boron trifluoride are used, a source of chloride (here tetrabutylammonium chloride) is added to obtain the same chloro-bridged iridium(III) dimer. Then, we advantageously used this degradation reaction for the efficient synthesis of tris-heteroleptic cyclometalated iridium(III) complexes [Ir(C^N(1))(C^N(2))(L)], a family of cyclometalated complexes otherwise challenging to prepare. We used an iridium(I) complex, [{Ir(COD)(µ-Cl)}(2)], and a stoichiometric amount of two different C^N ligands (C^N(1) = ppy; C^N(2) = diFppy) as starting materials for the swift preparation of the chloro-bridged iridium(III) dimers. After reacting the mixture with acetylacetonate and subsequent purification, the tris-heteroleptic complex [Ir(ppy)(diFppy)(acac)] could be isolated with good yield from the crude containing as well the bis-heteroleptic complexes [Ir(ppy)(2)(acac)] and [Ir(diFppy)(2)(acac)]. Reaction of the tris-heteroleptic acac complex with hydrochloric acid gives pure heteroleptic chloro-bridged iridium dimer [{Ir(ppy)(diFppy)(µ-Cl)}(2)], which can be used as starting material for the preparation of a new tris-heteroleptic iridium(III) complex based on these two C^N ligands. Finally, we use DFT/LR-TDDFT to rationalize the impact of the two different C^N ligands on the observed photophysical and electrochemical properties.

Transition-metal-complexed cyclic [3]- and [4]pseudorotaxanes containing rigid ring-and-filament conjugates: synthesis and solution studies.

By using the "gathering-and-threading" effect of copper(I) with rigid ring-and-string conjugates, daisy-chain-type [3]- and [4]pseudorotaxanes could be prepared in high yields. The organic fragment used consisted of a 2,9-diphenyl-1,10-phenanthroline (dpp)-containing ring attached to a coordinating filament capable of threading through the ring of another molecule by coordination to copper(I). The bidentate chelate introduced in the axis was also a 1,10-phenanthroline (phen) derivative with two methyl groups ortho to the nitrogen atoms of the phen unit. The organic component was prepared following a multistep strategy, one of the key steps being the attachment of the ring to the lateral axis. This connection was done by a condensation reaction between an ortho dione located at the back of a ring-incorporated phen and an aromatic aldehyde, which was the end-function of the thread. An oxazole nucleus was obtained after the condensation, which provided a rigid connection between the ring and the axis. In this way, the coordination axes of the ring-incorporated bidentate chelate and of the ligand belonging to the lateral filament were approximately orthogonal to one another. The design was such that the tetrameric complex, a [4]pseudorotaxane, seemed to be the most stable species, owing to the mutual geometrical arrangement of the filament and the ring. Various spectroscopic techniques, such as (1)H NMR spectroscopy, including DOSY, and electrospray ionization mass spectroscopy (ESI-MS), clearly demonstrated that a mixture of cyclic [3]- and [4]pseudorotaxane was obtained; the proportions of both components depended on concentration and temperature. Copper(I) was not the only metal center leading to the formation of cyclic pseudorotaxanes. A similar effect was observed with silver(I) as the templating metal: quantitative formation of threaded species was observed, with a higher proportion of trimer over tetramer than in the copper(I) case. Concentration and temperature effects were investigated for both series of Cu(I) - and Ag(I) -complexed threaded species showing that formation of the trimer was favored upon dilution or heating of the solution.

Templated synthesis of cyclic [4]rotaxanes consisting of two stiff rods threaded through two bis-macrocycles with a large and rigid central plate as spacer.

Two related cyclic [4]rotaxanes consisting of double macrocycles and rigid rods incorporating two bidentate chelates have each been prepared in high yield. The first step is a multigathering and threading reaction driven by coordination of two different bidentate chelates (part of either the rings or the rods) to each copper(I) center so as to afford the desired precursor. In both cases, the assembly step is done under very mild conditions, and it is quantitative. The second key reaction is the stopper-attaching reaction, based on click chemistry. Even if the quadruple stoppering reaction is not quantitative, it is relatively high-yielding (60% and 95%), and the copper-driven assembly process is carried out at room temperature without any aggressive reagent. The final copper-complexed [4]rotaxanes obtained contain two aromatic plates roughly parallel to one another located at the center of each bis-macrocycle. In the most promising case in terms of host-guest properties, the plates are zinc(II) porphyrins of the tetra-aryl series. The compounds have been fully characterized by various spectroscopic techniques ((1)H NMR, mass spectrometry, and electronic absorption spectroscopy). Unexpectedly, the copper-complexed porphyrinic [4]rotaxane could be crystallized as its 4PF(6)(-) salt to afford X-ray quality crystals. The structure obtained is in perfect agreement with the postulated chemical structure of the compound. It is particularly attractive in terms of symmetry and molecular aesthetics. The distance between the zinc atoms of the two porphyrins is 8.673 A, which is sufficient to allow insertion between the two porphyrinic plates of small ditopic basic substrates able to interact with the central porphyrinic Zn atoms. This prediction has been confirmed by absorption spectroscopy measurements in the presence of various organic substrates. However, large substrates cannot be introduced in the corresponding recognition site and are thus complexed mostly in an exo fashion, being located outside the receptor cavity. Noteworthy, the stability constants of the 1:1 host-guest complexes are high (10(7) M(-1)).

Adjustable receptor based on a [3]rotaxane whose two threaded rings are rigidly attached to two porphyrinic plates: synthesis and complexation studies.

The design and synthesis of a new type of receptor based on a [3]rotaxane, consisting of one thread and two threaded rings, is reported, as well as some of its complexing properties toward given guests. Two rings rigidly attached to porphyrins are threaded by a stiff rod incorporating two 2,2'-bipyridine-like chelates, the threading process being driven by two Cu(I) atoms acting as templates. A double-stoppering reaction based on click chemistry leads to the copper-complexed [3]rotaxane in which the rings are located close to the central part of the thread and the distance between the two porphyrin plates is short. Removal of the two Cu(I) cations releases the two rings which are now free to move along and around the thread. In these two states of the [3]rotaxane, free and complexed with copper, the two zinc(II) porphyrins attached to the rings can bind different ditopic guests bearing pyridyl groups or amines as terminal functions. UV-visible and NMR DOSY experiments were realized with guests of different sizes, and the association constants were determined. The free [3]rotaxane is both a strong and highly adaptable receptor with high stability constants for the host/guest complexes, log K being in the range of 6.3-7.5 for guests with a length varying between 2.8 and 18 A. The copper-complexed [3]rotaxane is still a good receptor for small guests due to an entropic gain for this preorganized molecule compared to the free [3]rotaxane, but it is a less strong receptor for guests which do not fit the short distance between the two porphyrins.

Quantitative formation of [4]pseudorotaxanes from two rods and two bis-macrocycles incorporating porphyrinic plates between the rings.

[4]pseudorotaxanes consisting of two very large coordinating bis-macrocycles and rigid rods incorporating two side-by-side chelates have been obtained quantitatively utilising the gathering and threading effect of copper(I); the assemblies obtained are several nanometres long and they contain two face-to-face zinc porphyrins which will be used to complex various organic substrates.

Cyclic [2]pseudorotaxane tetramers consisting of two rigid rods threaded through two bis-macrocycles: copper(I)-templated synthesis and X-ray structure studies.

Variously substituted coordinating rigid rods have been synthesized which incorporate a central 4,7-phenanthroline nucleus attached to two 2-pyridyl groups via its 3 and 8 positions, so as to yield bis-bidentate chelates, the two-coordinating axes of the chelates being parallel to one another. Regardless of the nature of the substituents borne by the rods, the copper(I)-induced threading reaction of two such rods through the rings of two bis-macrocycles affords in a quantitative yield the 4-copper(I) threaded assembly. The [2]pseudorotaxane tetramers thus obtained have been fully characterized in solution and, for one of them, an X-ray structure could be obtained, confirming the threaded nature of the complex and providing important structural information.

A [3]rotaxane with two porphyrinic plates acting as an adaptable receptor.

Following a multistep procedure, the copper(I)-templated strategy allowed preparation of a multifunctional [3]rotaxane. The dumbbell consists of a central two-bidentate chelate unit and two terminal stoppers. The two rings threaded on the rotaxane axis consist each of a 1,10-phenanthroline-incorporating macrocycle, rigidly connected to an appended zinc-complexed porphyrin. The copper(I) template can be removed, affording a free rotaxane whose two rings can glide freely along the axis and spin around it. The dumbbell being very long (approximately 85 A in its extended conformation from one stopper to the other), the porphyrin-porphyrin distance can be varied over a wide range. The two porphyrinic plates constitute the key elements of a receptor able to complex various guests between the plates. The ability of the threaded rings to move freely makes the host perfectly adjustable, allowing capture of geometrically very different guests. The copper(I)-complexed rotaxane also acts as an efficient receptor, although its adaptability is obviously more limited than that of its free rotaxane counterpart.

Synthesis of a bis-macrocycle containing two back-to-back rigidly connected 1,10-phenanthroline units as a central core and its incorporation in a handcuff-like catenane.

A bis-macrocycle containing two back-to-back connected 1,10-phenanthroline chelates has been prepared. The synthetic strategy involves the preparation of a monocyclic precursor consisting of a 1,10-phenanthroline-5,6-dione fragment incorporated in a 30-membered ring. This important intermediate has been prepared via two distinct routes, both strategies relying on the use of a ketal as a 1,2-dione protective group. A four-component condensation reaction between two molecules of the macrocyclic dione and two equivalents of ammonia (used in large excess) in the presence of a reducing agent (Na(2)S(2)O(4)) leads to the desired bis-ring in good yield. The most direct synthetic route allows preparation of the bis-macrocycle in seven steps from 1,10-phenanthroline in an overall yield of 14 %. Using the now well-established "gathering and threading" effect of copper(I), a doubly threaded species could be obtained in quantitative yield, in which each ring of the bis-macrocycle is threaded by a "molecular string". These fragments bear terminal allylic groups, which are used to prepare the final catenane by performing a double ring-closing metathesis reaction. This final cyclisation reaction is high yielding and affords the desired catenane consisting of a bis-macrocycle of which the two cyclic units are threaded by a large ring. The compound has been fully characterised by classical techniques. Electronic spectroscopy and electrochemical measurements suggest that the two copper complex subunits do not interact electronically, in spite of the aromatic nature of the bridging ligand between the two metal centres.

A catenane consisting of a large ring threaded through both cyclic units of a handcuff-like compound.

The template effect of copper(I) allowed the preparation of a new catenane constructed around a bis-macrocyclic unit; a double ring-closing metathesis reaction afforded the central ring which is threaded through both rings of the bis-macrocycle.

Popitam: towards new heuristic strategies to improve protein identification from tandem mass spectrometry data.

In recent years, proteomics research has gained importance due to increasingly powerful techniques in protein purification, mass spectrometry and identification, and due to the development of extensive protein and DNA databases from various organisms. Nevertheless, current identification methods from spectrometric data have difficulties in handling modifications or mutations in the source peptide. Moreover, they have low performance when run on large databases (such as genomic databases), or with low quality data, for example due to bad calibration or low fragmentation of the source peptide. We present a new algorithm dedicated to automated protein identification from tandem mass spectrometry (MS/MS) data by searching a peptide sequence database. Our identification approach shows promising properties for solving the specific difficulties enumerated above. It consists of matching theoretical peptide sequences issued from a database with a structured representation of the source MS/MS spectrum. The representation is similar to the spectrum graphs commonly used by de novo sequencing software. The identification process involves the parsing of the graph in order to emphasize relevant sections for each theoretical sequence, and leads to a list of peptides ranked by a correlation score. The parsing of the graph, which can be a highly combinatorial task, is performed by a bio-inspired algorithm called Ant Colony Optimization algorithm.