Mineral-organic interfacial processes: potential roles in the origins of life

Life is believed to have originated on Earth ～4.4-3.5 Ga ago, via processes in which organic compounds supplied by the environment self-organized, in some geochemical environmental niches, into systems capable of replication with hereditary mutation. This process is generally supposed to have occurred in an aqueous environment and, likely, in the presence of minerals. Mineral surfaces present rich opportunities for heterogeneous catalysis and concentration which may have significantly altered and directed the process of prebiotic organic complexification leading to life. We review here general concepts in prebiotic mineral-organic interfacial processes, as well as recent advances in the study of mineral surface-organic interactions of potential relevance to understanding the origin of life.     

Controlled Positioning of Nanoparticles on Graphene by Noninvasive AFM Lithography

Atomic force microscopy is shown to be an excellent lithographic technique to directly deposit nanoparticles on graphene by capillary transport without any previous functionalization of neither the nanoparticles nor the graphene surface while preserving its integrity and conductivity properties. Moreover this technique allows for (sub)micrometric control on the positioning thanks to a new three-step protocol that has been designed with this aim. With this methodology the exact target coordinates are registered by scanning the tip over the predetermined area previous to its coating with the ink and deposition. As a proof-of-concept, this strategy has successfully allowed the controlled deposition of few nanoparticles on 1 μm(2) preselected sites of a graphene surface with high accuracy.     

Molecular dynamics reveal that isoDGR-containing cyclopeptides are true αvβ3 antagonists unable to promote integrin allostery and activation

Ain't got that swing(-out): The cyclopeptide isoDGR is emerging as a new αvβ3 integrin binding motif. Agreement between the results of computational and biochemical studies reveals that isoDGR-containing cyclopeptides are true αvβ3 integrin antagonists that block αvβ3 in its inactive conformation (see scheme). isoDGR-based ligands may give αvβ3 antagonists without paradoxical effects.     

Preparation and Properties of Novel Cationically Active Oligo-p-Methoxystyryl-Silica Composites

Abstract

The preparation of cationically active oligo-p-methoxystyrene-silica composites by cationic interfacial polymerization is described. In addition to the effective preparation of the interfacial initiator, p-methoxybenzylium-hydrogen sulfate-silica, and p-methoxybenzylium-trifluoroacetate-silica, a procedure to yield new kinds of composites is reported. The outstanding properties of the “living” oligo-p-methoxy-styryl-hydrogen sulfate-silica is demonstrated by means of zeta potential measurements, solid-state ¹³C-NMR spectroscopy, UV/Vis spectroscopy, and electron scanning microscopy.     

New artificial receptors from selectively functionalized calix[4]arenes

Abstract

The development of new synthetic methods for the monoalkylation of calix[4]arenes at the lower rim allows the synthesis of a new class of trihydroxamate siderophores. Three chelating hydroxamic acid units are introduced through a sequence of reactions which blocks the macrocycle in the cone conformation. The new ligands obtained form neutral 1:1 complexes (FeL) with iron (III), which are stable in EtOH/H₂O 9:1 at pH 2–7. Calix[4]arene bis-crown ethers are prepared by exploiting the selective 1,2-(proximal) functionalization of calix[4]arenes at the lower rim. These ligands are, however, less effective in complexing alkali metal cations compared with the 1,3-calix[4]arene crown-ethers which, in their partial cone structure, offer a better shielding for the complexed cations. Rigid upper rim-bridged calix[4]arenes potentially useful for the inclusion of neutral molecules are prepared by exploiting the selective 1,3-diformylation of calix[4]arene at the upper rim. Finally a new chloromethylation method for calix[4]arenes blocked in the cone conformation is described together with the synthesis of new cavitands.     

Conformational investigation of some macrobicyclic compounds and of their monoprotonated cations through a comparison between X-ray crystal structures and molecular dynamics simulations

Abstract

In preceding works, which have dealt with the synthesis and characterisation of a series of macrobicyclic compounds with five donor atoms, the unusually high basicity constants of these polyaminic cage-like molecules have been ascribed to the inclusion of the proton inside the macrobicyclic cavity which results in a very efficient hydrogen-bond network. The present paper, based on previously reported X-ray crystal structures regarding five-atoms bridging units and on molecular modelling studies shows that the disposition of the five donor atoms in the monoprotonated species is related to the protonation site. Precisely, if the protonation occurs on a bridge-head nitrogen the resulting geometry of the donors is a trigonal bipyramid, whereas it is square pyramidal when the proton is bound to a nitrogen belonging to a macrobicyclic chain. For what concerns the geometrical array of the donor atoms in the free amines, the favoured array seems to be the trigonal bipyramidal.     

Reaction of 5,6,7,8-Tetrahydropterin with Iron(III) Acetylacetonate. Detection of Radical Cations by Electrospray Ionization Mass Spectrometry

The experimental conditions developed for the detection of rather stable radical cations in solution by electrospray-ionization mass spectrometry (ESI-MS) of a Fe^II complex of 2-amino-5,6,7,8-tetrahydro-5-methylpteridin-4 (3H)-one ( 1c ) are used to observe the formation of the more unstable radical cations formed from 2-amino-5,6,7,8-tetrahydropteridin-4(3H)-one ( 1a ) and tris(pentane-2,4-dionato)iron(III) ([Fe^III(acac)₃]; 4 ) and to monitor their oxidation to the corresponding p-quinonoid dihydropterin complexes. These results contribute to the understanding of the important role played by 6β-5,6,7,8-tetrahydro-L -biopterin ( 1b ; a homologue of 1a ) together with iron as constituent of some cofactors. The complexes obtained from 1a and iron may be considered, e.g. as a model of the cofactor of the phenylalanine hydroxylase. Moreover, we describe an improved synthesis of 1c .     

(+)-syn-Benzotriborneol an enantiopure C3-symmetric receptor for water

(+)-syn-Benzotriborneol forms stable complexes with one molecule of water. This is due to the ability of the host to form three hydrogen bonds with water, to act simultaneously as a hydrogen-bond acceptor and donor, and to a perfect geometrical match between the pair. We report experimental (X-ray and neutron diffraction, VT NMR, DSC, TGA) and stereochemical studies carried out to elucidate and quantify the molecular and thermodynamic aspects of this supramolecular complex.     

Spirobifluorene bridged Ir(III) and Os(II) polypyridyl arrays: synthesis, photophysical characterization, and energy transfer dynamics

The synthesis, characterization, photophysics, and time-dependent density functional theory (TD-DFT) calculations of spirobifluorene-bipyridine based iridium(III), osmium(II), and mixed Ir/Os complexes are presented. The preparation of the reference and mixed complexes proceeded step-by-step and microwave irradiation facilitated the complexation of osmium. The absorption of the target heterobimetallic derivative, Ir-L-Os, is described by linear combination of half of the absorption spectra of the homobimetallic analogues, Ir-L-Ir and Os-L-Os, due to the occurrence of mixed ligand and metal based transitions when the spirobifluorene-(bpy)(2) bridging ligand L is linked to the metal, confirming a negligible interaction between the substituted metallic chromophores. TD-DFT calculations on monometallic, homo- and hetero-bimetallic complexes fully disentangled the origin of the absorption features. Noticeably, in the mixed Ir-L-Os complex an almost quantitative energy transfer from the (3)Ir to the (3)Os MLCT state is occurring, with a rate constant of 4.1 × 10(8) s(-1) and nearly exclusively via a Dexter-type mechanism mediated by the orbitals of the spiroconjugated ligand. This result, together with the outcomes of the TD-DFT calculations, supports the existence of spiroconjugation and evidences the interesting role of this kind of bridge in the energy transfer dynamics of the arrays. In all the complexes, moreover, the ligand fluorescence is heavily quenched by energy transfer processes toward the metallic appended units; the rate constant is estimated in the order of 10(10) s(-1) for Ir-L-Os and higher than 10(12) s(-1) for the other complexes. In the heterometallic array, both at room temperature and at 77 K, all photons are thus funneled to the emissive Os (3)MLCT state, which acts as energy trap for the antenna cascade.     

Development of a stereoselective Ugi reaction starting from an oxanorbornene β-amino acid derivative

We have synthesised a novel oxanorbornene β-aminoacid derivative and employed it in a stereoselective Ugi reaction. Hypothesis regarding the mechanism taking place during the reaction have been made and validated through the determination of the relative and absolute configuration of the Ugi adducts. Use of the correct choice of solvents can increase stereoselection. The resulting bicyclic peptidomimetics can be used as a novel class of pluripotent substrates to be elaborated according to the synthetic strategies previously elaborated in our laboratories.