Origin of the Giant Enhanced Raman Scattering by Sulfur Chains Encapsulated inside Single-Wall Carbon Nanotubes.

In this work, we explain the origin and the mechanism responsible for the strong enhancement of the Raman signal of sulfur chains encapsulated by single-wall carbon nanotubes by running resonance Raman measurements in a wide range of excitation energies for two nanotube samples with different diameter distributions. The Raman signal associated with the vibrational modes of the sulfur chain is observed when it is confined by small-diameter metallic nanotubes. Moreover, a strong enhancement of the Raman signal is observed for excitation energies corresponding to the formation of excited nanotube-chain-hybrid electronic states. Our hypothesis was further tested by high pressure Raman measurements and confirmed by density functional theory calculations of the electronic density of states of hybrid systems formed by sulfur chains encapsulated by different types of single-wall carbon nanotubes.

Coordination chemistry of 6-thioguanine derivatives with cobalt: toward formation of electrical conductive one-dimensional coordination polymers.

In this work we have synthetized and characterized by X-ray diffraction five cobalt complexes with 6-thioguanine (6-ThioGH), 6-thioguanosine (6-ThioGuoH), or 2'-deoxy-6-thioguanosine (2'-d-6-ThioGuoH) ligands. In all cases, these ligands coordinate to cobalt via N7 and S6 forming a chelate ring. However, independently of reagents ratio, 6-ThioGH provided monodimensional cobalt(II) coordination polymers, in which the 6-ThioG(-) acts as bridging ligand. However, for 2'-d-6-ThioGuoH and 6-ThioGuoH, the structure directing effect of the sugar residue gives rise to mononuclear cobalt complexes which form extensive H-bond interactions to generate 3D supramolecular networks. Furthermore, with 2'-d-6-ThioGuoH the cobalt ion remains in the divalent state, whereas with 6-ThioGuoH oxidation occurs and Co(III) is found. The electrical and magnetic properties of the coordination polymers isolated have been studied and the results discussed with the aid of DFT calculations, in the context of molecular wires.

Correlated magnetic states in extended one-dimensional defects in graphene.

Ab initio calculations indicate that while the electronic states introduced by tilt grain boundaries in graphene are only partially confined to the defect core, a translational grain boundary introduces states near the Fermi level that are very strongly confined to the core of the defect, and display a ferromagnetic instability. The translational boundary lies along a graphene zigzag direction and its magnetic state is akin to that which has been theoretically predicted to occur on zigzag edges of graphene ribbons. Unlike ribbon edges, the translational grain boundary is fully immersed within the bulk of graphene, hence its magnetic state is protected from the contamination and reconstruction effects that have hampered experimental detection of the magnetic ribbon states. Moreover, our calculations suggest that charge transfer between grain boundaries and the bulk in graphene is short ranged, with charge redistribution confined to ~5 Å from the geometric center of the 1D defects.

Formation of a surface covalent organic framework based on polyester condensation.

The reaction between 1,3,5-tris(4-hydroxyphenyl)benzene and benzene-1,3,5-tricarbonyl trichloride leads to polyester condensation and formation of a novel COF on an Au(111) surface. The characterization performed in situ by means of variable temperature STM and XPS reveals the formation of an array of hexagonal cavities with ca. 2 nm size.

Synthesis of designed conductive one-dimensional coordination polymers of Ni(II) with 6-mercaptopurine and 6-thioguanine.

Calculations performed with the goal of designing suitable electrical conductive [M(6-MP)(2)](n) (M = transition metal, 6-MP = 6-mercaptopurinato) one-dimensional coordination polymers suggested that metal ions such as Ni(II) could provide suitable materials. In this work, direct hydrothermal reactions between 6-mercaptopurine (6-MPH) and the analogous 6-thioguanine (6-ThioGH) with NiSO(4).6H(2)O yield the compounds [Ni(6-MP)(2)](n).2nH(2)O [1] and [Ni(6-ThioG)(2)](n).2nH(2)O [2]. The X-ray structures confirm that both compounds present similar structures based on one-dimensional chains in which the deprotonated nucleobases act as the bridging ligands connecting the metal ions by short distances. Electrical measurements at room temperature confirm the conductor character of both coordination polymers. The small differences found in these measurements have been rationalized with the help of density functional theory calculations. Preliminary adsorption studies on surfaces for 1 have allowed characterization of single chains on mica and graphite. The results obtained suggest the potential use of coordination polymers on nanomaterials for molecular electronics.

Edge States and magnetism in carbon nanotubes with line defects.

We apply first-principles calculations to investigate the interplay between electronic and magnetic properties of carbon nanotubes with line defects. We consider three types of defects: lines of C--O--C epoxy groups, and defects resulting from the substitution of the oxygen atoms by CH2 or C2H4 divalent radicals. We find that the line defects behave as pairs of coupled graphene edge states, and a variety of electronic and magnetic ground states is predicted as a function of defect type, nanotube diameter, and a possibly applied transverse electric field.

Metallicity in individual MMX chains.

We present an ab initio study of the structural and electronic properties of the halogen-bridged MMX single polymer [Pt2(CH3CS2)4I]n and of various possible modifications of its sequence, in the framework of density functional theory. The computed band structure of the infinite regular polymer reveals a net metallic character; this evidence is compatible with the outcome of recent measurements done in the solid phase at room temperature. By taking the regular [Pt2(CH3CS2)4I]n polymer as our reference system, we analyzed the origin and the robustness of the metallic state along the chain with respect to a large set of geometrical and chemical perturbations of the subunits. In particular, we considered partial substitutions of the metal, halide, and dithiocarboxylate ligand subunits, as well as structural strain, defects, and magnetic effects. Our results demonstrate that the metallic character of single MMX chains is very resistant to a wide range of possible distortions that can occur in reality.

Assembling of dimeric entities of Cd(II) with 6-mercaptopurine to afford one-dimensional coordination polymers: synthesis and scanning probe microscopy characterization.

The direct reaction between 6-mercaptopurine (6-MP) and Cd(II) under different conditions yields either [Cd2(6-MP)4(NO3)2](NO3)2 (1) or [Cd(6-MP-)2.2H2O]n (4). Compound 1 behaves as the building block of the polymer [Cd(6-MP2-)2]n[Ca(H2O)6]n (3), by deprotonation of 6-MP ligand. In the reaction of 1 to give 3, the dinuclear compound [Cd2(6-MP)4(H2O)2](NO3)4.2H2O (2) can be isolated as an intermediate. Polymers 3 and 4 convert into each other in water via deprotonation-protonation reactions. The structures of compounds 1-3 have been determined by X-ray diffraction. Given the small differences in the arrangement shown in the crystal structures of the polymer 4 and the polyanion of 3, the stabilities and energetics of the two arrangements have been examined by DFT calculations to determine the possibility of identifying new conformations of both polymers. In addition, the two polymers have been characterized on surfaces by means of AFM. The direct reaction between 6-MP and Cd(II) and the deprotonation of the polymer 4 have proven to be useful routes for the isolation of one-dimensional systems on surfaces. The development of new strategies to characterize these types of polymers on surfaces opens the possibility to perform nanoscale studies on their properties and their potential use as nanomaterials.

Stabilization of the non-canonical adenine-adeninium base pair by N(7) coordination of Zn(II).

A new zinc (II) compound with 9-ethyladenine (9-EtA) of formula [Zn(9-EtA-N7)Cl(3)](9-EtAH) has been synthesized and characterized by X-ray diffraction. Its X-structure consists of an Zn(II) anionic complex and 9-ethyladeninium as counteranion. The Zn(II) complex shows a distorted tetrahedral geometry in which three Cl and an 9-EtA coordinates through N(7) position are the ligands. An indirect chelation via intramolecular H-bond between N(6)H and an Cl ligand is present in the complex. The network of [Zn(9-EtA-N7)Cl(3)](9-EtAH) shows interesting features. Thus, self-association of coordinated adenine-adeninium takes place by H-bonding of N(6)-H...N(1) and N(6)-H...N(7), leading to a polymeric ribbon-like 1D supramolecular arrangement. Ab initio calculations have been applied in order to study the stability of the adenine-adeninium interaction due to the coordination of the Zn(II) to the N(7) position and to compare experimental and theoretical structural data.

Structural models for the interaction of Cd(II) with DNA: trans-[Cd(9-RGH-N7)2(H2O)4]2+.

Reactions of Cd(NO(3))(2) with the model nucleobases 9-alkylguanine in water at neutral pH, give the compounds trans-[Cd(9-RGH-N7)(2)(H(2)O)(4)](NO(3))(2)(R=Me, Et), with the 9-alkylguanine ligands bound to the metal cation at the N(7) position. The X-ray structures of both compounds are reported. The six-coordinate Cd(II) complexes consist of a highly regular octahedral geometry in which the two 9-alkylguanine ligands are in a trans position to each other and approximately collinear with the metal cation. In addition, the networks of both compounds show interesting features. Thus, intramolecular H-bonds between O(6) and a coordinated water molecule are present, and self-association of guanines via H-bonding of N(3)-H...N(2) take place, leading to a 1D supramolecular polymeric ribbon. Density functional theory calculations have been applied to both compounds in order to study the stability of N(7) metalated guanine-guanine associations by comparing experimental and theoretical results. The potential relevance with regard to possible Cd(II)-DNA cross-links is briefly discussed.

Strain-dependence of the electronic properties in periodic quadruple helical G4-wires.

The electronic structure of periodic quadruple helix guanine wires, which mimic G4-DNA molecules, was studied as a function of the stacking distance between consecutive planes, by means of first principles density functional theory calculations. We show that, whereas for the native DNA interplane separation of 3.4 A the HOMO- and LUMO-derived bands are poorly dispersive, the bandwidths can be significantly increased when compressive strain is applied along the helical axis. Our findings indicate that efficient band conduction for both holes and electrons can be supported by such wires for stacking distances below 2.6 A, which imply a huge axial deformation with respect to double and quadruple helices in solutions and in crystals.

Small polarons in dry DNA.

We report ab initio calculations for positively charged fragments of dry poly(dC)-poly(dG) DNA, with up to 4 C-G pairs. We find a strong hole-lattice coupling and clear evidence for the formation of small polarons. The largest geometry distortions occur in only one or two base pairs. They involve the stretching of weak bonds within each base pair, increasing the distance of positive hydrogens, and decreasing that of negative oxygens, to the region in which the hole localizes. We obtain an energy of approximately 0.30 eV for the polaron formation, nearly independent of the chain size. From it, we can estimate an activation energy for polaron hopping of approximately 0.15 eV, consistent with the available experimental value.