First-principles calculation of the conductance of a single 4,4 bipyridine molecule

Electrostatic Fermi level tuning in large-scale self-assembled monolayers of oligo(phenylene-ethynylene) derivatives

Understanding and controlling the orbital alignment of molecules placed between electrodes is essential in the design of practically-applicable molecular and nanoscale electronic devices. The orbital alignment is highly determined by the molecule-electrode interface. Dependence of orbital alignment on the molecular anchor group for single molecular junctions has been intensively studied; however, when scaling-up single molecules to large parallel molecular arrays (like self-assembled monolayers (SAMs)), two challenges need to be addressed: 1. Most desired anchor groups do not form high quality SAMs. 2. It is much harder to tune the frontier molecular orbitals via a gate voltage in SAM junctions than in single molecular junctions. In this work, we studied the effect of the molecule-electrode interface in SAMs with a micro-pore device, using a recently developed tetrapodal anchor to overcome challenge 1, and the combination of a single layered graphene top electrode with an ionic liquid gate to solve challenge 2. The zero-bias orbital alignment of different molecules was signalled by a shift in conductance minimum vs. gate voltage for molecules with different anchoring groups. Molecules with the same backbone, but a different molecule-electrode interface, were shown experimentally to have conductances that differ by a factor of 5 near zero bias. Theoretical calculations using density functional theory support the trends observed in the experimental data. This work sheds light on how to control electron transport within the HOMO-LUMO energy gap in molecular junctions and will be applicable in scaling up molecular electronic systems for future device applications.

Microporous Oxide-Based Surface-Enhanced Raman Scattering Film for Quadrillionth Detection of Mercury Ion (II)

A variety of chemical sensing materials and procedures for conveniently detecting mercuric ion (II) (Hg2+) have been extensively explored. The detection challenges for accomplishing a simple, fast, and low investment procedure at the ultrasensitive level are ongoing. Herein we report a quadrillionth level for detecting Hg2+ by the surface-enhanced Raman scattering (SERS) technique. There is an interaction of silver nanoparticles decorated on a zinc-oxide tetrapod structure and coated on FTO glass (Ag@ZnO-FTO) with an organic ligand. 4,4′-Dipyridyl (DPy) performed as being chemisorbed by Ag nanoparticles interacting with a pyridine ring to produce plasmonic hot spots for SERS. The morphology of the surface and porous structure of the tetrapod becomes the powerful platform for enhanced SERS performance of DPy detection. In the absence of the augmentative electrolyte, the enhancement factor for DPy is more than 107. The inhibiting of the aggregation between Ag and DPy was present following the appearance of Hg2+, demonstrated by the quenching of the SERS signal from the DPy molecules. The capability to reproduce and the selectivity of the sensing by DPy were both demonstrated. In addition, the applications for detecting Hg2+ in natural water and beverages were successfully detected. These results demonstrated the SERS sensors had the potential for detecting Hg2+ in practical use.

Too Hot for Photon-Assisted Transport: Hot-Electrons Dominate Conductance Enhancement in Illuminated Single-Molecule Junctions

We investigate light-induced conductance enhancement in single-molecule junctions via photon-assisted transport and hot-electron transport. Using 4,4'-bipyridine bound to Au electrodes as a prototypical single-molecule junction, we report a 20-40% enhancement in conductance under illumination with 980 nm wavelength radiation. We probe the effects of subtle changes in the transmission function on light-enhanced current and show that discrete variations in the binding geometry result in a 10% change in enhancement. Importantly, we prove theoretically that the steady-state behavior of photon-assisted transport and hot-electron transport is identical but that hot-electron transport is the dominant mechanism for optically induced conductance enhancement in single-molecule junctions when the wavelength used is absorbed by the electrodes and the hot-electron relaxation time is long. We confirm this experimentally by performing polarization-dependent conductance measurements of illuminated 4,4'-bipyridine junctions. Finally, we perform lock-in type measurements of optical current and conclude that currents due to laser-induced thermal expansion mask optical currents. This work provides a robust experimental framework for studying mechanisms of light-enhanced transport in single-molecule junctions and offers tools for tuning the performance of organic optoelectronic devices by analyzing detailed transport properties of the molecules involved.

Revealing the Conformational Dynamics in a Single-Molecule Junction by Site- and Angle-Resolved Dynamic Probe Method

Single-molecule junctions have been extensively studied because of their high potential for future nanoscale device applications as well as their importance in basic studies for molecular science and technology. However, since the bonding sites at an electrode and the molecular tilt angles, for example, cannot be determined experimentally, analyses have been performed assuming the structures of such interactive key factors, with uncertainties and inconsistencies remaining in the proposed mechanisms. We have developed a methodology that enables the probing of conformational dynamics in single-molecule junctions simultaneously with the direct characterization of molecular bonding sites and tilt angles. This technique has revealed the elemental processes in single-molecule junctions, which have not been clarified using conventional methods. The mechanisms of the molecular dynamics in 1,4-benzenedithiol and 4,4'-bipyridine single-molecule junctions, which, for example, produce binary conductance switching of different types, were clearly discriminated and comprehensively explained.

Transition voltage spectroscopy reveals significant solvent effects on molecular transport and settles an important issue in bipyridine-based junctions

Results of a seminal study (B. Xu and N. J. Tao, Science, 2003, 301, 1221) on the single-molecule junctions based on bipyridine placed in a solvent have been challenged recently (S. Y. Quek et al., Nat. Nano, 2009, 4, 230) by implicitly assuming a negligible solvent impact on the molecular transport and by merely considering low bias conductance data. In this paper we demonstrate that solvent effects on the molecular transport are important, and to show this we focus our attention on the energy offset ε(0) of the dominant molecular orbital (LUMO) relative to the electrode Fermi level. To estimate the energy offset ε(0)(sol) from the full I-V curves presented by Xu and Tao for wet junctions, we resort to the recently proposed transition voltage spectroscopy (TVS). TVS, which plays a key role in the present analysis, emphasizes that data beyond the ohmic conductance regime are needed to reveal the solvent impact. We show that ε(0)(sol) significantly differs from the energy offset ε(0)(0)deduced for dry junctions (J. R. Widawsky et al., Nano Lett., 2012, 12, 354). The present work demonstrates that solvent effects on molecular transport are important and can be understood quantitatively. Results of ab initio calculations with and without solvent are reported that excellently explain the difference δε(0) = ε(0)(sol)-ε(0)(0). δε(0) = ΔΔG + δΦ + δW can be disentangled in contributions with a clear physical content: solvation energies (ΔΔG), image charges (δΦ), and work functions (δW). Accurate analytical formulae for ΔΔG and δΦ are reported, which provide experimentalists with a convenient framework to quantify solvent effects obviating demanding numerical efforts.

THEORETICAL STUDY OF THE ELECTRON TRANSPORT THROUGH THE CYSTEINE AMINO ACID NANOMOLECULAR WIRE

In this paper, we study the electrical transport and Negative Differential Resistance (NDR) in a single molecular conductor consisting of a cysteine sandwiched between two Au (111) electrodes via the Density Functional Theory-based Nonequilibrium Green's Function (DFT-NEGF) method. We show that (surprisingly, despite their apparent simplicity, these Au /cysteine/ Au nanowires are shown to be a convenient NDR device) the smallest two-terminal molecular wire can exhibit NDR behavior to date. Experiments with a conventional or novel self-assembled monolayer (SAM) are proposed to test these predictions.

The projected density of states (PDOSs) and transmission coefficients T(E) under various external voltage biases are analyzed, and it suggests that the variation of the coupling between the molecule and the electrodes with external bias leads to NDR.

A systematic search for the structures, stabilities, and electronic properties of bimetallic Ca₂-doped gold clusters: comparison with pure gold clusters

The local meta-GGA exchange correlation density functional (TPSS) with a relativistic effective core potential was employed to systematically investigate the geometric structures, stabilities, and electronic properties of bimetallic Ca(2)Au( n ) (n = 1-9) and pure gold Au( n ) (n ≤ 11) clusters. The optimized geometries show that the most stable isomers for Ca(2)Au( n ) clusters have 3D structure when n > 2, and that one Au atom capping the Ca(2)Au( n-1) structure for different-sized Ca(2)Au( n ) (n = 1-9) clusters is the dominant growth pattern. The average atomic binding energies and second-order difference in energies show that the Ca(2)Au(4) isomer is the most stable among the Ca(2)Au( n ) clusters. The same pronounced even-odd alternations are found in the HOMO-LUMO gaps, VIPs, and hardnesses. The polarizabilities of the Ca(2)Au( n ) clusters show an obvious local minimum at n = 4. Moreover, the inverse corrections to the polarizabilities versus the ionization potential and hardness were found for the gold clusters.

Influence of conformation on conductance of biphenyl-dithiol single-molecule contacts

The conductance of a family of biphenyl-dithiol derivatives with conformationally fixed torsion angle was measured using the scanning tunneling microscopy (STM)-break-junction method. We found that it depends on the torsion angle phi between two phenyl rings; twisting the biphenyl system from flat (phi = 0 degrees ) to perpendicular (phi = 90 degrees ) decreased the conductance by a factor of 30. Detailed calculations of transport based on density functional theory and a two level model (TLM) support the experimentally obtained cos(2) phi correlation between the junction conductance G and the torsion angle phi. The TLM describes the pair of hybridizing highest occupied molecular orbital (HOMO) states on the phenyl rings and illustrates that the pi-pi coupling dominates the transport under "off-resonance" conditions where the HOMO levels are well separated from the Femi energy.

Nonequilibrium electronic transport of 4,4'-bipyridine molecular junction

The electronic transport properties of a 4,4'-bipyridine molecule sandwiched between two Au(111) surfaces are studied with a fully self-consistent nonequilibrium Green's-function method combined with the density-functional theory. The 4,4'-bipyridine molecule prefers to adsorb near the hollow site of the Au(111) surface and distorts slightly. The modifications on the electronic structure of the molecule due to the presence of the electrodes are described by the renormalized molecular orbitals, which correspond well to the calculated transmission peaks. The average Fermi level lies close to the lowest unoccupied renormalized molecular orbital, which determines the electronic transport property of the molecular junction under a small bias voltage. The total transmission is contributed by a single channel. The transmission peaks shift with the applied bias voltage, and this behavior depends on the spatial distribution of the renormalized molecular orbitals and the voltage drop along the molecular junction. The shape of the calculated conductance curve of the equilibrium geometric configuration reproduces the main feature of the experimental results, but the value is larger than the measured data by about 6 times. Good agreement with the experimental measurements can be obtained by elongating the molecular junction. The electronic transport behaviors depend strongly on the interface configuration.

Analysis on the contribution of molecular orbitals to the conductance of molecular electronic devices

We present a theoretical approach which allows one to extract the orbital contribution to the conductance of molecular electronic devices. This is achieved by calculating the scattering wave functions after the Hamiltonian matrix of the extended molecule is obtained from a self-consistent calculation that combines the nonequilibrium Green's function formalism with density functional theory employing a finite basis of local atomic orbitals. As an example, the contribution of molecular orbitals to the conductance of a model system consisting of a 4,4-bipyridine molecule connected to two semi-infinite gold monatomic chains is explored, illustrating the capability of our approach.

Conduction Mechanism of Aviram−Ratner Rectifiers with Single Pyridine−σ−C60 Oligomers

We present the electron transport of pyridyl aza[60]fulleroid oligomers, abbreviated as C(60)NPy, which is based on the donor-barrier-acceptor (D-sigma-A) architecture, at a single molecular scale using scanning tunneling microscopy. A rectifying effect is observed in the current-voltage characteristics. The theoretical calculation shows that the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO) are well localized either on the Py moiety (donor) or on the C(60) moiety (acceptor), indicating the sigma-bridge decouples the LUMO and the HOMO of the donor and the acceptor, respectively. This structure accords well with the unimolecular rectifying model proposed by Aviram and Ratner [Chem. Phys. Lett. 1974, 29, 277]. The mechanism of the rectifying effect is understood by analyzing in detail the electron transport through energy levels of the donor and the acceptor of the C(60)NPy molecules. By directly comparing the experimental conductance peaks and the calculated density of states of the C(60)NPy, we find that the observed rectification is attributed to the asymmetric positioning of the LUMOs and the HOMOs of both sides of the acceptor and the donor of the C(60)NPy molecules with respect to the Fermi level of the electrodes. When a main voltage drop is over the molecule-electrode vacuum junction but a small fraction over the molecule itself, the shift of the energy levels between the donor and the acceptor will be small. This behavior deviates from the original proposal by Aviram and Ratner in which a large shift of the energy level is expected.

Binding of Gold Clusters with DNA Base Pairs: A Density Functional Study of Neutral and Anionic GC−Aun and AT−Aun (n = 4, 8) Complexes

Binding of clusters of gold atoms (Au) with the guanine-cytosine (GC) and adenine-thymine (AT) Watson-Crick DNA base pairs was studied using the density functional theory (DFT). Geometries of the neutral GC-Au(n) and AT-Au(n) and the corresponding anionic (GC-Au(n))(-1) and (AT-Au(n))(-1) (n = 4, 8) complexes were fully optimized in different electronic states, that is, singlet and triplet states for the neutral complexes and doublet and quartet states for the anionic complexes, using the B3LYP density functional method. The 6-31+G basis set was used for all atoms except gold. For gold atoms, the Los Alamos effective core potential (ECP) basis set LanL2DZ was employed. Vibrational frequency calculations were performed to ensure that the optimized structures corresponded to potential energy surface minima. The gold clusters around the neutral GC and AT base pairs have a T-shaped structure, which satisfactorily resemble those observed experimentally and in other theoretical studies. However, in anionic GC and AT base pairs, the gold clusters have extended zigzag and T-shaped structures. We found that guanine and adenine have high affinity for Au clusters, with their N3 and N7 sites being preferentially involved in binding with the same. The calculated adiabatic electron affinities (AEAs) of the GC-Au(n)complexes (n = 4, 8) were found to be much larger than those of the isolated base pairs.

Local density of states effects at the metal-molecule interfaces in a molecular device

Clarifying the nature of interactions between metal electrodes and organic molecules still represent one of the challenging problems in molecular electronics that needs to be solved in order to optimize electron transport through a molecular device. For this purpose, electronic properties at metal-molecule interfaces were studied by combining experimental and theoretical methods. Applying a novel electrochemical approach, strictly two-dimensional Pd islands were prepared on top of 4-mercaptopyridine self-assembled monolayers (4MP-SAMs) which, in turn, were deposited on (111)-oriented Au single crystals. Electron spectroscopy together with density functional theory calculations revealed strong interactions between the molecules and the islands due to Pd-N bonds, resulting in a drastically reduced density of states (DOS) at the Fermi level EF for a nearly closed Pd monolayer, and even non-metallic properties for nanometre-sized islands. Similarly, a significantly reduced DOS at EF was observed for the topmost Au layer at the Au-SAM interface due to Au-S interactions, suggesting that these effects are rather general.

Evaluation of Basis Sets with 11-Electron Analytic Effective Core Potentials of Gold for Modeling Molecular Electronic Devices

Three types of 11-electron analytic effective core potentials (ECPs) and their corresponding double-zeta and single-zeta basis sets of gold are evaluated using density functional theory (DFT) calculations. We find that, compared with basis sets derived for use with Hatree-Fock-based Los Alamos (LANL1) and Ermler-Christiansen (EC) ECPs, the DFT-derived Troullier-Martins (TM) ECP together with a single-zeta basis set (TMSZ) is more suitable to describe not only the interaction between gold atoms with a benzene-1,4-dithiolate molecule but also the electronic structure of an infinite 1-dimensional monatomic gold chain. Hence, TMSZ is the best single-zeta basis set with an 11-electron ECP for gold available currently to be used in theoretical calculations on electrical properties of molecular electronic devices with DFT based Green's function method employing a finite analytic basis of local orbitals.

First principles calculations of mechanical properties of 4,4'-bipyridine attached to Au nanowires

A first attempt is made to calculate the forces involved in the breaking of nanowires consisting of a molecule attached to nanosized metallic pieces. As a model system, we consider different Au nanowires connected by a 4,4(')-bipyridine or pyrazine molecule, for which density functional calculations were performed at different elongations. The geometry of the system was optimized for different forces applied. In all cases the calculated maximum forces were close to 1 nN, which is of the order of the experimental values, and smaller than the corresponding to the rupture of the Au-Au chain (1.5-1.6 nN). When 4,4(')-bipyridine is attached to Au monoatomic nanowire, the maximum force required to break the Au-Au bond may be lowered to values close to that obtain to break the Au-N bond, but when 4,4(')-bipyridine is attached to small Au clusters, the breaking of the nanowire takes place at the Au-N bond only.