Charging induced asymmetry in molecular conductors

We investigate the origin of asymmetry in various measured current-voltage (I-V) characteristics of molecules with no inherent spatial asymmetry, with particular focus on a recent break junction measurement. We argue that such asymmetry arises due to unequal coupling with the contacts and a consequent difference in charging effects, which can only be captured in a self-consistent model for molecular conduction. The direction of the asymmetry depends on the sign of the majority carriers in the molecule. For conduction through highest occupied molecular orbitals (i.e. HOMO or p-type conduction), the current is smaller for positive voltage on the stronger contact, while for conduction through lowest unoccupied molecular orbitals (i.e. LUMO or n-type conduction), the sense of the asymmetry is reversed. Within an extended Huckel description of the molecular chemistry and the contact microstructure (with two adjustable parameters, the position of the Fermi energy and the sulphur-gold bond length), an appropriate description of Poisson's equation, and a self-consistently coupled non-equilibrium Green's function (NEGF) description of transport, we achieve good agreement between theoretical and experimental I-V characteristics, both in shape as well as overall magnitude.Comment: length of the paper has been extended (4 pages to 6 pages), two new figures have been added (3 figures to 5 figures), has been accepted for PR

Efficiency Improvements for Encrypt-to-Self

Recent work by Pijnenburg and Poettering (ESORICS'20) explores the novel cryptographic Encrypt-to-Self primitive that is dedicated to use cases of symmetric encryption where encryptor and decryptor coincide. The primitive is envisioned to be useful whenever a memory-bounded computing device is required to encrypt some data with the aim of temporarily depositing it on an untrusted storage device. While the new primitive protects the confidentiality of payloads as much as classic authenticated encryption primitives would do, it provides considerably better authenticity guarantees: Specifically, while classic solutions would completely fail in a context involving user corruptions, if an encrypt-to-self scheme is used to protect the data, all ciphertexts and messages fully remain unforgeable. To instantiate their encrypt-to-self primitive, Pijnenburg et al propose a mode of operation of the compression function of a hash function, with a carefully designed encoding function playing the central role in the serialization of the processed message and associated data. In the present work we revisit the design of this encoding function. Without questioning its adequacy for securely accomplishing the encrypt-to-self job, we improve on it from a technical/implementational perspective by proposing modifications that alleviate certain conditions that would inevitably require implementations to disrespect memory alignment restrictions imposed by the word-wise operation of modern CPUs, ultimately leading to performance penalties. Our main contributions are thus to propose an improved encoding function, to explain why it offers better performance, and to prove that it provides as much security as its predecessor. We finally report on our open-source implementation of the encrypt-to-self primitive based on the new encoding function.Comment: this is the full version of content that appears at CYSARM'2

Driving current through single organic molecules

We investigate electronic transport through two types of conjugated molecules. Mechanically controlled break-junctions are used to couple thiol endgroups of single molecules to two gold electrodes. Current-voltage characteristics (IVs) of the metal-molecule-metal system are observed. These IVs reproduce the spatial symmetry of the molecules with respect to the direction of current flow. We hereby unambigously detect an intrinsic property of the molecule, and are able to distinguish the influence of both the molecule and the contact to the metal electrodes on the transport properties of the compound system.Comment: 4 pages, 5 figure

Orbital Interaction Mechanisms of Conductance Enhancement and Rectification by Dithiocarboxylate Anchoring Group

We study computationally the electron transport properties of dithiocarboxylate terminated molecular junctions. Transport properties are computed self-consistently within density functional theory and nonequilibrium Green's functions formalism. A microscopic origin of the experimentally observed current amplification by dithiocarboxylate anchoring groups is established. For the 4,4'-biphenyl bis(dithiocarboxylate) junction, we find that the interaction of the lowest unoccupied molecular orbital (LUMO) of the dithiocarboxylate anchoring group with LUMO and highest occupied molecular orbital (HOMO) of the biphenyl part results in bonding and antibonding resonances in the transmission spectrum in the vicinity of the electrode Fermi energy. A new microscopic mechanism of rectification is predicted based on the electronic structure of asymmetrical anchoring groups. We show that the peaks in the transmission spectra of 4'-thiolato-biphenyl-4-dithiocarboxylate junction respond differently to the applied voltage. Depending upon the origin of a transmission resonance in the orbital interaction picture, its energy can be shifted along with the chemical potential of the electrode to which the molecule is more strongly or more weakly coupled

Current rectification by simple molecular quantum dots: an ab-initio study

We calculate a current rectification by molecules containing a conjugated molecular group sandwiched between two saturated (insulating) molecular groups of different length (molecular quantum dot) using an ab-initio non-equilibrium Green's function method. In particular, we study S-(CH2)m-C10H6-(CH2)n-S dithiol with Naphthalene as a conjugated central group. The rectification current ratio ~35 has been observed at m = 2 and n = 10, due to resonant tunneling through the molecular orbital (MO) closest to the electrode Fermi level (lowest unoccupied MO in the present case). The rectification is limited by interference of other conducting orbitals, but can be improved by e.g. adding an electron withdrawing group to the naphthalene.Comment: 8 pages, 9 figure

Molecular Wires Acting as Coherent Quantum Ratchets

The effect of laser fields on the electron transport through a molecular wire being weakly coupled to two leads is investigated. The molecular wire acts as a coherent quantum ratchet if the molecule is composed of periodically arranged, asymmetric chemical groups. This setup presents a quantum rectifier with a finite dc-response in the absence of a static bias. The nonlinear current is evaluated in closed form within the Floquet basis of the isolated, driven wire. The current response reveals multiple current reversals together with a nonlinear dependence (reflecting avoided quasi-energy crossings) on both, the amplitude and the frequency of the laser field. The current saturates for long wires at a nonzero value, while it may change sign upon decreasing its length.Comment: 4 pages, 4 figures, RevTeX

Bi-stable tunneling current through a molecular quantum dot

An exact solution is presented for tunneling through a negative-U d-fold degenerate molecular quantum dot weakly coupled to electrical leads. The tunnel current exhibits hysteresis if the level degeneracy of the negative-U dot is larger than two (d>2). Switching occurs in the voltage range V1 < V < V2 as a result of attractive electron correlations in the molecule, which open up a new conducting channel when the voltage is above the threshold bias voltage V2. Once this current has been established, the extra channel remains open as the voltage is reduced down to the lower threshold voltage V1. Possible realizations of the bi-stable molecular quantum dots are fullerenes, especially C60, and mixed-valence compounds.Comment: 5 pages, 1 figure. (v2) Figure updated to compare the current hysteresis for degeneracies d=4 and d>>1 of the level in the dot, minor corrections in the text. To appear in Phys. Rev.

Kirchhoff's Rule for Quantum Wires

In this article we formulate and discuss one particle quantum scattering theory on an arbitrary finite graph with $n$ open ends and where we define the Hamiltonian to be (minus) the Laplace operator with general boundary conditions at the vertices. This results in a scattering theory with $n$ channels. The corresponding on-shell S-matrix formed by the reflection and transmission amplitudes for incoming plane waves of energy $E>0$ is explicitly given in terms of the boundary conditions and the lengths of the internal lines. It is shown to be unitary, which may be viewed as the quantum version of Kirchhoff's law. We exhibit covariance and symmetry properties. It is symmetric if the boundary conditions are real. Also there is a duality transformation on the set of boundary conditions and the lengths of the internal lines such that the low energy behaviour of one theory gives the high energy behaviour of the transformed theory. Finally we provide a composition rule by which the on-shell S-matrix of a graph is factorizable in terms of the S-matrices of its subgraphs. All proofs only use known facts from the theory of self-adjoint extensions, standard linear algebra, complex function theory and elementary arguments from the theory of Hermitean symplectic forms.Comment: 40 page

The SND proteins constitute an alternative targeting route to the endoplasmic reticulum.

In eukaryotes, up to one-third of cellular proteins are targeted to the endoplasmic reticulum, where they undergo folding, processing, sorting and trafficking to subsequent endomembrane compartments(1). Targeting to the endoplasmic reticulum has been shown to occur co-translationally by the signal recognition particle (SRP) pathway(2) or post-translationally by the mammalian transmembrane recognition complex of 40 kDa (TRC40)(3,4) and homologous yeast guided entry of tail-anchored proteins (GET)(5,6) pathways. Despite the range of proteins that can be catered for by these two pathways, many proteins are still known to be independent of both SRP and GET, so there seems to be a critical need for an additional dedicated pathway for endoplasmic reticulum relay(7,8). We set out to uncover additional targeting proteins using unbiased high-content screening approaches. To this end, we performed a systematic visual screen using the yeast Saccharomyces cerevisiae(9,10), and uncovered three uncharacterized proteins whose loss affected targeting. We suggest that these proteins work together and demonstrate that they function in parallel with SRP and GET to target a broad range of substrates to the endoplasmic reticulum. The three proteins, which we name Snd1, Snd2 and Snd3 (for SRP-independent targeting), can synthetically compensate for the loss of both the SRP and GET pathways, and act as a backup targeting system. This explains why it has previously been difficult to demonstrate complete loss of targeting for some substrates. Our discovery thus puts in place an essential piece of the endoplasmic reticulum targeting puzzle, highlighting how the targeting apparatus of the eukaryotic cell is robust, interlinked and flexible

Electron transport through dipyrimidinyl-diphenyl diblock molecular wire: protonation effect

Recently, rectifying direction inversion has been observed in dipyrimidinyl-diphenyl (PMPH) diblock molecular wire [J. Am. Chem. Soc. (2005) 127, 10456], and a protonation mechanism was suggested to explain this interesting phenomena. In this paper, we study the protonation effect on transport properties of PMPH molecule by first principles calculations. No significant rectification is found for the pristine diblock molecular wire. Protonation leads to conductance enhancement and rectification. However, for all considered junctions with rectifying effect, the preferential current directions are samely from dipyrimidinyl side to diphenyl side. Effect of molecule-electrode anchoring geometry is studied, and it is not responsible for the discrepancy between experiment and theory.Comment: 17 pages, 8 figure