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Register a new userSelf-Assembly of Glycine on Cu (001): the Tales of Polarity and Temperature
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Glycine on Cu(001) is used as an example to illustrate the critical role of molecular polarity and finite temperature effect in self-assembly of biomolecules at a metal surface. A unified picture for glycine self-assembly on Cu(001) is derived based on full polarity compensation considerations, implemented as a generic rule. Temperature plays a non-trivial role: the ground-state structure at 0 K is absent at room temperature, where intermolecular hydrogen bonding overweighs competing molecule-substrate interactions. The unique p(2X4) structure from the rule is proved as the most stable one by ab initio molecular dynamics at room temperature, and its STM images and anisotropic free-electron-like dispersion are in excellent agreement with experiments. Moreover, the rich self-assembling patterns including the heterochiral and homochiral phases, and their interrelationships are entirely governed by the same mechanism.
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Normal incidence 1 keV Ar$^+$ ion bombardment leads to amorphization and ultrasmoothing of Ge at room temperature, but at elevated temperatures the Ge surface remains crystalline and is unstable to the formation of self-organized nanoscale patterns of ordered pyramid-shaped pits. The physical phenomenon distinguishing the high temperature patterning from room temperature ultrasmoothing is believed to be a surface instability due to the Ehrlich-Schwoebel barrier for diffusing vacancies and adatoms, which is not present on the amorphous material. This real-time GISAXS study compares smoothing of a pre-patterned Ge sample at room temperature with patterning of an initially flat Ge sample at an elevated temperature. In both experiments, when the nanoscale structures are relatively small in height, the average kinetics can be explained by a linear theory. The linear theory coefficients, indicating surface stability or instability, were extracted for both experiments. A comparison between the two measurements allows estimation of the contribution of the Ehrlich-Schwoebel barrier to the self-organized formation of ordered nanoscale patterns on crystalline Ge surfaces.
The structural and magnetic properties of Fe octaethylporphyrin (OEP) molecules on Cu(001) have been investigated by means of density functional theory (DFT) methods and X-ray absorption spectroscopy. The molecules have been adsorbed on the bare metal surface and on an oxygen-covered surface, which shows a $sqrt{2}times2sqrt{2}R45^{circ}$ reconstruction. In order to allow for a direct comparison between magnetic moments obtained from sum-rule analysis and DFT we calculate the dipolar term $7< T_z>$, which is also important in view of the magnetic anisotropy of the molecule. The measured X-ray magnetic circular dichroism shows a strong dependence on the photon incidence angle, which we could relate to a huge value of $7< T_z>$, e.g. on Cu(001) $7< T_z>$ amounts to -2.07,mbo{} for normal incidence leading to a reduction of the effective spin moment $m_s + 7< T_z>$. Calculations have also been performed to study the influence of possible ligands such as Cl and O atoms on the magnetic properties of the molecule and the interaction between molecule and surface, because the experimental spectra display a clear dependence on the ligand, which is used to stabilize the molecule in the gas phase. Both types of ligands weaken the hybridization between surface and porphyrin molecule and change the magnetic spin state of the molecule, but the changes in the X-ray absorption are clearly related to residual Cl ligands.
Molecular dynamics simulations have been performed to understand the variations in deformation mechanisms of Cu nanowires as a function of orientation and loading mode (tension or compression). Cu nanowires of different crystallographic orientations distributed uniformly on the standard stereographic triangle have been considered under tensile and compressive loading. The simulation results indicate that under compressive loading, the orientations close to $<$100$>$ corner deform by twinning mechanism, while the remaining orientations deform by dislocation slip. On the other hand, all the nanowires deform by twinning mechanism under tensile loading. Further, the orientations close to $<$110$>$ and $<$111$>$ corner exhibit tension-compression asymmetry in deformation mechanisms. In addition to deformation mechanisms, Cu nanowires also display tension-compression asymmetry in yield stress. The orientations close to $<$001$>$ corner exhibits higher yield stress in tension than in compression, while the opposite behaviour (higher yield stress in compression than in tension) has been observed in orientations close to $<$110$>$ and $<$111$>$ corners. For the specific orientation of $<$102$>$, the yield stress asymmetry has not been observed. The tension-compression asymmetry in deformation mechanisms has been explained based on the parameter $alpha_M$, defined as the ratio of Schmid factors for leading and trailing partial dislocations. Similarly, the asymmetry in yield stress values has been attributed to the different Schmid factor values for leading partial dislocations under tensile and compressive loading.
We present results of density-functional calculations on the magnetic properties of Cr, Mn, Fe and Co nano-clusters (1 to 9 atoms large) supported on Cu(001) and Cu(111). The inter-atomic exchange coupling is found to depend on competing mechanisms, namely ferromagnetic double exchange and antiferromagnetic kinetic exchange. Hybridization-induced broadening of the resonances is shown to be important for the coupling strength. The cluster shape is found to weaken the coupling via a mechanism that comprises the different orientation of the atomic d-orbitals and the strength of nearest-neighbour hopping. Especially in Fe clusters, a correlation of binding energy and exchange coupling is also revealed.
Covalent substrates can give rise to a variety of magnetic interaction mechanisms among adsorbed transition metal atoms building atomic nanostructures. We show this by calculating the ground state magnetic configuration of monoatomic 3d chains deposited on a monolayer of Cu$_2$N grown on Cu(001) as a function of $d$ filling and of adsorption sites of the one dimensional nanostructures.
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