Surface-Mediated Ring-Opening and Porphyrin Deconstruction via Conformational Distortion.

The breakdown of macrocyclic compounds is of utmost importance in manifold biological and chemical processes, usually proceeding via oxygenation-induced ring-opening reactions. Here, we introduce a surface chemical route to selectively break a prototypical porphyrin species, cleaving off one pyrrole unit and affording a tripyrrin derivative. This pathway, operational in an ultrahigh vacuum environment at moderate temperature is enabled by a distinct molecular conformation achieved via the specific interaction between the porphyrin and its copper support. We provide an atomic-level characterization of the surface-anchored tripyrrin, its reaction intermediates, and byproducts by bond-resolved atomic force microscopy, unequivocally identifying the molecular skeletons. The ring-opening is rationalized by the distortion reducing the macrocycle's stability. Our findings open a route to steer ring-opening reactions by conformational design and to study intriguing tetrapyrrole catabolite analogues on surfaces.

Efficient simulation of near-edge x-ray absorption fine structure (NEXAFS) in density-functional theory: Comparison of core-level constraining approaches.

Widely employed Near-Edge X-Ray Absorption Fine Structure (NEXAFS) spectroscopy probes a system by excitation of core electrons to unoccupied states. A variety of different methodologies are available to simulate corresponding spectra from first-principles. Core-level occupation constraints within ground-state Density-Functional Theory represent a numerically most efficient means to this end that provides access to large systems, examples being surface adsorption, proteins, polymers, liquids, and buried, condensed phase interfaces (e.g., solid-liquid and solid-solid). Here, we systematically investigate the performance of different realizations of this approximate approach through the simulation of K-edge NEXAFS-spectra of a set of carbon and nitrogen-containing organic molecules. Variational collapse to the ground state and oscillatory convergence are the major complications of these approximate computational protocols. We present a modified version of the maximum-overlap method to achieve a self-consistent inclusion of electrons in virtual states for systems where convergence is hampered due to degeneracies. Our results demonstrate that reliable spectra allowing for a semi-quantitative analysis of experimental data are already obtained at the semi-local level of density functionals and with standard numeric atomic orbital basis sets.

Spin Manipulation by Creation of Single-Molecule Radical Cations.

All-trans-retinoic acid (ReA), a closed-shell organic molecule comprising only C, H, and O atoms, is investigated on a Au(111) substrate using scanning tunneling microscopy and spectroscopy. In dense arrays single ReA molecules are switched to a number of states, three of which carry a localized spin as evidenced by conductance spectroscopy in high magnetic fields. The spin of a single molecule may be reversibly switched on and off without affecting its neighbors. We suggest that ReA on Au is readily converted to a radical by the abstraction of an electron.

Communication: Charge-population based dispersion interactions for molecules and materials.

We introduce a system-independent method to derive effective atomic C6 coefficients and polarizabilities in molecules and materials purely from charge population analysis. This enables the use of dispersion-correction schemes in electronic structure calculations without recourse to electron-density partitioning schemes and expands their applicability to semi-empirical methods and tight-binding Hamiltonians. We show that the accuracy of our method is en par with established electron-density partitioning based approaches in describing intermolecular C6 coefficients as well as dispersion energies of weakly bound molecular dimers, organic crystals, and supramolecular complexes. We showcase the utility of our approach by incorporation of the recently developed many-body dispersion method [Tkatchenko et al., Phys. Rev. Lett. 108, 236402 (2012)] into the semi-empirical density functional tight-binding method and propose the latter as a viable technique to study hybridorganic-inorganic interfaces.

Core Electron Binding Energies in Solids from Periodic All-Electron Δ-Self-Consistent-Field Calculations.

Theoretical calculations of core electron binding energies are required for the interpretation of experimental X-ray photoelectron spectra, but achieving accurate results for solids has proven difficult. In this work, we demonstrate that accurate absolute core electron binding energies in both metallic and insulating solids can be obtained from periodic all-electron Δ-self-consistent-field (ΔSCF) calculations. In particular, we show that core electron binding energies referenced to the valence band maximum can be obtained as total energy differences between two (N - 1)-electron systems: one with a core hole and one with an electron removed from the highest occupied valence state. To achieve convergence with respect to the supercell size, the analogy between localized core holes and charged defects is exploited. Excellent agreement between calculated and experimental core electron binding energies is found for both metals and insulators, with a mean absolute error of 0.24 eV for the systems considered.

Assembly of Robust Holmium-Directed 2D Metal-Organic Coordination Complexes and Networks on the Ag(100) Surface.

We describe the formation of lanthanide-organic coordination networks and complexes under ultra-high-vacuum conditions on a clean Ag(100) surface. The structures comprise single Ho atoms as coordination centers and 1,4-benzenedicarboxylate (from terephtalic acid, TPA) as molecular linkers. Using low-temperature scanning tunneling microscopy, we find two different chiral phases of surface-supported metal-organic structures incorporating Ho atoms. Density functional theory calculations can explain the structure of both binding motifs and give possible reasons for their varying formation under the respective Ho/TPA ratios, as well as deposition and annealing temperatures. Metal-ligand interactions drive the formation of cloverleaf-shaped mononuclear Ho-TPA4 complexes establishing supramolecular arrays stabilized through hydrogen bonding. A 2D lanthanide-organic reticulation is observed when changing the stoichiometry between the two building blocks. The combined insights from scanning tunneling microscopy and density functional theory reveal the relative stability, charge transfer, and bonding environment of both motifs.

Remote functionalization in surface-assisted dehalogenation by conformational mechanics: organometallic self-assembly of 3,3',5,5'-tetrabromo-2,2',4,4',6,6'-hexafluorobiphenyl on Ag(111).

Even though the surface-assisted dehalogenative coupling constitutes the most abundant protocol in on-surface synthesis, its full potential will only become visible if selectivity issues with polybrominated precursors are comprehensively understood, opening new venues for both organometallic self-assembly and on-surface polymerization. Using the 3,3',5,5'-tetrabromo-2,2',4,4',6,6'-hexafluorobiphenyl (Br4F6BP) at Ag(111), we demonstrate a remote site-selective functionalization at room temperature and a marked temperature difference in double- vs. quadruple activation, both phenomena caused by conformational mechanical effects of the precursor-surface ensemble. The submolecularly resolved structural characterization was achieved by Scanning Tunneling Microscopy, the chemical state was quantitatively assessed by X-ray Photoelectron Spectroscopy, and the analysis of the experimental signatures was supported through first-principles Density-Functional Theory calculations. The non-planarity of the various structures at the surface was specifically probed by additional Near Edge X-ray Absorption Fine Structure experiments. Upon progressive heating, Br4F6BP on Ag(111) shows the following unprecedented phenomena: (1) formation of regular organometallic 1D chains via remote site-selective 3,5'-didebromination; (2) a marked temperature difference in double- vs. quadruple activation; (3) an organometallic self-assembly based on reversibility of C-Ag-C linkages with a thus far unknown polymorphism affording both hexagonal and rectangular 2D networks; (4) extraordinary thermal stability of the organometallic networks. Controlled covalent coupling at the previously Br-functionalized sites was not achieved for the Br4F6BP precursor, in contrast to the comparatively studied non-fluorinated analogue.