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NANOARTOGRAPHY COMPETITION

Supercomputing simulations spot electronic differences in adjacent transition-metal atoms


AFM images of FePc and CoPc on a Cu(111) surface (a) Experimental constant-height AFM frequency-shift images. (b) Glow-edges filtered experimental AFM image (based on a). (c) Simulated AFM images. (d) Estimated width (in pm) of the central part of the spin-polarized DFT calculations. @ University of Texas at Austin

No one will ever be able to see a purely mathematical construct such as a perfect sphere. But now, scientists using supercomputer simulations and atomic resolution microscopes have imaged the signatures of electron orbitals, which are defined by mathematical equations of quantum mechanics and predict where an atom’s electron is most likely to be.


Scientists at UT Austin, Princeton University, and ExxonMobil have directly observed the signatures of electron orbitals in two different transition-metal atoms, iron (Fe) and cobalt (Co) present in metal-phthalocyanines. Those signatures are apparent in the forces measured by atomic force microscopes, which often reflect the underlying orbitals and can be so interpreted.


Their study was published in March 2023 as an Editors’ Highlight in the journal Nature Communications.

(a) Low-magnification STM image of FePc and CoPc molecules using a CO tip. Schematic side (b) and top (c) views of the relaxed FePc molecule adsorbed on a Cu(111) substrate. Blue: Fe, yellow: C, pink: N, white: H, dark purple: Cu. @ University of Texas at Austin

“Our collaborators at Princeton University found that despite Fe and Co being adjacent atoms on the periodic table, which implies similarity, the corresponding force spectra and their measured images show reproducible experimental differences,” said study co-author James R. Chelikowsky, the W.A. "Tex" Moncrief, Jr. Chair of Computational Materials and professor in the Departments of Physics, Chemical Engineering, and Chemistry in the College of Natural Sciences at UT Austin. Chelikowsky also serves as the director of the Center for Computational Materials at the Oden Institute for Computational Engineering and Sciences.


Without a theoretical analysis, the Princeton scientists could not determine the source of the differences they spotted using high-resolution non-contact atomic force microscopy (HR-AFM) and spectroscopy that measured molecular-scale forces on the order of piconewtons (pN), one-trillionth of a Newton.


“When we first observed the experimental images, our initial reaction was to marvel at how experiment could capture such subtle differences. These are very small forces,” Chelikowsky added.


“By directly observing the signatures of electron orbitals using techniques such as atomic force microscopy, we can gain a better understanding of the behavior of individual atoms and molecules, and potentially even how to design and engineer new materials with specific properties. This is especially important in fields such as materials science, nanotechnology, and catalysis,” Chelikowsky said.


The required electronic structure calculations are based on density functional theory (DFT), which starts from basic quantum mechanical equations and serves as a practical approach for predicting the behavior of materials.


“Our main contribution is that we validated through our real-space DFT calculations that the observed experimental differences primarily stem from the different electronic configurations in 3d electrons of Fe and Co near the Fermi level, the highest energy state an electron can occupy in the atom,” said study co-first author Dingxin Fan, a former graduate student working with Chelikowsky. Fan is now a postdoctoral research associate at the Princeton Materials Institute.


The DFT calculations included the copper substrate for the Fe and Co atoms, adding a few hundred atoms to the mix and calling for intense computation, for which they were awarded an allocation on the Stampede2 supercomputer at the Texas Advanced Computing Center (TACC), funded by the National Science Foundation.


“In terms of our model, at a certain height, we moved the carbon monoxide tip of the AFM over the sample and computed the quantum forces at every single grid point in real space," Fan said. "This entails hundreds of different computations. The built-in software packages on TACC’s Stampede2 helped us to perform data analysis much more easily. For example, the Visual Molecular Dynamics software expedites an analysis of our computational results."


“Stampede2 has provided excellent computational power and storage capacity to support various research projects we have,” Chelikowsky added.


By demonstrating that the electron orbital signatures are indeed observable using AFM, the scientists assert that this new knowledge can extend the applicability of AFM into different areas.


What’s more, their study, used an inert molecular probe tip to approach another molecule and accurately measured the interactions between the two molecules. This allowed the science team to study specific surface chemical reactions.


For example, suppose that a catalyst can accelerate a certain chemical reaction, but it is unknown which molecular site is responsible for the catalysis. In this case, an AFM tip prepared with the reactant molecule can be used to measure the interactions at different sites, ultimately determining the chemically active site or sites.

The Texas Advanced Computing Center’s Stampede2 supercomputer, funded by the National Science Foundation, helped scientists with quantum mechanical calculations used in the electron orbital observations, with application to materials at the cutting edge of materials science, nanotechnology, and catalysis. @ TACC

Moreover, since the orbital level information can be obtained, scientists can gain a much deeper understanding of what will happen when a chemical reaction occurs. As a result, other scientists could design more efficient catalysts based on this information.


Said Chelikowsky: “Supercomputers, in many ways, allow us to control how atoms interact without having to go into the lab. Such work can guide the discovery of new materials without a laborious ‘trial and error’ procedure.”


Reference Observation of electron orbital signatures of single atoms within metal-phthalocyanines using atomic force microscopy

Pengcheng Chen, Dingxin Fan, Annabella Selloni, Emily A. Carter, Craig B. Arnold, Yunlong Zhang, Adam S. Gross, James R. Chelikowsky & Nan Yao


NWA Magazine - Nov2023 - Cover - Final.PNG

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