A new model to help explain atomic solution molecules

Looking at the unseen

The standard table of contents for each type of atom is shown as a color ball. Each atom in the CPK model (top) is larger than the size in the Z-correlated model (bottom), because it is based on the distribution of electrons around an atom in the first the size of the nucleus itself. This is especially important in electron microscopy where the electron world is not visible. Available: © 2021 Nakamura, Harano et al.

There are many ways to create two- and three-dimensional models and models. With the advent of cutters that could take samples on the atomic scale, scientists realized that the ancient molecules did not fit the images they had seen. The researchers thought of a better way to identify the molecules that build on these traditions. Their models are well -suited to the image data they have, and they believe that the models can help chemists with their intuition to interpret molecular images.

Those reading this may be familiar with spherical patterns and traditional woods of atoms and molecules, where spheres of different sizes and colors represent different atomic nuclei. and the trees show the properties of the holdings between the powers. While these are practical educational tools, they are much simpler than they actually think. Chemists use models such as the Corey – Pauling – Koltun (CPK) model, which is similar to the ball -of -wood model but with more balls they roll. The CPK model shows the chemistry of how the parts of a molecule interact more than the ball-of-wood model.

In recent years, it has not only been possible to capture the structures of molecules but also to record their movements and interactions on video to improve technologies such as atomic resolution transmission electron microscopy (AR). -TEM). This is sometimes called “cinematic molecular science.” However, with this leap in our ability to see the unseen the ball-of-stick or CPK features may be more of a hindrance than a help. When researchers from the Department of Chemistry at the University of Tokyo tried to match these features with the images they were seeing, they encountered some problems.







The researchers compared the Z-correlated molecular structure with ball-to-stick and CPK models. Available: © 2021 Nakamura, Harano et al.

“The ball -and -stick model is very easy to accurately describe what is actually going on in our paintings,” says Professor Koji Harano. “And the CPK model, which shows the scattering of electrons around an atomic nucleus, makes it more difficult to know some details.”

In AR-TEM images, the size of each atom is directly related to the atomic weight of that atom, called Z. So Professor Eiichi Nakamura and his team chose to develop a ball model- a-tree corresponding to their images, where each nucleus is located. the model is as large as the Z number of the nucleus shown, and is called the Z-correlated (ZC) molecular model. They used the same dyeing system used in the CPK model, first introduced by American chemists Robert Corey and Linus Pauling in 1952.

“The property is an image of a thousand words, and you can compare AR-TEM images with the first image of a black hole,” Nakamura says. “They both show a truth that has never been seen before, and they are not very clear from what people think when they look at those things. The model will help at night. chemists will analyze electron microscope images by intuition without the need for any theoretical calculations, and open up a whole new world of cinematic molecular science.

The article is published in Proceedings of the National Academy of Sciences.


The phenomenon of atomic movements


More information:
Junfei Xing et al. Atom Number (Z) -Atom Numbers Added to Describe Molecular Microscopic Electron Images, Proceedings of the National Academy of Sciences (2022). DOI: 10.1073 / pnas.2114432119

Presented by the University of Tokyo

Directions: Observing the Unknown: A new model to help explain atomic solution molecules (2022, March 28) retrieved March 28, 2022 from https://phys.org/news/2022 -03-visualizing-invisible-aid-atomic-resolution .html

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