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Chemistry Animations: Atoms, Crystals and Molecules

Animations and interactive applets dealing with atoms, crystals and molecules give a visual form to structures that are far too small to see and that change in ways difficult to imagine from text alone. By rotating, building and rearranging models on screen, they help learners grasp how atoms are put together, how they bond, and how those bonds determine the shape and behaviour of larger structures.

At the atomic level, animations show the nucleus of protons and neutrons surrounded by electrons occupying orbitals, regions of characteristic shape and energy. Visualising how electrons fill these orbitals makes clear why elements in the periodic table fall into families with similar behaviour and why some atoms readily form bonds while others do not. This connects the abstract rules of electron arrangement to the observable chemistry of the elements.

For molecules, three-dimensional models reveal the geometry that flat formulas cannot convey: bond angles, the spatial layout of atoms, and the difference between molecules that share the same formula but differ in arrangement. Such models are especially helpful for organic molecules, whose properties depend strongly on shape. For crystals, animations display the repeating lattice in which atoms or ions are stacked in an ordered pattern, showing how a simple repeating unit builds up the full structure of a solid. Because these visual tools let a structure be turned and examined from every side, they make the link between atomic-scale arrangement and real material properties far easier to understand.

Frequently asked questions

Why are animations useful for studying atomic structure?
They make visible the nucleus, electrons and orbitals that cannot be seen directly, helping learners connect electron arrangements to the chemical behaviour of elements.
What do three-dimensional molecular models show that formulas do not?
They reveal the actual geometry of a molecule, including bond angles and spatial arrangement, which determines properties and distinguishes molecules that share the same formula.
How do crystal animations illustrate solid structure?
They show the repeating lattice in which atoms or ions are stacked in an ordered pattern, demonstrating how a small repeating unit builds the entire crystal.




Chemistry java applets and animations:    
Acids and Bases Chemistry: overview Gas Laws Organic chemistry
Atoms, crystals & molecules Electrochemistry General chemistry  

Chemistry java applets and animations: Atoms, Crystals and Molecules  related topic: Periodic table of the elements
3D Atom Proton, Neutron, S - Subshell Electron, P - Subshell Electron, D - Subshell Electron, F - Subshell Electron
3D DNA Molecule Nitrogen, Oxygen, Hydrogen, Phosphorus, Carbon
Alkaline Electrolysis
Atom Atomic structure animation
Atomic Electron Configurations
Atomic Orbitals
Atomic Orbitals a gallery of atomic orbitals and molecular orbitals
Atomic structure
Atoms, symbols and equations atoms, elements and symbols, word equations, valency, formulas, writing chemical equations, balancing chemical equations, atomic structure and the formation of ions (download)
Atoom structuur
Bonding: Periodic Table The Periodic Table of Elements, Bonding
Chemical Bonds Linking Atoms Together
Chemical Bonds Bonds in bilological molecules
Contour Plots for Molecular Orbitals plots the cross section of the relative electron density cloud for several localized molecular orbitals
Covalent bond
Crystal Structure Animations
Crystal structure movies Hematite, Glaucophane, Kaolinite, Leucite, Muscovite, Natrolite, Nepheline, Olivine, Orthopyroxene, Phlogopite
Ferroelectric Liquid Crystal Structure
Frozen Ice Crystal Frozen Ice Crystal
General, organic and biochemistry organic and biochemistry animations, mov files
Ionic bond
Java 3D molecular viewer metal, protein, metalloprotein, protein design, molecular biology, metalloenzyme, metalloantibody
Kinetic energy gas
Kinetic energy liquid
Motion of Particles in Solids
Orbitals
Oxygen and Carbon Dioxide
Phases of matter animation
Phases of matter at the molecular level These shockwave and java animations show how: Gases fill and conform to the shape of the container, Liquids do not fill, but conform to the shape of the container, Solids retain there shape, neither filling nor conforming to the container shape
Phases of Water Starting with a block of ice, this solid phase of water is heated to melting, and then further heated to the boiling point, to release water vapour
Quelques molécules propane, cyclohexane, benzène, fullerène, éthane, éthanol, éthanal, acide éthanoïque, glycine, méthyl éthanamide, butyrine, rétinal, en Français
Sigma and Pi Bonds Sigma and Pi Bonds ethane, C 2 H 6 ethane
Soda constructor soda simulation model
Structure of Water

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