A Google image search on the term "atom" will produce two general types of picture:


Unfortunately, both of these conventional representations are incorrect (in several ways), and the electronic structure of atoms needs to be understood in terms of the Schrödinger wave equation.



In stars atomic nuclei are born naked, but their net positive charge – their atomic number Z – attracts the comparatively massless electrons to produce neutral atoms.

  • The nucleus of a gold atom has an atomic of atomic number, Z = 79, so the Au79+ ion attracts 79 negatively charged electrons to give a neutral atom of gold, Au.

The first problem with the conventional images shown above is that the atomic nucleus is absolutly tiny compared with the size of the overall atom!


Compared with the size of the gold nucleus, a gold atom is huge... comparable with the relative size of the Sun and solar system:

The above diagram is developed from one on the  HyperPhysics  website but converted to metric units.

The above diagram is developed from one on the HyperPhysics website but converted to metric units.


The Electronic Structure of The Atom

The second problem with the conventional images above is that the negatively charged electrons "associate" with the positively charged nucleus as three dimensional resonant standing waves:

The electrons move about the point positive charge
in a beautiful & subtle quantum mechanical dance

The modes of resonance for single electron systems such as the hydrogen atom are described by the Schrödinger wave equation. Very briefly Schrödinger:

  • Knew of de Broglie's proposal that a moving particle has wavelength, l, proportional to Planck's constant, h, and momentum p so that l = h/p, a property we now known as wave-particle duality.

  • So constructed a differential equation for a wave-like electron resonating in three dimensions about a point positive charge, the time-dependent Schrödinger wave eqn. (Wikipedia):

  • Solutions to the Schrödinger wave equation correspond to modes of electron resonance and are formally called wavefunctions.
  • The quantised wavefunctions and the corresponding energy levels correspond to the energy levels in one electron atoms & ions: H, He+, Li2+, Be3+, etc. The energy difference between these energy levels result in the spectral lines of these species*.
  • Although not exactly the same, chemists tend to call wavefunctions "orbitals".

Thanks to Mark Kubinec Director, Digital Chemistry Project, UC Berkeley for a suggested rewording of the above bullet points. Mark also suggested that some of the videos from UC Berkeley may be of interest readers

A nice video of Schrodinger’s equation that shows how the math ‘works’ (sorry about the music), and how this gives rise to wave functions:

And a second video showing the wavefunction:

1-Dimensional resonant standing waves: the vibrating string:


2-Dimensional resonant standing wave: a vibrating drum skin

s-type drum modes and wave functions, from Wikipedia:


p-type drum modes and wave functions, from Wikipedia:



3-Dimensional resonant standing waves:


Quantum Numbers to Orbitals

Chemists recognise s, p, d and f-orbitals. The topologies of these orbitals: the shape, phase & electron occupancy are described by four quantum numbers:

n  The principal quantum number

l  The subsidiary or azimuthal or angular momentum or orbital shape quantum number

ml  The magnetic quantum number

ms  The electron spin quantum number

Click image to enlarge. https://en.wikipedia.org/wiki/Quantum_number

These quantum numbers conspire to give spherical s-orbitals, dumbbell shaped p-orbitals that come in sets of three, double dumbbell d-orbitals that come in sets of five, etc.

Electrons enter and fill orbitals according to four rules:

Pauli Exclusion Principle: Orbitals can contain a maximum of two electrons which must be of opposite spin.

Aufbau or Build-up Principle: Electrons enter and fill lower energy orbitals before higher energy orbitals.

Hund's Rule: When there there are degenerate (equal energy) orbitals available, electrons will enter the orbitals one-at-a-time to maximise degeneracy, and only when all the orbitals are half filled will pairing-up occur. This is the rule of maximum multiplicity.

Madelung's Rule: Orbitals fill with electrons as n + l, where n is the principal quantum number and l is the subsidiary quantum number. This rule 'explains' why the 4s orbital has a lower energy than the 3d orbital, and it gives the periodic table its characteristic appearance.

Certain magic numbers of electrons of electrons exhibit energetic stability: 2, 10, 18, 36, 54, 86 & 118, are associated with the Group 18 inert or noble gases: He, Ne, Ar, Kr, Xe, Rn & Og.

The magic numbers inevitably arise from the underlying quantum mechanics, but as Richard Feynman told us (here): "I think I can safely say that nobody understands quantum mechanics." In other words, while we can predict quantum mechanical patterns, but we don't know why we can predict the patterns. We do not understand QM in terms of a deeper theory. (Now available on the web are Richard Feynman's "Messenger Lectures" where he looks at the nature of physical theory and its relationship with mathematics. Highly recommended!)


Quantum Patterns

The pattern of orbital structure is very rich and can be mapped onto the two dimensions of paper in many different ways. Some mappings emphasize how the orbitals are ordered and filled with electrons, others stress how the chemical elements and their orbitals are ordered with respect to atomic number Z. Each tells us something different about atomic orbital structure and/or elemental periodicity.


Orbital Filling

Madelung's Rule says the orbitals fill in the order n + l (lowest n first). This gives the sequence:

(n = 1) + (l = 0) = 1 1s

(n = 2) + (l = 0) = 2 2s

(n = 2) + (l = 1) = 3 2p

(n = 3) + (l = 0) = 3 3s

(n = 3) + (l = 1) = 4 3p

(n = 4) + (l = 0) = 4 4s

(n = 3) + (l = 2) = 5 3d

(n = 4) + (l = 1) = 5 4p

(n = 5) + (l = 0) = 5 5s

and so on...


Thus, the orbital filling sequence is, from the bottom of this diagram, upwards because the lowest energies fill first:



Electron Shells

As electrons are added, the quantum numbers build up the orbitals. Read this diagram, from the top downwards:

  • Chromium has the formulation: [Ar] 3d5 4s1 and not: [Ar] 3d4 4s2
  • Copper has the formulation: [Ar] 3d10 4s1 and not: [Ar] 3d9 4s2

The order of how the electrons add to atoms as they get heavier – particularly the lanthanide and actinide elements – is actually rather complicated (and more subtle) than implied by the literal application of Madelung’s rule, and must be determined experimentally:

By  Nawa

By Nawa

Atoms: what do they look like?

So, what does an atom 'look like'? The best representation this author has seen appears in the video below, by Jubobroff. The huge advantage of this representation is that it shows the fuzzy nature of the electrons in the orbitals. This fuzzyness explains why molecules experience induced-dipole/induced-dipole van der Waals intermolecular interactions; ie why even non-polar molecules are 'stickly'. 


The Periodic Table

A periodic table – of sorts – can be constructed by listing the elements by n and l quantum number:


The problem with this mapping is that the generated sequence is not contiguous with respect to atomic number atomic number, Z, and so is NOT a periodic table. Try counting the numbers past the red lines |on this representation:


Named after a French chemist who first published in the formulation in 1929, the Janet or Left-Step Periodic Table uses a slightly different mapping that is contiguous with atomic number:


While the Janet periodic table is very logical and clear, it does not separate metals from non-metals as well as the Mendeleev version, and helium is problem chemically.

However, it is a simple 'mapping' to go from the Janet or Left-Step periodic table to a modern formulation of Mendeleev's periodic table. There are a couple of steps:


Including the movement of He to Group 18:


rop the f-block down, and move the s-block and d and p-blocks into the space produced, and this gives the commonly used medium form periodic table:


Note, this is the 'correct' medium form, with Group 3 as: Sc, Y, Lu & Lr and with the f-block as La-Yb and Ac-No.

Many medium form PTs incorrectly leave a gap where Lu and Lr are situated, and then add these two elements to the end of the f-block:


The Devil In The Detail

Matters are considerably more involved than implied above.

Wavefunctions are called orbitals by chemists, but this ignores the existence of real and imaginary portions of the complex wave function – where the term 'complex' is being used in the mathematical sense. Orbitals should not be considered as being physically real, and in principle no experimental technique can directly observe orbitals.

  • The wavefunction is Ψ, and the normalised wavefunction is |Ψ|.

  • Electron density is |Ψ|^2, and this is a measurable quantity.

  • However, the orbital is the square root of the electron density, and on taking the root all phase information is lost.

Solutions for the isolated hydrogen atom must be physically spherically symmetric (because the isolated hydrogen atom force field is spherically symmetric) and this gives rise to the 1s, 2s, 3s.. 'shells'. But mathematically one also gets 2p, 3p... solutions (lobes) that are not spherically symmetric because theta and phi are defined. These angles presuppose x, y, z axes that exist mathematically and allow non-symmetrical solutions. Physically these lobes don't exist for any isolated atom, but chemists talk about them when atoms are closely interacting, i.e. they exist in non-uniform fields, where axes and lobes can make physical sense.

The Schrödinger wave equation can only be solved analytically for one electron systems. For multi-electron systems it is necessary to use approximations, and the more electrons are involved, the more severe are the approximations. That said, mathematically manipulated orbitals are the foundation of much computational quantum chemistry software.

We chemists can fool ourselves into thinking that we understand s and p-orbitals, because they can be superimposed upon (mapped to) the easily understandable three dimensional x, y, z Cartesian coordinate system.

But d-orbitals project into 5-dimensional space, and f-orbitals into 7-dimensional space. d-Orbitals can be mapped to the 3-dimensional Cartesian coordinate system, but a mathematical artifact is the 'strange looking' dz2 orbital.

Real, physical chemical structure and reactivity systems also exist in three dimensional Cartesian coordinate space. Mother Nature must also solve the 5-dimensional to Cartesian dimensional reduction when forming transition metal complexes, such as [Cu(H2O)6]2+, that use d-orbitals. Understanding comes from crystal field theory that is able to predict what happens when a Cartesian array of charges interacts with d-orbitals that are degenerate in 5-dimensional space. The geometry causes the 5 d-orbitals to split in energy to give three lower energy orbitals and two higher energy orbitals.

Thanks to DD, an ex-physicist/philosopher of science, for his input into this section.

Quantum Physics of Atoms, Molecules, Solids, Nuclei, and Particles (2nd Ed.) by Robert Eisberg & Robert Resnick, 1985 (John Wiley & Sons, NY. pp. 252)