Colourful Solutions > The nuclear atom > The mass spectrometer

The mass spectrometer is an important analytical instrument in both inorganic and organic chemistry. Nowadays, it may be combined with an initial gas chromatography stage giving an instrument that both separates and analyses at the same time (GCMS).

Syllabus reference S1.2.3

Structure 1.2.3 - Mass spectra are used to determine the relative atomic masses of elements from their isotopic composition. (HL)

  • Interpret mass spectra in terms of identity and relative abundance of isotopes.

Guidance

  • The operational details of the mass spectrometer will not be assessed.

Tools and links

  • Structure 3.2 - How does the fragmentation pattern of a compound in the mass spectrometer help in the determination of its structure?

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Instrumental details

There are two common designs for mass spectrometers:

Both designs require that the sample is vaporised and then ionized by bombardment with high-energy electrons, that dislodge an electron from the sample molecule forming an ion. This ion is then accelerated by an electrical field.

The ions are then either deflected into the detector by a scanning magnetic field, or their trajectory is timed to arrive at a detector, depending on the type of instrument.

The final read-out may be graphical or digital and gives information about the relative abundance of all of the ions produced by the stream of electrons, as well as their exact mass to charge ratio, m/z. As the charge, z, is invariably 1+, this is equivalent to the mass.


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Fragmentation

The energy of the electrons in the ionization chamber of the mass spectrometer not only can ionise the molecules it encounters, but also cause the ions produced to fragment into smaller pieces. This is called fragmentation. The smaller pieces, or fragments, themselves may be detected if they are in the form of ions. The peak that occurs at the highest m/e value is called the molecular ion. It is the ion produced by removing one electron from the molecule itself and can be used to determine the relative molecular mass of the species under investigation.

A typical molecular fragmentation pattern may look as follows:

Fragmentation of ethanol, CH3CH2OH

Notice that only ions are shown as only ions can be detected in the mass spectrometer. When an ion fragments, it makes neutral species as well, but these cannot be detected, as they can neither be accelerated nor deflected by the magnetic field.

Example:[CH3CH2OH]+ [CH3CH2]+ + [OH]

In this fragmentation, [OH] is produced but does not cause a trace on the spectrum.


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The mass spectrum of chlorine Cl2

The chlorine spectrum shows several lines, all of which are due to positive ions formed in the mass spectrometer ioniser stage.

The line with the highest m/e value comes from the molecular ion, it is due to the [Cl2]+ ion. Chlorine has two different isotopes, therefore there are three possible molecular ions.

The remaining two lines at m/e 35 and m/e 37 are due to the ions [35Cl]+ and [37Cl]+ formed by fragmentation of the molecules.

The heights of the lines can be used to calculate the isotopic abundances.

In this case, the relative heights of the m/e 35 and m/e 37 lines is 3:1, showing the natural abundance of 35Cl and 37Cl to be 75% to 25% respectively.


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Relative mass

The term relative atomic mass refers to the average mass of an atom of a specific element as compared to the 12 carbon isotope (equal to 12.0000 atomic mass units)

To calculate relative atomic masses from isotopic data you need:

With this data, relative mass calculation is a simple affair:

RAM =
(mass of isotope1 x % abundance isotope1) + (mass of isotope2 x % abundance isotope2)
100

Example


Example: Boron has two isotopes Boron-10 and Boron-11 which have relative abundancies of 20% and 80% respectively.

In 100 atoms there are 20 Boron atoms with a mass of 10 and 80 Boron atoms with a mass of 11

Total mass of the boron atoms is:- (20 x 10) + (80 x 11) = 1080

Therefore the average mass of 1 atom is = 10.80

Boron has a relative atomic mass of 10.80


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Mr determination from MS

Here we can see that there are two peaks in the mass spectrum, one at m/e (this means mass to charge ratio) = 20 and the other at m/e = 22. These peaks correspond to the ions produced from the diferent isotopes of Neon.

As neon has two common isotopes 20Ne and 22Ne, any naturally occurring sample of neon will contain these two isotopes. The mass spectrum shows that the peaks are in the ratio 10:1 and so there is 10 times as much 20Ne as 22Ne in the sample. From this data the relative atomic mass of neon can be calculated.

RAM = [(10 x 20) + (1 x 22)]/11 = 20.2

Example: Rubidium has two isotopes Rubidium-85 and Rubidium 87 which have relative abundancies of 72% and 28% respectively.

In 100 atoms there are 72 Rb atoms with a mass of 85 and 28 Rb atoms with a mass of 87

Total mass of the rubidium atoms is:- (72 x 85) + (28 x 87) = 8556

Therefore the average mass = 85.56

Rubidium has a relative atomic mass of 85.56


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Relative molecular mass

The mass spectrometer is an instrument used for three main purposes:

  1. 1 Measuring the exact relative masses of elements (section 1.22).
  2. 2 Measuring exact releative molecular formula mass
  3. 3 Measuring the masses of the breakdown products from molecules when they are smashed to pieces by high energy electrons. This is also called the fragmentation pattern and may be useful in elucidation of the structure of a molecule.

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Accurate mass measurement

The ions can be focussed onto the detector electronically. This allows determination of the m/e of the ion, to an accuracy of 8 decimal places. The mass of the electron that has been lost can be taken into account, giving masses for the atoms that are very accurate.


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Molecular formulae determination

The masses of the atoms can be found to such great accuracy that the mass of each molecule becomes unique, according to the number and type of each atom present.

Example: The relative molecular mass of carbon monoxide = C + O = 28 (to two significant figures places)

The relative molecular mass of nitrogen = N + N = 28 (to two significant figures places)

But, using high resolution mass spectrometry

  • Mass of 16oxygen = 15.99491
  • Mass of 14nitrogen = 14.00307
  • Mass of 12carbon = 12.00000

It should be appreciated that the following peaks are easily differentiated:

  • a peak due to 12C16O (carbon monoxide) is found at 27.99491
  • a peak due to 14N14N is found at 28.00614

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Structural information

Spectra of molecules are rather more complex due to the breakup (fragmentation) of the molecule in the electron beam.

Here we can see that there is a fragmentation pattern caused by the molecule breaking apart in the electron bombardment.

The molecule is shown on the spectrum and the most important peak is the one at m/e = 116 which gives the relative molecular mass of the molecule. This peak is said to be due to the "molecular ion" and is caused by the molecule itself losing only one electron before going to the detector.

The m/e value of the molecular ion can be measured to such a degree of accuracy (many decimal places) that it can be used to determine the exact number of each type of atom within the molecule.

A full treatment of the fragmentation pattern is possible to give information regarding how the molecule is bonded together, but not required for this section.


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