Molecular Mass Spectroscopy:: History
Molecular Mass Spectroscopy:: History
History:
• In around 1940 MS is used for the routine analysis of hydrocarbon
mixtures (from petroleum products), instead of it, fractional
distillation and refractive index measurement are used before.
• Around in 1950 this method is used for the identification and
structure elucidation of organic compounds.
General theory on mass spectroscopy:
• First step: production of charged particles from the analyte
molecule.
molecular ion/ parent ion.
• Accelerating these ions and separating them (m/z basis)
• Measuring mass of the separated fragments and also their
relative abundance
• Plotting the mass spectra
• Analyzing the mass spectra for
Vacuum Signal
system processor
Readout
Fig: Components of mass spectrometer
Liquid
introduction Oven
Gas
1 to 3 L
introduction
Reservoir
Septum
Pine hole
To ion source
(b) m/z
Mass spectrum of 1-decanol ; Comparision between (a) a hard source (b) a soft source
1. The Electron impact ion source (EI):-
Shield
Heater Electron slit
To mass
5V analyzer
Repellers 3 5
10 -10 V
Ionizing region
Electron Ion accelerating region
beam
Anode
• Repelled to accelerating
slits.
• which are accelerated at
high speed.
Look the mass
spectrum of
2-chloro propane,
35
Cl 37
Cl
ratio of peak height
+
CH3 CH CH3 at mass 78 and CH3 + CH CH3
78 80 is 3 : 1 80
Cl Cl
+
+ CH3 CH CH3 CH3 CH
CH3 CH CH3 CH3 CH +
+
43 63 43 65
(stable fragment)
Collision product peak:
Ion
Source collector
exit slit
Ion source
2. Quadrupole mass analyzer:
Transmission
Thus if ions are heavy or ac-frequency is high
the ions are less affected by alternating Transmitted zone
potential, and will be influenced largely by dc
potential.
Ion will remain in space between the rods. Mass
Transmission
• In absence of ac potential all positive z
Trans
ions get drawn to the rods and mitted
collapsed. In presence of ac potential, y zone
(b)
light ions do not readily move to the Mass
rods. Thus can pass in betn the
electrodes. These rods along YZ plane
acts as the low pass mass filter.
Transmission
eliminated by high mass filter in xz z
plane and must sufficiently light , not to
be eliminated by low-mass filter in yz y (c)
plane. Mass
• Thus ions are transmitted as in the
band shown in fig (c). The center of this
band can be varied by adjusting ac and
dc potentials.
Application of mass spectroscopy:
Determination of molecular weight from Determination of molecular formula from
mass spectra: isotopic ratio:
• From molecular ion peak • In case of low resolution MS the
• CI is good method to obtain M+ peak accurate molecular formula can be
for determination of exact M. Wt. determined by the comparing the
Determination of molecular formula from intensities of (M+1)+ ion and (M+2)+ ion
molecular mass: peak with the intensity of the (M)+ peak.
For the list of compounds, (M+1)+ and
• High resolution MS (M+2)+ ion peak intensity w.r.t. (M)+ ion peak
• From a list of compounds. is available.
compounds mass Some molecules with molecular mass of 83
Purine (C5H4N4) 120.044 is given in the table.
Benzamide (C7H8N2) 120.069
Abundance , % M peak height
Ethyl toluene(C9H12) 120.096 M Formula M+1 M+2 Mol. Wt.
Acetophenone(C8H8O) 120.058 C2HN3O 3.36 0.24 83.0120
83 C2H3N4 3.74 0.06 83.0359
• For example, If the measured mass is C3HNO2 3.72 0.45 83.0007
120.070 ± 0.005, from the compounds C3H3N3O 4.09 0.27 83.0246
in the table to be Benzamide (C7H8N2). C6H11 6.66 0.19 83.0861
• The precision of estimation of
molecular formula by high resolution
MS is few parts per million.
Isotopic peak:
• The isotopic peaks are represented by (M+1)+, and (M+2)+ peaks.
• The isotopic peaks are most apparent when atoms like, chlorine, bromine,
sulphur etc are present in the molecule.
• For e.g.: For methylene chloride, can have peaks at, m= 84, 85, 86, 87
12C1H 35Cl [m=84], 13C1H 35Cl [m=85], 12C1H 35Cl37Cl [m=86],
2 2 2 2 2
13C1H 35Cl37Cl [m=87], 12C1H 37Cl [m=88]
2 2 2
If an ion m1 fragments after acceleration but before entering into the magnetic field it is
deflected as m2. The resulting ion current will be of low intensity, it gives a broad peaks at
apparent mass (m*), where,
m2 2
m
m1
This peak is called Metastable ion peak. If we are able to identify this peak, it informs that m2
is directly formed from m1, by the loss of neutral fragment.
Nitrogen rule: The masses of molecular ion also reflect the electron count depending
upon the number of N-atoms in the species. The compound containing an even number
of N-atom (or zero) will give a molecular ion with even mass number, CH4(16),
CH3OH(32), CClF3(104), C6H5OH(44), C5H5N2(72). But the compound containing odd
number of N-atom gives the molecular ion of odd mass number, NH3(17), C2H5NH2(45)
etc.
That is an odd electron ion will be at even mass number if it contains an even number
of nitrogen and has odd mass if it contains odd no of Nitrogen atoms.
Ions with no or Odd electron ion Even electron ion
even N-atoms even mass number odd mass number
Ions with odd Odd electron ion Even electron ion
no of N-atoms odd mass number Even mass number
+ +
CH2Br CH2 -C2H2
- Br + +
Benzyl bromide Benzyl cation
+ + Tropylium ion m/z = 65
M (M-Br)
m/z = 91
Esters, Acids and Amides also gives the similar fragmentations as the aldehydes and ketones.
.+ H .+ H .+ .+
O H H
O O N
OH NH2
RO
acid amide nitrile
ester
.+ .+
.+ .+ H
H H OH NH H
OH
OH
v. Halides: Organic halides fragment with simple expulsion of the halogen, as shown
below. The molecular ions of chlorine and bromine-containing compounds will show
multiple peaks due to the fact that each of these exists as two isotopes in relatively high
abundance. Thus for chlorine, the 35Cl/37Cl ratio is roughly 3.08:1 and for bromine, the
79Br/81Br ratio is 1.02:1. The molecular ion of a chlorine-containing compound will have
two peaks, separated by two mass units, in the ratio 3:1, and a bromine-containing
compound will have two peaks, again separated by two mass units, having approximately
equal intensities.
Compound identification from comparison of spectra: From the analysis of mass
spectra; mass-spectroscopist can be able to narrow the possible structure of the
sample. The final identification of the sample is based on the comparison of mass
spectrum of the unknown with spectra for authentic sample of suspected compound or
to library search system.
The assumption behind this are, the fragmentation pattern for unknown and standard
must be unique (same ion source). For this the experimental conditions must be
sufficiently controlled, to have reproducible spectra.
.+ CH3
CH3 - CH3 .
-e - CH3 +
CH3 C. CH3 H3C C CH3 C CH3
CH3 CH3 CH3
m/z=72 m/z=57
.
. H CH 2
H2C
. . CH
+C CH + CH4
3
..
CH2 +CH2
H m/z=41
in the similar rearrangement mechanism
CH3 -H2
+ - CH 2 CH 2 + CH CH 2
C CH3 CH 2 CH 3
m/z=27
gives m/z=29
CH3
6. If compound with empirical weight C9H10O M= 134.18 has mass spectrum
try to analyze its structure. Mass Spectrum
C9H10O MW = 134.18
From M - formula, DU = C – H/2 –X/2 +
N/2 + 1= 9-5+1=5
"5 degrees of unsaturation" (five double
bonds, carbonyls, rings or any combination there
of).
Large degrees of un saturation strongly suggests an aromatic molecule (DU = 4).
A peak at m-15, strongly suggesting the presence of a labile methyl group.
The base peak occurs at m/e = 91, which is highly suggestive of a benzyl fragment.
The presence of an intense peak at m/e = 43 (28 +15)is also suggestive of the presence
of a methyl ketone, which can fragment to form the acylium ion.
Structure:
C7H12Br MW = 171.04
From the molecular formula, the compound
has "4 DU " (four double bonds, rings or
any combination there of).
The large number of (=4) strongly suggests
an aromatic molecule.
The spectrum shows two small peaks of equal intensity in the molecular ion region,
strongly suggesting that the molecule contains bromine (equal concentrations of the 79Br
and 81Br isotopes).
The base peak represents loss of this bromine to give the peak at m/e = 91, which is
highly suggestive of a benzyl fragment, which rearranges to form the tropylium cation..
Structure:
IUPAC Name: bromomethyl
benzene (benzyl bromide)
MSFragments:
Commonly encountered Electron-
Impact fragments
O
+
29
H
CH3 C=O+
CH2 + m/z=43
43
H 77
+
CH2 +
H H
N 92
+ +
H 91
The GC-MS
A mixture of compounds is separated
by gas chromatography, then identified
by mass spectrometry.
=>
Molecules with
Heteroatoms
• Isotopes: present in their usual abundance.
• Hydrocarbons contain 1.1% C-13, so there will
be a small M+1 peak.
• If Br is present, M+2 is equal to M+.
• If Cl is present, M+2 is one-third of M+.
• If iodine is present, peak at 127, large gap.
• If N is present, M+ will be an odd number.
• If S is present, M+2 will be 4% of M+.
The Mass Spectrum
Masses are graphed or tabulated according to their
relative abundance.
=>
Mass Spectrum
with Sulfur
=>
Mass Spectrum
with Chlorine
=>
Mass Spectrum
with Bromine
=>
Mass Spectra
of Alkanes
More stable carbocations will be more
abundant.
=>
• End