graduate course in mass spectrometry: lecture 2 lecture course... · ion trap mass analyzer (qit)...
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DEPARTMENTS OF CHEMISTRY AND BIOCHEMISTRY
Shabaz Mohammed October 20, 2015
GRADUATE COURSE IN MASS SPECTROMETRY: LECTURE 2Mass Analysers
MassFilterInlet
Ion Source Detector
DataSystem
High Vacuum SystemTurbo pumpsDiffusion pumpsRough pumpsRotary pumps
Sample PlateTargetHPLCGCSolids probe
MALDIESIIonSprayFABLSIMSEI/CI
TOFQuadrupoleIon TrapFTMS
Microch plateElectron Mult.Hybrid Detec.
PC’sUNIXMac
Mass Analyzers
Quadrupole Analyzer (Q)
Ion Trap Mass Analyzer (QIT)
Time-of-Flight Analyzer (TOF)
Orbitraps(Orbi)
Electromagnetism
Force or F = q1
4πεr2 or V1-V2d
Lens at Voltage V1
Lens at Voltage V2
q2
rd
charge
q2 x q2 x
q1
q2
+
0V +200V
Same situation as+1000V +1200V
-200V 0V
It’s the difference that matters
In mass spectrometry we work with charges and lenses
Electromagnetism
+
0V -200V
Same situation as+1000V +800V-200V -400V
It’s the difference that matters
In mass spectrometry we work with charges and lenses
Electromagnetism
Work or energy W= V1-V2d
Lens at Voltage V1
Lens at Voltage V2
d
q2 x
q2
x d
q is often expressed in multiples of e (charge on an electron)i.e energy is expressed in eV (electron volts)
Electromagnetism
+
0V -200VWork or energy W= V1-V2
dq2 x x d
Potential energy
300 eV
0 eV
If q is 1 charge then:Loses 200 eV of potential energyGains 200 eV of kinetic energy
Electromagnetism
Time-of-flight Mass Analyzer
Analyser performs the equivalent of the 100m sprint for ions
Start line Finish line
•Ions are given the same amount of energy through a pulse (Energy is proportional to charge and the applied potential. E=zeV, z is number of charges, e is the amount of charge on an electron, V is volts)
2
2mvzeV
which can be turned into 2
2
Lt
eVzm
•So….
•Distance to finish line is established and stopwatch (t) is accurate to 1 nanosecond or better…
•Ions then move at the speed determined by their mass (E=0.5mv2, v for velocity (L/t))i.e. velocity goes down as mass goes up
Known Distance (L)
ToF: Problems
Starting position is not always the same!
A) Temporal: Ions of the same mass can form at different times but have the same KE.
D) Direction: There is also the problem that when an ion forms, it may do so with an initial velocity in the opposite direction.
C) Kinetic Energy: Ions of the same mass can form with different KEs.
B) Spatial: Ions of the same mass form having the same KE but in different parts of the source;
Step 1: No applied electric field. Ions spread out.
++ +
Ions of same mass, different velocities
Step 2: Field applied. Slow ions accelerated more than fast ones.
0 V.
0 V.
++ +
Step 3: Slow ions catch up with faster ones.
20 kV.
20 kV.
0 V.
0 V.+++
Ion formation problem solution: Time Lag Focussing/Delayed extraction
Improving resolution: The reflectron
Reflectron is an electrostatic hill for the ions to try and overcome
In reality they fail and are turned around
Ions that have a higher velocity will have more kinetic energy and will climb the hill further before being turned around.
21.30 kV
Improvement of resolution.
1560 1566 1572 1578 1584 1590Mass (m/z)
1616.7
0
10
20
30
40
50
60
70
80
90
100
% In
tens
ity
4700 Linear Spec #1 MC=>SM3=>MC=>MC[BP = 1570.7, 1617]
Linear mode+ Delayed extraction
÷ Reflector
Resolution = 3,500
1560 1566 1572 1578 1584 1590Mass (m/z)
2191.4
0
10
20
30
40
50
60
70
80
90
100
% In
tens
ity
4700 Linear Spec #1 MC=>SM3=>MC=>MC[BP = 1571.8, 2191]
Continuous extraction
÷ Delayed extraction
÷ Reflector
Resolution = 500
1560 1566 1572 1578 1584 1590Mass (m/z)
2642.4
010
2030
40
5060
7080
90100
% In
tens
ity
4700 Reflector Spec #1 MC=>MC[BP = 1570.7, 2642]
Resolution = 10,000
Reflector mode
÷ Delayed extraction
+ Reflector
Reflector mode+ Delayed extraction
+ Reflector1560 1566 1572 1578 1584 1590
Mass (m/z)
1751.0
0
10
20
30
40
50
60
70
80
90
100
% In
tens
ity
4700 Reflector Spec #1 MC=>MC=>MC[BP = 1570.7, 1751]m/z = 1570.68
Resolution = 20,000
Quadrupole Mass Analyser: Description
-(U+ Vcost
+ (U+ Vcost
x
y
z x
y
zx
y
x
y
2r
•Consists of Four Metal Rods
•Opposite Rods have same voltage and adjacent rods have opposite voltage
•The voltage is a combination of a constant potential (U) and an alternating potential (V)
-[U+Vcos(t)]
+[U+Vcos(t)]
t1 t3t2 t4
Taken from Roman Korner: quadrupole mass analyzers. BM58/BMP58 Course 1998.
0VU
V
cos(t)
t1
t2
t3
t4
Voltage
Quadrupole Mass Analyser: Description
Ions are given a small amount of kinetic energy (1 - 2 eV) to allow them to traverse the quadrupole to the detector (assuming they have stable trajectories)
Quadrupole Mass Analyser: Description
Quadrupole Mass Analyser: Scanning
time
volta
ge
Complete mass scan
products of fib a m+2h collsion gas =6.8e-4, ce=40
200 400 600 800 1000 1200 1400m/z0
100
%
SM100602 1 (3.073) Daughters of 769ES+ 4.72e7767.92
767.73
766.62644.28
643.85
643.35642.92
444.37273.38185.80
388.01 459.89
766.49756.87
645.59
768.04
1076.57
1074.90904.59
903.60902.73777.73
1074.46905.58906.33
1077.44
1078.621262.09 1349.29
Quadrupole Mass Analyser: Scanning
Quadrupole Mass Analyser
•Used to be one of the cheapest mass spectrometers on the market
•Very good for precursor ion scanning and selective reaction monitoring
-(U+ Vcost
+ (U+ Vcost
x
y
z x
y
zx
y
x
y
2r
-[U+Vcos(t)]
+[U+Vcos(t)]
Quadrupole Ion Traps: Description
Taken from: Web Site of Chemistry Department Purdue University,Indiana , USA
RF voltage is applied to ring electrode to produce a three-dimensional quadrupole electric field for trapping ions.
Quadrupole Ion Traps: Description
Taken from: Web Site of Chemistry Department. Purdue University, Indiana , USA
Quadrupole Ion Traps
2D Ion Trap Mass Analyzer – ’LTQ’
A Little Bit About Orthogonal ToFs
Important Factors in on-axis MALDI-ToF:
•Resolution and mass accuracy depend on knowing exact distance, time and energies given to the ions
•Ions form in the same direction as ToF analyser and so the source conditions are important factors in mass accuracy and resolution e.g.
•Starting position of ions •Starting kinetic energy and direction of ions
SOURCE
DETECTOR
TOF
Collisional Cooling of ions (usually in a quadrupole) before they enter the ToF region helps further improves ToF sensitivity and Resolution.
Cooling allows better positioning of ion packet into pusher region of the ToF
A Little Bit About Orthogonal ToFs
SOURCE
DETECTOR
TOFReducing the ions velocity here
Allows better focusing of ions here
Collisional cooling of ions increases mass accuracy and resolution
A Little Bit About Orthogonal ToFs
The Orbitrap
+-
Very high negative potential
+
Positive ion moving very fast
Positive ion attracted and has its path bent
Attraction of rod is high,Velocity of ion is high..Ion makes an orbit around rod Similar to a satellite around the earth
LTQ Orbitrap Hybrid Mass Spectrometer
API Ion source Linear Ion Trap C-Trap
Orbitrap
Finnigan LTQ™ Linear Ion Trap
Differential pumping
Differential pumping
LTQ Orbitrap Operation Principle
1. Ions are stored in the Linear Trap2. …. are axially ejected3. …. and trapped in the C-trap4. …. they are squeezed into a small cloud and injected into the Orbitrap5. …. where they are electrostatically trapped, while rotating around the central electrode
and performing axial oscillation
The oscillating ions induce an image current into the two outer halves of the orbitrap, which can be detected using a differential amplifier
Ions of only one mass generate a sine wave signal
Detection:Fourier Transform
Samples are typically not just 1 ion but several and on top there will be ions with several different m/z values.
Typical image current for a ‘simplish’ mixture looks like this:
Time
How do we deduce the individual frequencies?
Detection:Fourier Transform
Luckily waves do not affect each other and so within the ‘messy’ image current, the waves are present intact.
Fourier transform is a mathmatical technique which can deduce the frquencies present.
Resolution
The longer you measure, the better the spectrum….more datapoints for final deduction
The axial oscillation frequency follows the formula Where w = oscillation frequency
k = instrumental constantm/z = …. well, we have seen this before
zmk/
Frequencies and Masses
Many ions in the Orbitrap generate a complex signal whose frequencies are determined using a Fourier Transformation
Collision induced dissociation
MS 1 Collision cell MS 2
Mixture
Potential energy
-10 eV
-50 eV
DeltaKineticenergy
40 eV
0 eV
Accelerate ionsinto collision cell
50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425 450 475 500 525 550 575 600m/z0
100
%
sm117501 1 (0.043) Cm (1:23) TOF MSMS 556.30ES+ 708
500 550 600 650 700 750 800 850 900 950 1000 1050 1100 1150m/z0
100
%
sm207803 17 (0.950) Cm (11:20) TOF MS ES+ 7.02e3
50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425 450 475 500 525 550 575 600m/z0
100
%
sm117502 18 (0.781) Cm (6:19) TOF MSMS 556.30ES+ 1.64e3
MS 1 Collision cell MS 2
Mixture
A mass spectrum of a mixture Isolation of an ionIn our case a protonated peptide
A mass spectrum of the fragmentsProduced by the ion
Collision induced dissociation
Q Exactive
D30
Remove neutrals
mass selection
high resolution MS and MS/MS
Beam CIDfragmentation
Q- ToFs
Orbitrap Fusion CID
mass selection
Beam CIDfragmentation
Redesigned instrument capable of: 15 MSMS HCD (orbitrap) per second20 MSMS CID (ion trap) per second
Ion trap CIDfragmentation
Mass Analyzers
Quadrupole Analyzer (Q) Low (1 amu) resolution, fast, (relatively) cheap
Ion Trap Mass Analyzer (QIT) Fair resolution, all-in-one mass analyzer
Time-of-Flight Analyzer (TOF) Good resolution, exact mass, fast, no upper m/z limit, costly
Orbitraps(Orbi) High resolution, exact mass, costly