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Frank-Condon Principle:
Fluorescence:
An excited molecule can lose its excess vibrational energy in collisions (internal conversion).
Internal conversion takes around 10-13s, absorption takes around 10-15s. Small amounts of energy
will be lost until the electron is in the lowest vibrational state of the excited electronic state. This
low vibrational energy state is relatively stable and can last around 10 -9s.
As a result of this, the emitted photon will have a longer wavelength (lower energy) than the
absorbed photon (bathochromic shift).
It is the transmission back to the ground state that is studied in fluorescence spectroscopy. Again,
the most likely transition will be that of most overlapping wavefunction. At ground state internal
conversion can occur again.
Fluorescence usually requires flat, rigid molecules with extensive conjugation and delocalisation.
In floppy molecules, internal conversion can take the molecule from the excited state to the ground
state without emission of fluorescence.
Spectra will often, but not always have mirror symmetry (absorption & emission)
If 0 n is the most likely vibrational transition for absorption, it will also be the most likely for
emission.
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Physical Biochemistry Fluorescence Spectroscopy
Solvent polarity and pH can influence the fluorescence spectra, however it is difficult to define
clear cut rules on how this should occur, due to the short timescales.
Fluorescence Parameters:
Quantum efficiency (Q.E.): Emitted photons / Absorbed photons. If the molecule has been
excited, what is the probability that it will emit a photo, rather than lose its energy through internal
conversion. Values between 0-1.
Molar extinction coefficient (ε) [M-1cm-1]: Absorbance of a 1 molar solution in a 1cm flightpath
at a specified wavelength. Simply out, it is the probability that a molecule will undergo a transition
from the lower state to an excited state. Wavelength dependent – the closer you are to the energy
difference, the better you excite the molecule.
Brightness (sensitivity) = Q.E. ✕ ε. Wavelength dependent due to ε. concentration must be kept
constant.
Changing the absorption wavelength will change the peak intensity of the spectra; the shape of
the emission spectra will stay the same. Absorption and fluorescence spectra are independent.
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Physical Biochemistry Fluorescence Spectroscopy
Lifetime:
Emission of a photon is based on probability, not a
defined time. An average time for molecules waiting in
the excited state is the lifetime of the molecule.
Intensity (y) Vs. Time (x). Exponential decay.
The lifetime of a molecule is defined as being the point
at which exponential decay reaches a value of 1/e.
Fluorescence Spectrometer:
The source and detector are at right angles to one another.
Quenching: Competing process that induce non-radiative relaxation of excited state electrons to
the ground state.
Can be used as a tool to probe fluorophore environment
Requires contact between fluorophore and quencher
No fluorescence
Non-permanent
The fact that contact is required can be useful for locating
specifically targeted fluorophores.
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Physical Biochemistry Fluorescence Spectroscopy
If the molecule is rotating quickly, then the molecule will have changed orientation by the time that
it has to emit fluorescence, the plane of polarisation fluorescence will be random.
Can be used to estimate the rate of diffusion, and the proportion of mobile molecules
Can be used to distinguish between active transport and diffusion
Some molecules that are destroyed will not be replaced by active transport or diffusion as they are
immobile (permanent damage)
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Physical Biochemistry Fluorescence Spectroscopy
Short pulse excitation followed by an interval during which the resulting fluorescence is measured
as a function of time.
Intrinsic
Fluorescence:
Can be used instead of fluorophores
Some amino acids have intrinsic fluorescence (phenylalanine, tyrosine, tryptophan)
All lie in the UV region
Tyr and Trp spectra are very sensitive to the local environment
e.g. studying protein folding – there will be a shift of peaks in folded / unfolded
Summary:
Fluorescence spectroscopy generally allows more sensitive measurement than absorption
spectroscopy
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