Methods: Fluorescence Biochemistry 4000 Dr. Ute Kothe.
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Transcript of Methods: Fluorescence Biochemistry 4000 Dr. Ute Kothe.
Remember: Absorbance
log (I0/I) = A = ε l c
Beer-Lambert law
Absorbance of monochromatic light reduces the intensity (I)
Measured relatively to original intensity (I0)
Depends on path length (l, often 1 cm), concentration (c) and
molar extinction coefficient (e, units: M-1 cm-1) Used to measure concentrations
Is very fast & provides information only on average ground state
of molecules; energy is set free by non-radiative decay (heat)
Fluorophores
Often aromatic organic molecules
Only atoms that are fluorescent:Lanthanides (europium, terbium)
What is Fluorescence?
Emission spectra – typically independent of excitation wavelength
Excitation spectra
Upon excitation of a
fluorophore, it re-emits light
at a longer wavelength.
Wavenumber = 1 / wavelength (linear to energy)
Why Fluorescence?Highly sensitive -
Detection in small quantitiesnon-dangerous
sensitive to environment
Information on:• Interactions of solvent molecules with fluorophores• Rotational diffusion of biomolecules• Distances between sites on biomolecules• Conformational changes• Binding interactions• Cellular Imaging• Single-Molecule Detection
Intrinsic & Extrinsic Fluorophores
Intrinsic Fluorophores:Occur naturally
• Trp, Tyr, Phe• NADH, FAD, FMN, Chlorophyll • Etc.
Extrinsic Fluorophores:Added artifically to a sample
• Dyes binding DNA (ethidium bromide)• Labelling of amino groups (dansyl chloride, fluorescein isothiocyanate)• Labelling of sulfhydryl groups (maleimide dyes)• etc.
Fluorescence Spectrometer
Light Source: Xenon Lamp or Laser
Excitation Monochromator
Sample Cell
Emission Monochromator
Detector: Photomultiplier
Jablonski Diagram
Franck-Codon Principle: all electronic transitions occur without change in the position of the nuclei (because they are too fast for siginificant displacement of nuclei).
Allowed singlet states:e- in excited orbital is paried by opposite spin to second e- in ground-state orbital
Forbidden triplet statesdue to spin conversion
Stokes ShiftThe energy of emission is typically less than the energy of absorption. Thus Fluorescence occurs at longer wavelengths.
Fluorescence
Solvent effectsGeneral Solvent Effects:Fluorescence is highly dependend on solvent polarity! Tool to detect environement of fluorophor!
• Dipole moment of excited state larger than ground state• solvent molecules reorient around excited dipole• thus, solvent molecule lower the energy of the excited state• Emission is shifted to longer wavelength
Specific Solvent Effects:Chemical reactions of excited state with solvent,e.g. H-bonding, acid-base reactions etc.
N: native stateU: unfolded state
Quantifiying Binding Interactions
Binding of Mant-GTP (●) and Mant-GDP (▲) to EF-G
[Ligand]F = ------------------ [Ligand] + KD
Environment of fluorophore, mant-nucleotide, changes upon binding to EF-G, i.e. the polarity of the surrounding changes and thus the fluorescence.
KD determination
Resonance Energy Transfer
Transfer of energy from donor fluorophore to acceptor molecule
If donor emission spectra overlaps with acceptor absorption spectra
No intermediate photon!D and A are coupled by dipole-dipole interactions
Distance Dependent
Spectroscopic Ruler
Distance, Å
E
Distance Dependence of Fluorescence Resonance Energy Transfer (FRET) can be used to measure distances between two dyes, e.g. Attached to different interacting proteins.
Förster radius (R0):Distance of 50% energy transferDepends on dye pairTypically 30 – 60 Å
Efficiency of energy transfer:R0
6
E = -------------------- R0
6 + r6 r = distance between Donor and Acceptor