Non-Standard Sample Environments Martin A. Schroer SAXS group - - PowerPoint PPT Presentation
Non-Standard Sample Environments Martin A. Schroer SAXS group - - PowerPoint PPT Presentation
Non-Standard Sample Environments Martin A. Schroer SAXS group Non-standard sample environments options at P12 Disclaimer Might not work for all samples Might not make sense for all samples You will likely need more sample
Non-standard sample environments options at P12
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Disclaimer
- Might not work for all samples
- Might not make sense for all samples
- You will likely need more sample solution
however
- can give fundamental new insights
- In situ
- Time-resolved
- …
- demand a synchrotron source
- Photon flux: weak signals, temporal resolution
- Small beam sizes: spatial resolution
- Energy tunability: Penetration
Contact the beamline scientists! See “Satellite: Designing Non- Standard Experiments” In yellow boxes: Advice to the users!
Types of sample environments
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Robotic sample changer SEC-SAXS/MALS
- Capillary holder
- Temperature cell
Stopped Flow Microfluidics (e.g. for THz) Laser excitation
28/02/2020
- in vacuum capillary
- continuous flow
- Online purification and
detection system
- Cryo chamber (P12)
User setups:
- High pressure cells
- Rheological cells
- Heating stages
- …
User setups: Need proper planning!
- Infrastructure
- X-ray parameters
- ....
Contact in advance (when writing the proposal)
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- Heating
- Stopped Flow
- Laser light
- Scanning SAXS
- Collaborative project: THz-radiation
Non-standard sample environments at P12
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- Removing in-vacuum capillary / sample changer
- Two sealing windows
Air gap
- Place sample cell
Higher X-ray absorption by air Higher background signal (air + windows + sample cell)
In vacuum:
- Quarz capillary
In air
- Polystyrene cell
- Air
- Kapton windows
Try to reduce the air gap as much as possible! Use proper window material!
In air operation
+ BSA + buffer + buffer + BSA + buffer + buffer
Do you really need in-air or better sample changer? Maybe two proposals?
- > Contact & discuss in advance!
Heating stages (at P12)
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Sample changer temperature range
- 5 – 60°C (80°C): with new sample unit (>2020)
- Can Keep samples stored at different T (4 - ~40°C)
- slow
- for radiation sensitive samples
- Proper buffer measurements
- Lower background
A good choice for:
- Water-based samples
- Moderate temperatures
- Short notice temperature tests
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Temperature controlled capillary holder
- Peltier element
- Quartz capillaries -> 1.5 mm diameter
- different T range
- fast T changes
- highly viscous samples
- tricky samples (toxic, corrosive, dirty,..)
- Apolar solvent
- Samples expierence same history
- Background is different
- Exposure of similar spots (radiation
damage)
- > observation holes have been widened
Heating stages (at P12)
- > New options for heating gel samples
A good choice for:
- Non-water samples
- Large range temperature (phase diagram)
- Strongly scattering samples
Temperature SAXS studies
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- F. A. Facchini et al. J. Med. Chem. 61, 2895 (2018).
Examples:
- Biological relevant lipids:
Têmp.-induced melting of lamellar structures
- Ferro-nematics (liq crystal + nanoparticles)
Phase transition
- V. Gdovinova, M.A. Schroer et al. Soft Matter 13, 7890 (2017).
Time-resolved: Stopped Flow - Mixer
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Principle:
- Mix to liquids rapidly
- Observe the changing signal
- Example: pH induced dissociation of
apoferritin Dead time: ca. 7 ms load volume: (400 µl)...2-10 ml volume per shot: 100µl
- Know that there is a reaction -> pre-testing
- Have enough sample -> repeat & check
- Explore the power of SAXS -> beyond simple kinetic
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- Reaction of MsbA Nucleotide binding domain with
ATP
- 35 ms frames collected
- Expected: Monomer – dimer transition
Why do I need so much sample? -> An example
Josts et al, Structure 28, 348 (2020).
- H. Tidow
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- Start reaction and directly probe
Continuous change of Rg
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- Start reaction and directly probe
Continuous change of Rg
- Start reaction, wait (delay time), then probe
Continuous change of Rg But NOT overlapping Radiation Damage
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- Start reaction and directly probe
Continuous change of Rg
- Start reaction, wait (delay time), then probe
Continuous change of Rg But NOT overlapping Radiation Damage
- Actually only the first frames can be used
Pump – probe scheme
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- Start reaction and directly probe
Continuous change of Rg
- Start reaction, wait (delay time), then probe
Continuous change of Rg But NOT overlapping Radiation Damage
- Actually only the first frames can be used
Pump – probe scheme
Pump – probe approach
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- Mix/pump
- Wait for time
- Probe (use only first frame)
No unneeded exposure of sample Example:
- Monomer -> Dimer -> Monomer formation
- Fully corrupted by RD otherwise
+ Allows to determine the kinetics/reaction
- High sample consumption:
- Crucial for biological samples
- Good planning needed!
- However, already standard ‘non-standard’ experiment.
- Alternative option:
Stroboscopic mode user P12 chopper!
P12 – laser system
- Tuneable Nd:YAG – laser (Ekspla, Lithuania)
- Wave lengths:
- 335 – 500 nm & 1065 – 2500 nm
(fibre port to P12 hutch experiments)
- Repetiton rate: 10 Hz
- Pulse length: 6 ns
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To fibre Direct
Energy per pulse [mJ]
1st laser triggered reactions
19/01/2018 17
0.5 1 1.5 2
q[nm-1]
104 105 106
I(q) [arb. u.]
0 s 30 s 60 s 120 s
- Reaction of nucleotide binding domain
with caged ATP
- Excite @355 nm releases ATP
- Monomer-dimer-monomer reaction
- Reaction can be initalized after different
number of pulses (here: 300, i.e. 30 s) Triggering and synchronization works Laser power via fiber too low for single pulse excitation Checking options for optimization
50 100 150
delay time [s]
0.1 0.2 0.3 0.4 0.5 0.6 0.7 0.8 0.9 1
volume fraction
Monomer Dimer
- Under commissioning
- Looking for collaborative projects
- H. Tidow
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Scanning SAXS
- Scan samples with a small X-ray beam
Real space maps of SAXS patterns
- Allows to reveal the spatial distribution on nanometer-
sized structures (shape, size) and orientation
- Applications:
- Heterogenuous samples
- Hierarchical materials: e.g. Bones, wood,
tissue,...
- Critical parameters (defining the resolution)
- beam size, steps size, beam divergence
Scanning SAXS @ P12
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Moderate µm focus -> low real space resolution Low divergence
- > high reciprocal space resolution
Eiger 4M at large detector distance: e.g. collagen Old mirrors + cutting the beam
- Beam size: ~ 75 x 75 µm2 (hor x vert)
New mirrors (without cutting)
- beam size: 200 x 25 µm2 (hor x vert)
Example: Mineral particle distribution within a swordfish sword
From 2021: New SEU - piezo stage
- Moderate field-of-view scanning SAXS
- Screening of more specimen -> more (clinical) impact
- Resolution of large structures
- F. Schmidt et al. Adv. Sci. 6, 1900287 (2019).
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Collaborative experiment: Studying the effect of THz- radiation on proteins
THz radiation
- Electromagnetic radiation
- Sensitive to large molecular vibrations (collective) / low in energy -> THz spectroscopy
- Strong absorption in water
- Non-ionizing but thermal & athermal effects
- > possible risks are discussed in literature
- L. Wei et al. Frontiers in Laboratory Medicine (2019).
Different steps of an experiments
- Concept
- Design
- Conduction
THz-excitation of proteins
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Fröhlich‘s prediction
- THz-radiation can excite collective motions within biological macromolecules by coupling to their dipole
moment (Fröhlich condensation) Such collective vibrations (normal modes) may lead to long-range conformational changes. Such changes can be probed by SAXS. THz excitation & SAXS probe
- A. Panjkovich, D.I. Svergun. PCCP 18, 5707 (2016).
THz-SAXS - Experiment
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Such a noval type of experiment needs
- THz sources (cw + pulsed): complementary spectra
- > Excite the sample
- Dedicated microfluidic cell
- > small channel width
- Sample delievery system
- Small, asymmetric X-ray beam:
(80 x 120 µm2) & smaller now!
- Precise positioning (sub-micron) (hexapod)
- Synchronization (data collection)
Setup I Setup II
- M. Roessle (TH Lübeck)
- G. Katona (U Gothenburg)
THz-SAXS - microfluidic cell
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Combined THz-SAXS measurements demand dedicated sample environment
- Microfluidic chips:
- Flowing of sample → reduce radiation damage
- Transparent for THz → enough sample excitation
- Narrow channel (500 µm) as THz absorption in water is strong → enough
sample excitation
- Low X-ray background → record SAXS signal
- S. Schewa, M.A. Schroer, et al., Rev. Sci. Instrum. 91, 084101 (2020).
3D printed Polystyrene cell with mylar X-ray windows W = 0.2 mm <-> optimized for THz T = 2 mm <-> optimized for X-rays
- S. Schewa, M. Roessle et al.
(TH Lübeck)
10/10/2018 24
- THz-absorption in PS:
Low as PS apolar
- THz-spectra of PS:
No absorption lines
- SAXS from proteins:
Access to proteins of different molecular weight
THz-SAXS cell: Properties
- S. Schewa, M.A. Schroer, et al., Rev. Sci. Instrum. 91, 084101 (2020).
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X-ray THz Noval cell design:
- THz-excitation / SAXS probing
- Combined THz-spectroscopy / SAXS
- Not limited to proteins -> e.g. soft matter, nanoparticles
Setup installed at P12
- THz beam passes set of mirrors
- THz can be detected by receiver
- THz beam & X-ray beam are perpendicular
The same stop of the sample is illuminated
- Long-time project with several steps of development
- Several beamtimes
Sometimes long breath & creativity
Summary
- P12 offers several options of performing exciting bioSAXS
experiments
- Long time experience to deal with challenging problems
- Looking forward for new interesting experiments
- Happy to discuss with you:
- Now
- During breaks & posters session
- Satellite meeting of User Meeting (18.11.2020)
- Always
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Acknowledgements
- All members of the SAXS group, EMBL-HH
- EMBL-Instrumentation group
- I. Josts, H. Tidow (U Hamburg)
- S. Schewa, M. Rößle et al. (TH Lübeck); G. Katona et al. (U Gothenburg)
- User groups
- Funding:
- Röntgen-Angström cluster project „TT-SAS“ (BMBF project number 05K16YEA)
- DFG
- Horizion 2020: iNEXT
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