Are you struggling to characterize challenging binding events because of the limitations of your current biophysical method?
Monolith is the perfect solution to study interactions that involve ternary complexes, or targets only available at low concentration or small volume, as well as ones that aren’t suited for immobilization. And, other difficult situations.
Finally, characterize membrane proteins
Membrane proteins are notoriously difficult targets for traditional biophysical tools — optimizing buffer conditions takes a lot of work if you want to get an adequate amount of folded and functional protein needed for biophysical characterization with methods like SPR and ITC.
Here’s how Monolith helps if your biophysical method has failed to characterize molecular interactions involving membrane proteins.
What makes membrane proteins challenging?
How Monolith overcomes these issues
Native conformation is difficult to preserve if immobilized to a biosensor
Characterize them in solution – purified or from crude cell lysates. Or in nanodiscs, liposomes to preserve their conformation
Present low expression levels, so you typically don’t have enough for all your assays
Use only a tiny amount of protein sample
Must be isolated using detergents that cause issues with some biophysical assays
Measure their molecular interactions in any buffers, even with detergents and DMSO
Now evaluate Intrinsically Disordered Proteins (IDPs)
Because IDPs don’t fold into a homogeneous three-dimensional (3D) structure, their biophysical characterization is very challenging. They frequently engage in non-native intermolecular interactions that result in protein aggregation. Biophysical methods like SPR require immobilization and ITC requires high protein concentrations.
Here’s how Monolith resolves the limitations these methods present for the characterization of binding events with IDPs.
What makes IDPs challenging?
How Monolith overcomes these issues
Immobilization to a solid surface changes their conformational equilibrium
Measure in solution and at low protein concentrations
High protein concentrations required by some methods increase aggregation
Measure in solution and at low protein concentrations
Most methods fail to differentiate between binding and aggregation
Differentiate interactions between monomers, dimers, and larger fibrils
Monolith measures binding affinities between a small molecule and α-synuclein in solution
Binding affinities between epigallocatechin gallate (EGCG) and α-synuclein were determined under assay conditions that favored the oligomeric (purple trace) or fibrilar (blue trace) forms of α-synuclein. Each data set is an average of three independent experiments. With modification from Wolff , M., et al. Sci Rep 6, 22829 (2016)
Simplify the characterization of proteolysis-targeting chimeras (PROTACs)
PROTACs have a huge therapeutic potential for tackling undruggable protein targets. As they start to populate pharmaceutical companies’ pipelines, there is an urgent need to find a biophysical method to efficiently evaluate the ternary complex formed by PROTACs, Ubiquitin/ligase, and target protein.
Monolith helps to solve common problems researchers faced when studying ternary interactions.
What makes PROTACs challenging?
How Monolith overcomes these issues
Equilibrium conditions for binary and ternary interactions are difficult to control, affecting the calculation of the cooperativity value
Measure binary and ternary interactions and calculate the cooperativity value in solution under carefully controlled equilibrium conditions
Most biophysical methods require extensive assay development
Simplify assay development using only one fluorophore to characterize all components of the ternary complex
Learn how Monolith helps you facilitate the rational design of your PROTACs
Your RNA-based therapeutics challenges are over
RNA molecules are involved in many cellular processes that cause disease and as a result, are becoming a new class of drug targets. Scientists are applying high-throughput screening and rational design approaches to identify ligands — small molecules, fragments, enzymes, etc. — that impact RNA cellular functions.
There are a few things Monolith does to help with your RNA therapeutics research.
What makes RNA therapeutics challenging?
How Monolith overcomes these issues
RNase-free environment is difficult to achieve in systems that include fluidics, e.g. SPR
Fluidics-free measurements, no special cleaning or flushing protocol to follow
RNA is inherently prone to degradation
Measurements take only a few minutes, so it’s easy to maintain the integrity of your RNA
It’s difficult to isolate enough intact RNA
Use only a few microliters per measurement
Working with DNA-encoded libraries?
What if you could expand the chemical space of your compound library by screening millions, billions, and even trillions of chemical compounds in a single, simple experiment? DNA-encoded libraries (DEL) let you do that thanks to a DNA tag that encodes the identity of each component in the library. After hits are identified from an initial screening process, they need to be confirmed using affinity-based biophysical methods.
With Monolith, this confirmation step can be automated, and done in solution with a small amount of sample. Take advantage of Monolith’s ability to measure a broad range of affinities from pM to mM.
Monolith helps identify a potent inhibitor of an epigenetic regulator from a DEL hit screen
Measurement of the molecular interaction between BAY-850 (a hit from a DEL screen) and ATAD2 (epigenetic regulator). BAY-850 inhibits the binding of ATAD2 to chromatin. Kd = 85 nM. From Fernández-Montalván, M. et al., ACS Chem. Biol. 12, 2730 (2017).
