High Throughput Technology in Compound Synthesis
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Questions and Answers

What is the purpose of high throughput screening (HTS) in drug development?

To test a vast number of compounds for biological activity

Describe the process of identifying the active compound in an equilibrium reaction.

Freezing the equilibrium reactions and performing an irreversible reaction to convert all equilibrium products to stable compounds

How are HTS assays mainly conducted?

Mostly optical assays (fluorescence, luminescence, absorbance)

What is the benefit of using multi-well plates with a higher number of wells in HTS assays?

<p>Significant cost savings and less sample per assay</p> Signup and view all the answers

Explain the role of carbonic anhydrase in the DCS reaction mentioned in the text.

<p>Acting as the target for the reaction</p> Signup and view all the answers

What is the significance of using irreversible reactions in shifting the equilibrium towards the active compound?

<p>Generates more of the active compound (Amplification!)</p> Signup and view all the answers

What is the purpose of using photolithography in combinatorial chemistry?

<p>To synthesize and detect specific products on a plate with high resolution.</p> Signup and view all the answers

Explain the concept of Safety Catch and acid-labile linker in solid phase extraction.

<p>Safety Catch ensures the target molecule is safe on the linker until a specific step is performed, while acid-labile linker releases the target molecule with an acid treatment.</p> Signup and view all the answers

How does Dynamic Combinatorial Chemistry (DCS) differ from typical mix and split synthesis?

<p>In DCS, all compounds are synthesized simultaneously in one flask and screened as they are formed, whereas mix and split synthesis involves sequential steps.</p> Signup and view all the answers

What role does the photolabile protecting group play in peptide synthesis using photolithography?

<p>The group is used for deprotection of specific sites on the solid support, allowing coupling with protected amino acids.</p> Signup and view all the answers

How are peptide microsequencing and bead-based synthesis related in combinatorial chemistry?

<p>Peptide microsequencing helps determine the code attached to the Lys residue on beads, allowing identification of synthesized peptides.</p> Signup and view all the answers

Explain the concept of peptide chains with different sequences in parallel synthesis using masks.

<p>Different masks expose specific areas on the plate for deprotection, leading to the synthesis of peptide chains with varied sequences.</p> Signup and view all the answers

What are the two ways of generating an array of compounds for finding hits and leads in drug discovery?

<p>Combinatorial synthesis (CS) and Parallel synthesis (PS)</p> Signup and view all the answers

What is the advantage of Parallel Synthesis (PS) over Combinatorial Synthesis (CS) in terms of structure identification?

<p>Easier to identify the synthesized structures in PS.</p> Signup and view all the answers

Why is Combinatorial Synthesis (CS) valuable for finding leads in drug discovery?

<p>Generation of many more structures compared to PS.</p> Signup and view all the answers

What was the first example of solid-phase synthesis mentioned in the text?

<p>Merrifield resin peptide synthesis</p> Signup and view all the answers

Why is the Merrifield resin rarely used these days in peptide synthesis?

<p>Polystyrene is too hydrophobic, leading to peptide chain folding in on itself.</p> Signup and view all the answers

What are the names of more modern resins used in peptide synthesis?

<p>Wang and Rink resins</p> Signup and view all the answers

What type of molecules were early solid-phase synthesis efforts concentrated on, despite their poor pharmacokinetic properties?

<p>Peptides</p> Signup and view all the answers

What is the role of benzodiazepines like Valium as positive allosteric effectors?

<p>GABAA receptors modulation</p> Signup and view all the answers

How are spider-like scaffolds used in the design of compound libraries?

<p>To achieve structural diversity by having a central body and arms bearing different functional groups.</p> Signup and view all the answers

What is the importance of having evenly spaced arms in spider-like scaffolds for compound library design?

<p>Higher success rates for finding leads due to better exploration of 3D space around the molecule.</p> Signup and view all the answers

What are the other multi-component reaction reaction type that have been used to generate large compound libraries?

<p>Ugi, Biginelli, Passerini reaction</p> Signup and view all the answers

How does fluorous solid-phase extraction (F-SPE) differ from basic column extraction?

<p>F-SPE uses highly fluorinated silica to remove fluorinated compounds, while basic column extraction removes acidic impurities.</p> Signup and view all the answers

What is the purpose of using scavenger resins in Parallel Synthesis (PS) work up?

<p>Scavenger resins are used to eliminate excess reagent and yield pure product.</p> Signup and view all the answers

Describe the Catch-and-Release strategy mentioned in the text.

<p>Catch-and-Release involves attaching a reagent to a resin, which can be easily removed by filtration after the reaction is completed.</p> Signup and view all the answers

In amide synthesis using carbodiimide urea, what are the three main components involved?

<p>Carboxylic acid, coupling reagent (resin-bound), and existing questions.</p> Signup and view all the answers

How can excess amine be efficiently removed after forming the urea derivative in a reaction?

<p>Excess amine is consumed by adding fluorinated isocyanate after the reaction, and then the fluorinated urea derivative is removed by F-SPE.</p> Signup and view all the answers

What are the advantages of using microfluidics in parallel synthesis?

<p>Shorter reaction times, fewer by-products, higher yield, good control of temperature, potential for a vast number of chemical reactions on one chip</p> Signup and view all the answers

Explain the mix-and-split method in combinatorial synthesis.

<p>It is a method that allows for the generation of multiple compounds by mixing and then splitting them, saving time compared to individual syntheses.</p> Signup and view all the answers

What is the purpose of combinatorial synthesis (CS) in drug discovery?

<p>To generate large amounts of compounds quickly for testing biological activity as mixtures.</p> Signup and view all the answers

How does microwave-assisted organic synthesis (MAOS) differ from conventional synthesis?

<p>MAOS accelerates synthesis using microwaves, resulting in higher efficiency and often greener processes.</p> Signup and view all the answers

What is the role of the mix-and-split method in generating compounds in combinatorial synthesis?

<p>It enables the synthesis of compounds from multiple building blocks simultaneously, reducing the time and effort required.</p> Signup and view all the answers

How does the mix-and-split method benefit the synthesis of a dipeptide from 5 amino acids?

<p>It allows for the generation of the dipeptide in less time by combining and splitting the building blocks efficiently.</p> Signup and view all the answers

What is the purpose of using bifunctional linkers like SCAL in compound synthesis?

<p>To help with structural identification by tagging/coding compounds</p> Signup and view all the answers

Explain the concept of compound tagging in the context of a 3-step synthesis using SCAL.

<p>Tags are used to code each synthetic step, allowing for the identification of the specific sequence of the final compound.</p> Signup and view all the answers

How can the target molecule on the Trp residue be released after the last synthetic step?

<p>In two steps: one involving the cleavage of the tag, followed by the release of the target molecule.</p> Signup and view all the answers

What is the significance of performing syntheses with beads that harbor bifunctional linkers in compound identification?

<p>It allows for the structural identification of compounds in a mixture by utilizing tagging/coding techniques.</p> Signup and view all the answers

In a 3-step synthesis using SCAL, what does each tag represent?

<p>Each tag corresponds to a specific synthetic step in the synthesis process.</p> Signup and view all the answers

How does the use of bifunctional linkers like SCAL contribute to compound synthesis and identification?

<p>It facilitates both the synthesis of target molecules and the coding of compounds, aiding in structural identification.</p> Signup and view all the answers

What is the purpose of peptide microsequencing in combinatorial chemistry?

<p>To determine the code attached to the bead</p> Signup and view all the answers

How does photolithography contribute to peptide synthesis?

<p>By exposing specific parts of the surface with light for deprotection</p> Signup and view all the answers

What are the key aspects of Dynamic Combinatorial Chemistry (DCS)?

<p>Target presence, reversible reactions, and selective binding of active compounds</p> Signup and view all the answers

Explain the concept of Safety Catch in solid-phase extraction.

<p>Safety catch ensures the target molecule is safe on the linker until a specific step is performed</p> Signup and view all the answers

How does the process of photolithography allow for the creation of peptide chains with different sequences?

<p>By using different masks in each synthesis cycle</p> Signup and view all the answers

What is the main advantage of Parallel Synthesis (PS) over Combinatorial Synthesis (CS) in terms of structure identification?

<p>PS allows for the generation of known structures at specific locations</p> Signup and view all the answers

What is the purpose of High Throughput Screening (HTS) in drug development?

<p>To test a vast number of compounds for biological activity.</p> Signup and view all the answers

How are HTS assays mainly conducted?

<p>HTS assays are mostly optical assays, such as fluorescence, luminescence, and absorbance.</p> Signup and view all the answers

Why was the sulfonamide compound significantly amplified in the DCS reaction?

<p>The irreversible reaction used reduced all equilibrium products to stable compounds, shifting the equilibrium towards the active compound.</p> Signup and view all the answers

Describe the process of identifying the active compound in an equilibrium reaction.

<p>The process involves freezing the equilibrium reactions and performing an irreversible reaction to convert all products to stable compounds.</p> Signup and view all the answers

What is the significance of using irreversible reactions in shifting the equilibrium towards the active compound?

<p>Irreversible reactions convert all equilibrium products to stable compounds, amplifying the active compound.</p> Signup and view all the answers

What are the main features of High Throughput Screening (HTS) systems like the UltraHTS system at Bristol-Myers Squibb?

<p>HTS systems are heavily automated, using large compound storage facilities and computer-controlled robots for sample handling.</p> Signup and view all the answers

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