Combinatorial ChemistryAt Sphinx/Lilly

Combinatorial ChemistryAt Sphinx/Lilly : Combinatorial Chemistry At Sphinx/Lilly Why do Combinatorial Chemistry? Speed Economics

Screening Speed : Screening Speed Current High Efficiency Screening 2000 compounds screened per day per assay (125,000 tot.) Multiple assays run concurrently 10-30 screens per year projected to increase 5 to 10-fold by the year 2000

Combinatorial Economics : Combinatorial Economics The classical cost/compound $2500-$10,000 each. (5 assays x 2000 compounds x $10,000) = $100,000,000.00/day To take advantage of the screening capacity, we need to make compounds faster and cheaper.

New Requirements : New Requirements We needed to increase the compound synthesis rate by 50 to 1000 fold How? Old Engineering Maxim “good, fast, cheap - pick two”

Ground Rules : Ground Rules Drug-like molecules Single compounds 20 µmol each. Purity priorities Flexible synthesis methods Automation as needed

How Do We Do It? : How Do We Do It? Use multiple parallel synthesis in a matrix format - 20 reagents with 2 reactions gives 96 products

How Do We Do It? : How Do We Do It? Take as much technology from High Throughput Screening (HTS) as possible. pros Experience with parallel formats Experience with robotics cons Materials compatibility issues

How Do We Do It? : How Do We Do It? Use simple, disposable equipment Take some simple chemistry and start scaling it up until it hurts Identify the bottlenecks and work to open them up until some other part of the process becomes the slow part

Simple Chemistry : Suitable Test Chemistry-A Bisamide Library Simple Chemistry

Simple Equipment : Solid Phase Chemistry Reactor Beckman 96 deep-well titer plate Simple Equipment

Simple Equipment : Solid Phase Chemistry Reactor Plate in a Plate Clamp Simple Equipment

Reaction Path : Reaction Path

Plate Layout : Plate Layout Scaffold R2 R1

Library Synthesis Planning : Library Synthesis Planning Lay out a Super Grid 72 X 72 reagents or wells 9 X 6 plates 5184 compounds Make reagents 72 1 M acylating agents solutions 180 g of resin-scaffold 20 mg/well (1 mmol/g) Reagents 8 X 12 Plates

Reagent Addition : You need a device that will take up a large amount of solution and easily deliver smaller quantities compatibility with all organic materials disposable cheap? Reagent Addition

Repeater Pipette : Repeater Pipette Takes up large volume and quickly and accurately dispenses smaller quantities Disposable polypropylene liquid holder Dispenses in 1µL to 5 mL per shot Adaptable to leur fittings Compatible with slurries

Reaction Path : Reaction Path

Resin to Plate Addition : Resin to Plate Addition Isopycnic Slurry Mix solvents until the resin neither sinks nor floats while tracking the solvent ratio Dilute with the solvent ratio to get desired resin/vol ratio Using a modified Eppendorf Repeater Pipette 50 mL tip, add resin to plates

First Acylation : First Acylation Add a CH2 Cl2 solution of DMAP and pyridine to the entire plate Add 8 unique acylating agents to each row Cap and tumble

Tumbling : Tumbling Plates are attached to a square bar which slowly rotates. Mixing is effected by the up and down motion of an air bubble. This device is known with affection as the “Rotissarie”

Washing resins : Washing resins To wash the resins, the plates are removed from the clamp and placed into a trough Solvent is then delivered to the wells via an 8-way manifold from a pump A 6-way valve allows selection from a variety of solvents The resins are washed using a solvent sequence and allowed to drain This process has been automated essentially as shown

Nitro Reduction : Nitro Reduction Add a DMF solution of SnCl2•H2O to the entire plate Cap, tumble and wash

Second Acylation : Second Acylation Add a CH2 Cl2 solution of DMAP and pyridine to the entire plate Add 12 unique acylating agents to each column Cap and tumble and wash

Product Cleavage : Product Cleavage Plate now contains 96 different molecules Add cleavage agent, cap and tumble

Product Collection : Product Collection 1. Remove the plate from the clamp upside-down 2. Place under a 2 mL plate 3. Invert and remove the caps 4. Wash resins 3 4 2 1

Reaction Path : Reaction Path

Product Analysis : Product Analysis On each Plate 1H-NMRs, 4 random samples Mass Spects initially, 4 random samples FAB or IS Now, all wells TLC, all wells Weight, entire plate (well average)

Robotic TLC Plate Spotting : Robotic TLC Plate Spotting The TECAN 5052 Spots 2-96 well titer plate to 4-10 X 20 TLC plates, 48 spots per TLC plate A1-12, B1-12 1A-H, 2 A-H

Archiving TLC Plates : Archiving TLC Plates UV Images Captured using a UV Light Box with a Visible Camera Visible Images Captured using a Scanner All Images Stored on Disk and Printed for Notebook storage

Example TLC Plate : Example TLC Plate Some Pertinent Points Analyze an entire plate at once Trends are easy to spot Note similar impact of substituent change Common impurities Common by-products Can Spot Across or Down to See Trends Non linerarity of detection No structural information

Purification Methods : Purification Methods Filtration Salt Removal Covalent and Ionic Scavenging Resin Removal Extractions Liquid-Liquid SPE - Solid Phase Extraction Chromatography Silica C18 Based on using our reactor as a 96 position chromatography column/filter

Filtration : Filtration Salt Removal Covalent and Ionic Scavenging Resin Removal Source plate Robot Tip Destination plate Filter plate

Extractions : Extractions Liquid-Liquid 1. Positional Heavy Solvent Extraction 2. Positional Light Solvent Extraction 3. Liquid Detection Light Solvent Extraction

Extractions : Extractions SPE - Solid Phase Extraction 1. Add Sulphonic acid resin to grab amine products 2. Transfer to Filter Plate and wash away contaminents 3. Elute clean products off with 1 N HCl in Methanol

Chromatography : Chromatography Silica Gel C18 1. Dissolve Samples in a suitable solvent 2. Transfer to little chromatography columns 3. Elute clean products and/or collect fractions

Chromatography Example : Chromatography Example Cyclic Urea Plate, wells 1-48, Before and After Filtration through Silica gel

Diamino Alcohol SuperLibrary : Diamino Alcohol SuperLibrary

Bis-Amide Libraries : Bis-Amide Libraries

Other Chemistries : Other Chemistries

Other Chemistries : Other Chemistries

Summary : Summary Fast Capacity for 100,000 compounds/year Cheap Inexpensive, flexible and often disposable equipment 1 robot ($50 G) for 20 people Good Good Enough < µM Leads in CNS, cardiovascular and cancer screens

Acknowledgements : Acknowledgements The Sphinx Durham Chemistry Group SeanHollinshead JeanDefauw The Sphinx Cambridge Chemistry Group Hal Meyers The Kaldor Group at Lilly in Indianapolis