Reactive Conjugate Cluster Synthesis Without Column Chromatography

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Solution Overview

Problem

Existing methods for synthesizing reactive conjugate clusters are inefficient, resulting in low purity and yield, and are costly.

Innovation Solution

A method involving the reaction of a pentafluorophenyl ester protected branching group with a functionalized ligand in the presence of a palladium catalyst and hydrogen, eliminating the need for column chromatography and enabling the synthesis of reactive conjugate clusters with higher purity and yield.

Engineering Contradictions & Design Principles

VSEngineering Contradiction Analysis

1Manufacturing precision

If conventional methods are used for synthesizing reactive conjugate clusters, then the synthesis process can be performed with standard reagents and conditions, but the purity and yield are low and the cost is high

Engineering Contradiction:
ImprovepurityVSAvoidyield
Core Design Contradiction:
Manufacturing precisionVSProductivity

Solution Approach 1:

The patent changes the chemical parameters of the reaction system by using pentafluorophenyl ester protected branching groups instead of conventional protecting groups. This parameter change enables the reaction to proceed with higher purity and yield while reducing the need for extensive purification steps. The specific parameter change involves modifying the ester group structure to enhance reactivity and selectivity.

Inventive Principle:
Principle #35Parameter changes

Solution Approach 2:

The patent introduces a palladium catalyst as an intermediary to facilitate the reaction between the pentafluorophenyl ester protected branching group and the functionalized ligand. This catalyst intermediary enables the reaction to proceed more efficiently, improving both purity and yield while reducing side reactions that would otherwise require costly purification.

Inventive Principle:
Principle #24Intermediary (Mediator)

2Ease of manufacture

If conventional synthesis methods are used, then standard procedures can be followed, but the process is costly and requires column chromatography

Engineering Contradiction:
Improvesynthesis process simplicityVSAvoidcost
Core Design Contradiction:
Ease of manufactureVSProductivity

Solution Approach 1:

The patent extracts and eliminates the need for column chromatography from the synthesis process by using pentafluorophenyl ester protected branching groups that naturally provide high purity products. This removal of the purification step simplifies the manufacturing process and significantly reduces costs while maintaining high productivity.

Inventive Principle:
Principle #2Taking out (Extraction)

Solution Approach 2:

The patent employs readily available pentafluorophenyl ester protected branching groups and standard palladium catalysts that can be easily obtained and disposed of after use. These materials are cheaper than conventional reagents and do not require expensive purification equipment, making the overall process more cost-effective while simplifying manufacturing.

Inventive Principle:
Principle #27Cheap short-living objects (Disposable)

3Reliability

If existing synthesis protocols are used, then established procedures can be applied, but the time and resources required are excessive

Engineering Contradiction:
Improvesynthesis reliabilityVSAvoidsynthesis time
Core Design Contradiction:
ReliabilityVSLoss of time

Solution Approach 1:

The patent performs preliminary protection of the branching group with pentafluorophenyl ester before the main coupling reaction. This preliminary action prepares the molecule in advance with the correct reactive groups, ensuring that the subsequent reaction proceeds smoothly and reliably without requiring extensive time for in-situ protection or multiple purification steps.

Inventive Principle:
Principle #10Preliminary action

Applied Scientific Principles

This section explains which scientific principles are used to turn an abstract innovation direction into a practical engineering solution.

Function Achieved in This Case

The method provides reactive conjugate clusters with improved purity and yield, reducing costs and simplifying the synthesis process.

Implementation Method 1

reacting a pentafluorophenyl ester protected branching group with at least m equivalents of a functionalized ligand in an organic solvent with a palladium catalyst and H2

Methodology Applied
Scientific EffectCatalysis: Catalysis

Implementation Method 2

reacting a pentafluorophenyl ester protected branching group with at least m equivalents of a functionalized ligand in an organic solvent with a palladium catalyst and H2

Methodology Applied
Scientific EffectHydrogenation: Hydrogenation

Data Source

PatentEP3811977B1Method for synthesis of reactive conjugate clusters
Publication Date: 2025.12.03 IONIS PHARMACEUTICALS INC
  • EP3811977B1 patent drawing
  • EP3811977B1 patent drawing
  • EP3811977B1 patent drawing

AI summary

Provided herein are improved methods for the synthesis of reactive conjugate clusters and intermediates used in such methods. In particular, improvements are provided that enhance the synthesis of reactive conjugate clusters by reducing the number of synthetic steps required. The reactive conjugate clusters prepared using the improved methods don't include any transacylation impurities that are formed using existing methods. The improved methods also provide an increase in overall yield and a cost benefit over existing methods. The reactive conjugate cluster has the formula: (L-A-N(H)C(=O)-E-)m-Bga wherein: L is a ligand; A is C2 to C10 alkyl optionally interrupted with one or more groups selected from -O-, -N(H)- and C(=O); E is a single bond or C1 to C10 alkyl optionally interrupted with one or more groups selected from -O-, -N(H)-and C(=O); Bga is a reactive branching group; m is from 2 to 6 - and C(=O); m is from 2 to about 6;