N-DBCO-N-bis(PEG2-C2-acid)
N-DBCO-N-bis(PEG2-C2-acid) is a bifunctional PROTAC linker reagent featuring a cyclooctyne (DBCO) handle for strain-promoted azide–alkyne cycloaddition and two short, PEG2-terminated carboxylate “arms” that provide hydrophilic spacing and sites for amide coupling to targeting and E3-ligand modules. Structurally, it acts as a flexible conjugation scaffold that connects two biomolecule-reactive ends while presenting the DBCO group for rapid, catalyst-free click chemistry under mild conditions. In PROTAC design, this enables modular assembly: researchers can first install the PEG2 carboxylate arms onto complementary building blocks (e.g., via standard peptide-coupling to amines) and then perform orthogonal DBCO–azide ligation to introduce or swap the azide-bearing component without harsh reagents that might compromise sensitive ligands. This reagent is valuable for constructing well-defined, water-compatible targeted protein degradation constructs and for optimizing linker length and solubility to improve conjugation efficiency and experimental reproducibility.
Structure of 2110449-00-6
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N-DBCO-N-bis(PEG2-C2-acid), is designed to enable efficient conjugation strategies that connect targeting ligands to E3-recruiting or other functional modules in a modular PROTAC workflow. Its DBCO functionality supports rapid bioorthogonal coupling, while the PEG-based spacer and terminal carboxylic acid groups support solubility and subsequent derivatization. The following sections describe its structure and practical reactivity considerations for constructing well-defined degraders.
Structure: The linker contains a DBCO alkynyl cyclooctyne motif for strain-promoted azide–alkyne cycloaddition, flanked by an N-linked architecture and PEG-derived ether segments. Terminal carboxylic acid groups provide ionizable functionality, enabling salt formation and controlled polarity. Overall, it combines hydrophilicity with a reactive cyclooctyne handle.
Reactivity: DBCO-based coupling proceeds via strain-promoted azide–alkyne cycloaddition under mild, catalyst-free conditions, typically in aqueous or mixed aqueous buffers compatible with sensitive ligands. For PROTAC assembly, the carboxylic acid groups are commonly used for amide or ester formation using standard coupling chemistries, with bases and activating reagents selected to match functional-group compatibility. This modular reactivity supports stepwise synthesis and purification of conjugates.
* Our calculator is based on the following equation:
Concentration (start) x Volume (start) = Concentration (final) x Volume (final)
It is commonly abbreviated as: C1V1 = C2V2
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