HomeReaction Design & OptimizationAzide Building Blocks for Chemical Ligation

Azide Building Blocks for Chemical Ligation

Dr. Matthias Junkers

Chemfiles, Volume 10 Article 2

Chemoselective ligation strategies are a key success factor for chemical biology research. Ligation techniques open pathways to fully synthetic large peptides and even proteins. They have proven to be valuable for peptide cyclization. Beside peptide synthesis, carbohydrate synthesis and glycobiology profit equally from further expansion of the chemical ligation toolbox. Generally, chemical ligation allows the modification of biomolecules and biopolymers giving access to hybrid molecules. Molecular probes can be attached selectively to biological targets, some even in living cells, visualizing the complex network of biological interactions. The immobilization of biomolecules on solid supports or nanoparticles facilitates the direct study of their function and structure. The use of protein biochips in high-throughput screens provides a fast gain of insight for advanced biomedical applications.1

Among the plethora of methods for chemical ligation some recent developments stand out.2 A key requirement for the application in biological systems are working conditions at ambient temperature in aqueous media. Furthermore, techniques should be preferred that utilize functional groups usually not present in biological systems. The term “bioorthogonal” was suggested by Prescher and Bertozzi describing this approach.3

Azides satisfy all of these requirements and consequently enjoy growing popularity in recent times. Importantly, the azide group is small and therefore only minimally perturbs natural functions. A whole family of ligation techniques is based on the Staudinger reaction in which azides are reacted with triarylphosphines to form iminophosphoranes with concomitant elimination of nitrogen. (Scheme 1)

Staudinger Reaction

Scheme 1.Staudinger Reaction

To prevent hydrolysis to the primary amine the iminophosphorane needs to be intercepted with an electrophile. Diphenylphosphinoterephthalates offer an intramolecular trap leading to a stable ligation product.4 The activated terephthalate (679011) can be used to introduce any molecular probe into azide group bearing biomolecules (Scheme 2).

Nontraceless Staudinger ligation

Scheme 2.Nontraceless Staudinger ligation

Traceless versions of this Staudinger ligation developed by Raines and co-workers produce native amide bonds without the inclusion of unnatural phosphine moieties in the final molecule. Thus, the total chemical synthesis of proteins and glycopeptides is enabled overcoming the limitations of native chemical ligation (NCL) of a cysteine residue at the ligation juncture. (Scheme 3)

Native Chemical Ligation

Scheme 3.Native Chemical Ligation

The active Raines reagent needs to be freshly prepared from its shelf stable precursor (670359). The active reagent readily reacts with a thioester activated fragment and links it to an azide fragment without any remaining trace of the reagent in the final molecule. (Scheme 4).

Traceless Staudinger Ligation

Scheme 4.Traceless Staudinger Ligation

An alternate method to utilize the azide moiety for chemical ligation is the Huisgen 1,3-dipolar cycloaddition reaction with alkynes forming stable aromatic triazoles (Scheme 5).

Huisgen 1,3-dipolar cycloaddition

Scheme 5.Huisgen 1,3-dipolar cycloaddition

The copper(I)-catalyzed reaction is mild and very efficient, requiring no protecting groups and no purification in many cases. The resulting triazole exhibits structural similarities to the ubiquitous amide moiety found in natural systems and is completely stable to hydrolysis, oxidation, or reduction. A myriad of applications of the azide alkyne cycloaddition reaction have been published including the modification of metal organic frameworks (MOFs),5 the functionalization of carbon nanotubes,6 protein acetylation monitoring,7 activity based proteome profiling,8 DNA synthesis,9 patterning three-dimensional cell microenvironments,10 or antibody-like protein-capture agents.11 A recent review summarizes applications for biomedical and pharmaceutical polymers.12 Especially for applications within living systems metal-free cycloaddition reactions are desired. Another review highlights current proceedings in this area of research.13

Both the Staudinger reaction family and the azide alkyne cycloaddition reactions require azide building blocks. We are proud to offer the most comprehensive selection of azide modified building blocks for chemical biology with side-chain modified amino acid azides, N-terminal azides, azido monosaccharides and azido polyethylene glycols.



Lin P, Weinrich D, Waldmann H. 2010. Protein Biochips: Oriented Surface Immobilization of Proteins. Macromol. Chem. Phys.. 211(2):136-144.
Hackenberger C, Schwarzer D. 2008. Chemoselective Ligation and Modification Strategies for Peptides and Proteins. Angew. Chem. Int. Ed.. 47(52):10030-10074.
Prescher JA, Bertozzi CR. 2005. Chemistry in living systems. Nat Chem Biol. 1(1):13-21.
Köhn M, Breinbauer R. 2004. The Staudinger Ligation?A Gift to Chemical Biology. Angew. Chem. Int. Ed.. 43(24):3106-3116.
Gadzikwa T, Farha OK, Malliakas CD, Kanatzidis MG, Hupp JT, Nguyen ST. 2009. Selective Bifunctional Modification of a Non-catenated Metal?Organic Framework Material via ?Click? Chemistry. J. Am. Chem. Soc.. 131(38):13613-13615.
Palacin T, Khanh HL, Jousselme B, Jegou P, Filoramo A, Ehli C, Guldi DM, Campidelli S. 2009. Efficient Functionalization of Carbon Nanotubes with Porphyrin Dendrons via Click Chemistry. J. Am. Chem. Soc.. 131(42):15394-15402.
Yang Y, Ascano JM, Hang HC. 2010. Bioorthogonal Chemical Reporters for Monitoring Protein Acetylation. J. Am. Chem. Soc.. 132(11):3640-3641.
Yang P, Liu K, Ngai MH, Lear MJ, Wenk MR, Yao SQ. 2010. Activity-Based Proteome Profiling of Potential Cellular Targets of Orlistat ? An FDA-Approved Drug with Anti-Tumor Activities. J. Am. Chem. Soc.. 132(2):656-666.
El-Sagheer AH, Brown T. 2009. Synthesis and Polymerase Chain Reaction Amplification of DNA Strands Containing an Unnatural Triazole Linkage. J. Am. Chem. Soc.. 131(11):3958-3964.
DeForest CA, Polizzotti BD, Anseth KS. 2009. Sequential click reactions for synthesizing and patterning three-dimensional cell microenvironments. Nature Mater. 8(8):659-664.
Agnew HD, Rohde RD, Millward SW, Nag A, Yeo W, Hein JE, Pitram SM, Tariq AA, Burns VM, Krom RJ, et al. 2009. Iterative In Situ Click Chemistry Creates Antibody-like Protein-Capture Agents. Angew. Chem. Int. Ed.. 48(27):4944-4948.
van Dijk M, Rijkers DTS, Liskamp RMJ, van Nostrum CF, Hennink WE. 2009. Synthesis and Applications of Biomedical and Pharmaceutical Polymers via Click Chemistry Methodologies. Bioconjugate Chem.. 20(11):2001-2016.
Becer C, Hoogenboom R, Schubert U. 2009. Click Chemistry beyond Metal-Catalyzed Cycloaddition. Angew. Chem. Int. Ed.. 48(27):4900-4908.
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