A suite of kinetically superior AEP ligases can cyclise an intrinsically disordered protein

Karen S Harris,Owen C Mccorkelle,Ravindu S Dissanayake,Quentin Kaas,Thomas Durek,Mark A Jackson,Marilyn A Anderson,Pedro Quimbar,Robin F Anders,David J Craik,Rosemary F Guarino,Simon Poon,Nicole L Van Der Weerden,Edward K Gilding

doi:10.1038/s41598-019-47273-7

Karen S Harris, Owen C Mccorkelle + Show 12 more

Open Access

https://doi.org/10.1038/s41598-019-47273-7

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Journal: Scientific Reports	Publication Date: Jul 25, 2019
Citations: 48	License type: open-access

Affiliation: La Trobe University, University of Queensland

Abstract

Asparaginyl endopeptidases (AEPs) are a class of enzymes commonly associated with proteolysis in the maturation of seed storage proteins. However, a subset of AEPs work preferentially as peptide ligases, coupling release of a leaving group to formation of a new peptide bond. These “ligase-type” AEPs require only short recognition motifs to ligate a range of targets, making them useful tools in peptide and protein engineering for cyclisation of peptides or ligation of separate peptides into larger products. Here we report the recombinant expression, ligase activity and cyclisation kinetics of three new AEPs from the cyclotide producing plant Oldenlandia affinis with superior kinetics to the prototypical recombinant AEP ligase OaAEP1b. These AEPs work preferentially as ligases at both acidic and neutral pH and we term them “canonical AEP ligases” to distinguish them from other AEPs where activity preferences shift according to pH. We show that these ligases intrinsically favour ligation over hydrolysis, are highly efficient at cyclising two unrelated peptides and are compatible with organic co-solvents. Finally, we demonstrate the broad scope of recombinant AEPs in biotechnology by the backbone cyclisation of an intrinsically disordered protein, the 25 kDa malarial vaccine candidate Plasmodium falciparum merozoite surface protein 2 (MSP2).

Highlights

Proteases are widespread throughout nature and typically act to hydrolyse polypeptide chains
OaAEP4 and OaAEP5 were derived from transcriptomics analysis of O. affinis, but their existence remained theoretical as they could not be amplified from a cDNA library[1] and for this study were obtained as synthetic genes
These Asparaginyl endopeptidases (AEPs) can work as dominant ligases at both acidic and neutral pH, leading to their classification as “canonical AEP ligases”, distinguishing them from AEPs that shift their activity preferences with pH

Summary

Introduction

Proteases are widespread throughout nature and typically act to hydrolyse polypeptide chains. Direct comparison of the kinetic parameters previously reported for AEP ligases is unreliable because the concentration of active enzyme was not determined[1,2,12]. To assess if the ligase activity of our recombinant O. affinis AEPs requires a hydrophobic residue in the P2′ position, we compared the products generated from R1 peptides with P2′ residues with either a hydrophobic or charged side chain (GL–NGL and GL–NGH) (Fig. 2c).

Results

Conclusion