Biosynthesis of the Cyclotide Kalata B1 using Protein Splicing Tools

Abstract

Cyclotides are a new emerging family of large cyclic polypeptides ({approx}30 residues long) that share a disulfide-stabilized core (3 disulfide bonds) with an unusual knotted structure (Fig. 1A) [1]. Cyclotides contrast with other circular polypeptides in that they have a highly defined three-dimensional structure, and despite their small size, can be considered as miniproteins. Their unique circular backbone topology and knotted arrangement of 3 disulfide bonds makes them exceptionally stable to thermal and enzymatic degradation. Furthermore, their well defined structures have been also associated with a range of biological activities, including uterotonic activity, inhibition of neurotension binding, hemolytic, anti-HIV, insecticidal as well as trypsin inhibitory activity. Altogether, these characteristics make cyclotides ideal candidates to be used as molecular scaffolds for the development of stable peptide drugs [2]. Access to biosynthetic cyclotides using recombinant DNA expression techniques would offer the exciting possibility of producing large combinatorial libraries of highly stable miniproteins using the tools of molecular biology. This would allow the generation of cell-based combinatorial libraries that could be screened inside living cells for their ability to regulate cellular processes. In the present work we describe for the first time the biosynthesis of the cyclotide Kalata B1 in E. coli. Ourmore » approach is based on the use of an intramolecular version of the native chemical ligation combined with the use of a modified protein splicing unit [3]. In order to accomplish the cyclization of Kalata B1, the different linear precursors tested in this work (Fig. 1B) were fused at the N-terminus with a Met residue, and at the C-terminus with an VMA engineered intein (available in the pTXB expression vectors family from New England Biolabs). The Met residue was efficiently removed in vivo in E. coli by an endogenous Met amino peptidase. This in vivo proteolytic event unmasked the required N-terminal Cys. After affinity purification of the corresponding N-terminal Cys Kalata-Intein fusion protein, the cyclization was triggered by addition of 5% EtSH (Fig. 1C). Among the different linear precursors that were tested, KC3 and KC4 gave the best cyclization yields. The different linear precursors showed also different propensities for in vivo cleavage of the corresponding Kalata-Intein fusion constructs. Thus, meanwhile the KC4 linear precursor gave only 30% in vivo cleavage the KC6 precursor was almost completely cleaved in vivo (>90%). The resulting reduced circular Kalata B1 was oxidatively folded at pH 8.0 in the presence of reduced glutathione (GSH) and {sup i}Pr-OH (Fig. 1D). The folded recombinant Kalata B1 was characterized by ES-MS, HPLC and 2D-NMR, and it was shown to be identical to the natural product. Encouraged by this result we decided to explore the possibility of carrying out the cyclization and folding in a single-pot reaction. This was accomplished by treating the purified KC4-intein construct with different amounts and ratios of reduced and oxidized glutathione (GSH and GSSG). The best cleavage/cyclization of the KC4-intein precursor was accomplished using 100 mM of GSH at pH 7.2, under these conditions the cleavage of the linear KC4-intein precursor was almost quantitative in less than 18 h. Optimal conditions for the oxidative folding of reduced Kalata B1 were obtained using a buffer containing a GSH:GSSG ratio of 4:1 at pH 8.0 in 50% isopropanol. Hence, the purified KC4-intein linear precursor was treated first with 100 mM GSH at pH 7.2 overnight, then the crude reaction was complemented with isopropanol (50%) and 12 mM GSSG. After 20 h the reaction was checked by HPLC showing that the major component was the folded Kalata B1 (Fig. 1E). The recombinant folded cyclotide was obtained with a yield close to 20% (based on linear KC4-intein precursor). Using this approach we also produced a small library based on the Kalata B1 scaffold (Fig. 1F). In summary we report here the first biosynthesis of the cyclotide Kalata B1 in E. coli. We have also shown that our biosynthetic approach can be used to generate cyclotide-based libraries that could be screened in vitro or in vivo. Future work will focus in the biosynthesis of cyclotide-based libraries in vivo.« less