Co-Founder & CEO, Cyrus Biotechnology
Protein and Cyclic Peptide Modeling with Cyrus and Rosetta: Recent Automation and Benchmarking
Over the last 20 years the Rosetta software package has achieved a series of advancements in protein and peptide structure prediction and computational design in the laboratory of David Baker and others. Cyrus Bio aims to bring these advanced tools to industry through easy to use software, software-based services, and partnerships with academia, biotech and Pharma. Here we will give a background overview of protein structure prediction (template based modeling) and design (protein sequence design with backbone flexibility control) available through Cyrus software. We describe 1) new collaborative work automating the modeling of non-canonical amino acids using Rosetta and cheminformatics tools, and 2) the sampling of cyclic peptide backbones, with benchmarking against solution structures, and a user-controllable treatment of cyclization chemistry.
Lucas Nivon is the CEO and co-founder at Cyrus Biotechnology. He is trained in computational biophysics and protein engineering. Prior to Cyrus he was a Translational Investigator & Senior Fellow at the Baker lab at UW, developing small-molecule binding proteins in de novo and natural scaffolds, and designing and benchmarking a variety of protein design algorithms. Lucas’ scientific work includes a patented computationally designed enzyme, an RNA-dynamics-modeling software toolkit (built during his Ph.D. with Eugene Shakhnovich and Xiaowei Zhuang at Harvard), and algorithm optimization for automation of computational protein design. Harvard A.B., Biochemical Sciences and Ph.D., Biophysics; Hertz Fellow.