Automated Conformational Analysis of Pharmaceutical Proteins

DESCRIPTION provided by applicant Pharmaceutical proteins comprise a large and rapidly growing segment of the pharmaceutical market To be safe and effective pharmaceutical proteins must possess not only the correct covalent structure but also the correct non covalent three dimensional folded structure and there is no existing method capable of guaranteeing this conformational integrity on a quality assurance QA basis A technology known as hydroxyl radical protein footprinting HRFP has been described for the rigorous structural comparison of recombinant pharmaceutical proteins with FDA approved formulations HRFP uses a burst of short lived hydroxyl OH radicals to react with amino acids on the protein surface creating modifications easily recognized by liquid chromatography coupled to mass spectrometry LCMS For QA results of HRFP from a test sample of a protein must match HRFP results from the protein standard Otherwise the structure of the test sample has been compromised In cases where differences between standard and sample are observed the general location of these abnormalities can be determined aiding in troubleshooting While the method exhibits strong potential as an analytical and QA tool HRFP requires a substantial degree of highly specialized expertise to generate data sufficiently reliable for use as a QA method We propose an automated platform for executing the entire HRFP process Practically and philosophically the platform will be inserted into the existing automated workflow of bottom up protein analysis by mass spectrometry We propose to produce an automated sample handling and flash photolysis system alternate schemes for flash photolytic generation of hydroxyl radicals QA monitors for each step of HRFP and statistical quality assurance computer programs We will demonstrate the ability of the integrated system to detect structural abnormalities with current pharmaceutical proteins The resulting system will be a single vendor automated HRFP platform for insertion into already existing LCMS systems allowing application of this technology by researchers with a conventional level of expertise in protein mass spectrometry PUBLIC HEALTH RELEVANCE Pharmaceutical proteins comprise a large and rapidly growing segment of the pharmaceutical market Unlike traditional small molecule drugs pharmaceutical proteins must fold into the correct three dimensional shape to be both safe and effective as a drug Even the slightest anomalies in the shape of a protein drug have had devastating consequences Still there is no routine method to assure the tertiary structure of a pharmaceutical protein although recently developed chemical methods have shown promise in the laboratory We propose to develop known chemistry into an automated screening and quality assurance method to monitor the three dimensional shape of proteins