|
|
ProteinGPS™Modern engineering principles applied to protein engineering The ProteinGPS™ protein engineering technology developed by DNA2.0 is based on mathematical nonlinear systems modeling and optimization algorithms that are today routinely used in such diverse areas as small molecule QSAR, process control design for manufacturing, web-site optimization, and logistics. These problems all require methods that can analyze systems with high complexity and large numbers of independent variables. Over the past seventy years, mathematicians and engineers have developed algorithms for identifying optimal solutions from data sets that are very small relative to the total space being explored. Today, these principles are used in many of the things surrounding us that we take for granted; from design of jet engines to formulation of gasoline and detection of credit card fraud. Methods for multidimensional optimization that are now routinely employed in other engineering disciplines contrast starkly with both structure-based protein design and directed evolution, which have no real parallels in other engineering areas. Developing algorithms appropriate for engineering proteinsAt DNA2.0 we have modified algorithms for engineering complex systems, enabling us to deconvolute how changes within a protein sequence modify its function. These algorithms allow us to navigate in protein sequence space. We have combined these algorithms with an integrated query and ranking mechanism for identifying appropriate sequence substitutions. Together these computational methods comprise ProteinGPS, a system allowing us to define where to search and how to search for proteins with improved functions. Advantages of ProteinGPS™- No resources are needed to establish and run HTP (high-throughput) screens.
- No time is wasted pursuing variants identified by HTP screens whose functionality is not retained under final application conditions.
- No biodiversity collections are required.
- Years of time and millions of dollars are saved compared with alternative approaches.
- Sequence-function relationships provide the basis for strong composition-of-matter patent claims.
- Optimization is directly for function in the final application.
From predicted sequences to testable genesThe conversion of computationally-predicted DNA sequences to physically testable genes is powered by our in-house DNA-2-Go™ custom gene synthesis pipeline. Until recently, the synthesis of individually designed genes was prohibitively expensive. As a result, the only practical way to obtain combinatorially modified proteins was to make libraries, which in turn necessitated high-throughput screens. By synthesizing individually designed gene variants, DNA2.0 can ensure that amino acid changes are distributed to achieve maximum information content. This in turn obviates the need for high-throughput screening, allowing us instead to focus on measuring protein properties that are important for the final application. Contact us at info@DNA20.com or 1.877.DNA.TOGO to discuss your protein engineering needs.
Modeling of sequence/activity space for four iterations of protein engineering. |
|
info@DNA20.com
1 877 DNA TOGO
1 650 853 8347
europe@DNA20.com |
