Synthetic Binding Proteins

Abstract

Methods and compositions are provided for creating a binding protein that recognizes a rationally chosen recognition sequence in which a first amino acid has been substituted for a second amino acid using site-directed mutagenesis of a member protein of a set of proteins at an identified position or positions correlated with recognition of a chosen specified target module in the recognition sequence. A system is provided for automating the storage and manipulation of the correlations between positions and types of amino acid residues in the binding protein with specific modules at specified positions in the target recognition sequence and for designing and creating proteins with novel specificities.

1 - 30 . (canceled) 
     
     
         31 . A variant of an MmeI-like protein, wherein the MmeI-like protein shares an expectation value (E) of less than e-20 in a BLAST search using MmeI as a query, wherein the variant differs from the MmeI-like protein at one or more positions numbered according to the equivalent aligned positions in MmeI, the one or more position(s) selected from
 751 and 773;   806 and 808;   774 and 810;   774;   774 and 810 and 809; or   809.