Conformational and topological protein regulation

Abstract

Methods and compositions are provided for identifying novel conformers of proteins not known to exist as different conformers. By using chimeric genes replacing a native signal sequence with a different signal sequence resulting in the production of a conformer, one can compare the native protein with the product of the chimeric gene. Where the conformations are different, the different protein may be used for production of antibodies, elucidation of mechanisms associated with the native and different conformer protein, assays for the presence of the different conformer in physiological samples, identification of compounds specifically binding to the conformer, particularly drugs, etc. Where the formation of the conformer is associated with a diseased state, the conformer may be used in screens to identify compounds as drug candidates.

1 - 55 . (canceled)  
     
     
         56 . A method for detecting a conformational difference between proteins, said method comprising: analyzing a protein by a non-denaturing separation technique, wherein said protein is obtained by expression of a chimeric gene having a DNA sequence encoding at least substantially the same amino acid sequence as an open reading frame encoding a native protein, wherein said native protein is encoded by a gene having a native signal sequence and said chimeric gene has a signal sequence other than said native signal sequence so that a chimeric gene product is produced, wherein an alteration in the chromatographic profile of said chimeric gene product as compared to a native protein is indicative of a conformational difference between said chimeric gene product and said native protein.  
     
     
         57 . The method according to  claim 56 , wherein the non-denaturing separation technique is selected from the group consisting of high pressure liquid chromatography (HPLC), capillary electrophoresis, and affinity chromatography.  
     
     
         58 . The method according to  claim 56 , wherein the high pressure liquid chromatography is performed using a hydrophobic adsorption column, a ConA-sepharose column or an ion exchange column.