Protein secondary structures in water from second-derivative amide I infrared spectra.
Infrared spectra have been obtained for 12 globular proteins in aqueous solution at 20 degrees C. The proteins studied, which vary widely in the relative amounts of different secondary structures present, include myoglobin, hemoglobin, immunoglobulin G, concanavalin A, lysozyme, cytochrome c, alpha-chymotrypsin, trypsin, ribonuclease A, alcohol dehydrogenase, beta 2-microglobulin, and human class I major histocompatibility complex antigen A2. Criteria for evaluating how successfully the spectra due to liquid and gaseous water are subtracted from the observed spectrum in the amide I region were developed. Comparisons of second-derivative amide I spectra with available crystal structure data provide both qualitative and quantitative support for assignments of infrared bands to secondary structures. Band frequency assignments assigned to alpha-helix, beta-sheet, unordered, and turn structures are highly consistent among all proteins and agree closely with predictions from theory. alpha-Helix and unordered structures can each be assigned to only one band whereas multiple bands are associated with beta-sheets and turns. These findings demonstrate a method of analysis of second-derivative amide I spectra whereby the frequencies of bands due to different secondary structures can be obtained. Furthermore, the band intensities obtained provide a useful method for estimating the relative amounts of different structures.
Dong
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A
Department of Biochemistry, Colorado State University, Fort Collins 80523.
Huang
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P
Caughey
W S
WS
D000426:Alcohol Dehydrogenase; D000577:Amides; D000818:Animals; D002417:Cattle; D002918:Chymotrypsin; D003208:Concanavalin A; D003461:Crystallography; D003574:Cytochrome c Group; D006454:Hemoglobins; D006801:Humans; D007074:Immunoglobulin G; D009113:Muramidase; D009211:Myoglobin; D011487:Protein Conformation; D011506:Proteins; D012259:Ribonuclease, Pancreatic; D013055:Spectrophotometry, Infrared; D014357:Trypsin; D014867:Water
D000577:Amides; D003574:Cytochrome c Group; D006454:Hemoglobins; D007074:Immunoglobulin G; D009211:Myoglobin; D011506:Proteins; D014867:Water; D003208:Concanavalin A; D000426:Alcohol Dehydrogenase; D012259:Ribonuclease, Pancreatic; D009113:Muramidase; D002918:Chymotrypsin; D014357:Trypsin