Infrared spectroscopy of proteins.

Fourier transform ir (FTIR) spectra of 21 globular proteins have been obtained at 2 cm−1 resolution from 1600 to 1700 cm−1 in deuterium oxide solution. Fourier self-deconvolution was applied to all spectra, revealing that the amide I band of each protein except casein consists of six to nine components. The components are observed at 11 well-defined frequencies, although all proteins do not exhibit components at every characteristic frequency. The root mean square (RMS) deviation of 124 individual values from the 11 average characteristic frequencies is 1.9 cm−1. The observed components are assigned to helical segments, extended beta-segments, unordered segments, and turns. Segments with similar structures do not necessarily exhibit band components with identical frequencies. For instance, the lower frequency beta-structure band can vary within a range of approximately 15 cm−1. The relative areas of the individual components of the deconvolved spectra were determined by a Gauss–Newton, iterative curve-fitting procedure that assumed Gaussian band envelopes for the deconvolved components. The measured areas were used to estimate the percentage of helix and beta-structure for each of 21 globular proteins. The results are in good general agreement with values derived from x-ray data by Levitt and Greer. The RMS deviation between 22 values (alpha- and beta-content of 11 beta-rich proteins measured by both techniques) is 2.5 percentage points; the maximum absolute deviation is 4 percentage points.

Examination of the secondary structure of proteins by deconvolved FTIR spectra.

Infrared spectroscopy is one of the oldest and well established experimental techniques for the analysis of secondary structure of polypeptides and proteins. It is convenient, non-destructive, requires less sample preparation, and can be used under a wide variety of conditions. This review introduces the recent developments in Fourier transform infrared (FTIR) spectroscopy technique and its applications to protein structural studies. The experimental skills, data analysis, and correlations between the FTIR spectroscopic bands and protein secondary structure components are discussed. The applications of FTIR to the secondary structure analysis, conformational changes, structural dynamics and stability studies of proteins are also discussed.

/pdf/fourier-transform-infrared-spectroscopic-analysis-of-protein-1q1ipm94ib.pdf

Fourier Transform Infrared Spectroscopic Analysis of Protein Secondary Structures

This review deals with current concepts of vibrational spectroscopy for the investigation of protein structure and function. While the focus is on infrared (IR) spectroscopy, some of the general aspects also apply to Raman spectroscopy. Special emphasis is on the amide I vibration of the polypeptide backbone that is used for secondary-structure analysis. Theoretical as well as experimental aspects are covered including transition dipole coupling. Further topics are discussed, namely the absorption of amino-acid side-chains, 1H/2H exchange to study the conformational flexibility and reaction-induced difference spectroscopy for the investigation of reaction mechanisms with a focus on interpretation tools.

https://www.cambridge.org/core/services/aop-cambridge-core/content/view/S0033583502003815

What vibrations tell us about proteins

Determination of protein secondary structure by Fourier transform infrared spectroscopy: a critical assessment.

Protein structure by Fourier transform infrared spectroscopy: Second derivative spectra

Fourier self-deconvolution (FSD) has been employed to enhance the resolution of the infrared spectra of proteins in the solid state and in D2O solution. The feasibility of using diffuse reflectance spectrometry for measuring the infrared spectra of solid proteins has been demonstrated. FSD permits inherently broad absorption bands to be resolved into distinct peaks which can be associated with specific protein secondary structures. Because the areas of the resolved peaks are the same as the areas of the previously unidentifiable components, this new method should enable quantitative estimates of the proportion of each conformation in a protein to be calculated.

Protein Conformation by Infrared Spectroscopy: Resolution Enhancement by Fourier Self-Deconvolution

Fourier transform infrared study of proteins with parallel β-chains

Fourier deconvolution has been employed to enhance the resolution of the amide I Raman band of nine proteins found in milk and/or other foods. The broad band was resolved into several components. The overall shape of the amide I Raman band of proteins was found to be nearly Gaussian or to be composed of Gaussian components. A Gaussian function was therefore used for deconvolution. The results obtained were more detailed than those obtained with the Lorentzian approximation usually employed. The resolved band components were assigned to specific protein conformations. The frequencies and assignments are in good agreement with previous Raman work based on entirely different procedures. The band areas of the resolved components appear to reflect the fraction of any given conformation in a protein. Semiquantitative estimations of protein conformation are in reasonable agreement with data obtained by x-ray diffraction and by infrared methods.

D. Michael Byler

Papers

Protein structure by Fourier transform infrared spectroscopy: Second derivative spectra

Protein Conformation by Infrared Spectroscopy: Resolution Enhancement by Fourier Self-Deconvolution

Fourier transform infrared study of proteins with parallel β-chains

Fourier Deconvolution of the Amide I Raman Band of Proteins as Related to Conformation

Vibrational analysis of amino acids: cysteine, serine, β-chloroalanine