Amide Modes of the α-Helix: Raman Spectroscopy of Filamentous Virus fd Containing Peptide 13C and 2H Labels in Coat Protein Subunits
| Autor: | George J. Thomas, Stacy A. Overman |
|---|---|
| Rok vydání: | 1998 |
| Předmět: |
Protein subunit
DNA Single-Stranded Peptide Spectrum Analysis Raman Biochemistry Protein Structure Secondary chemistry.chemical_compound symbols.namesake Capsid Inovirus Protein structure Amide chemistry.chemical_classification Carbon Isotopes Virus Assembly Deuterium Amides Crystallography chemistry DNA Viral symbols Peptides Raman spectroscopy Alpha helix DNA |
| Zdroj: | Biochemistry. 37:5654-5665 |
| ISSN: | 1520-4995 0006-2960 |
| DOI: | 10.1021/bi972339c |
| Popis: | The filamentous virus fd consists of a single-stranded DNA genome sheathed by 2700 copies of a 50-residue alpha-helical subunit (protein pVIII) and serves as a model assembly of alpha-helices. To advance vibrational assignments for the alpha-helix, we have investigated Raman spectra of fd virions containing 13C and 2H (deuterium) labels at various main-chain sites of the pVIII subunits. 13C was introduced at specific peptide carbonyls, while deuterium was introduced at selected alpha-carbon (Calpha) and amide nitrogen positions. Interpretation of the Raman spectra reveals a previously unrecognized alpha-helix band in the spectral interval 730-745 cm-1, tentatively assigned to a carbonyl in-plane bending mode (amide IV). Experimental evidence has also been obtained for a distinctive alpha-helix marker near 1345 cm-1, assigned to a coupled Calpha-H bending and Calpha-C stretching mode. The fd virions containing 13C-labeled carbonyls exhibit unexpectedly complex amide I profiles, consisting of multiple band components. Amide I splitting resulting from 13C substitution of carbonyls is attributed to decoupling of transition-dipole interactions normally occurring in the extended pVIII helix. The present study identifies novel conformation-dependent Raman bands in a native alpha-helix assembly, confirms amide I and amide III assignments proposed previously for filamentous viruses, and facilitates new Raman assignments for the packaged ssDNA. The alpha-helix markers identified here should also be useful in conformation analyses of other proteins by Raman spectroscopy. |
| Databáze: | OpenAIRE |
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