title: Alteration of conformation and dynamics of bacteriorhodopsin induced by protonation of Asp 85 and deprotonation of Schiff base as studied by 13C NMR.
abstract: According to previous X-ray diffraction studies, the D85N mutant of bacteriorhodopsin (bR) with unprotonated Schiff base assumes a protein conformation similar to that in the M photointermediate. We recorded (13)C NMR spectra of [3-(13)C]Ala- and [1-(13)C]Val-labeled D85N and D85N/D96N mutants at ambient temperature to examine how conformation and dynamics of the protein backbone are altered when the Schiff base is protonated (at pH 7) and unprotonated (at pH 10). Most notably, we found that the peak intensities of three to four [3-(13)C]Ala-labeled residues from the transmembrane alpha-helices, including Ala 39, 51, and 53 (helix B) and 215 (helix G), were suppressed in D85N and D85N/D96N both from CP-MAS (cross polarization-magic angle spinning) and DD-MAS (dipolar decoupled-magic angle spinning) spectra, irrespective of the pH. This is due to conformational change and subsequent acquisition of intermediate time-range motions, with correlation times in the order of 10(-)(5) or 10(-)(4) s, which interferes with proton decoupling frequency or frequency of magic angle spinning, respectively, essential for an attempted peak-narrowing to achieve high-resolution NMR signals. Greater changes were achieved, however, at pH 10, which indicate large-amplitude motions of transmembrane helices upon deprotonation of Schiff base and the formation of the M-like state in the absence of illumination. The spectra detected more rapid motions in the extracellular and/or cytoplasmic loops, with correlation times increasing from 10(-)(4) to 10(-)(5) s. Conformational changes in the transmembrane helices were located at helices B, G, and D as viewed from the above-mentioned spectral changes, as well as at 1-(13)C-labeled Val 49 (helix B), 69 (B-C loop), and [3-(13)C]Ala-labeled Ala 126 (D-helix) signals, in addition to the cytoplasmic and extracellular loops. Further, we found that in the M-like state the charged state of Asp 96 at the cytoplasmic side substantially modulated the conformation and dynamics of the extracellular region through long-distance interaction.
authors.affiliation: Department of Life Science, Faculty of Science, Himeji Institute of Technology, Harima Science Garden City, Kouto 3-chome, Kamigori, Hyogo, Japan.
authors.forename: Y
authors.initials: Y
authors.lastname: Kawase
authors.forename: M
authors.initials: M
authors.lastname: Tanio
authors.forename: A
authors.initials: A
authors.lastname: Kira
authors.forename: S
authors.initials: S
authors.lastname: Yamaguchi
authors.forename: S
authors.initials: S
authors.lastname: Tuzi
authors.forename: A
authors.initials: A
authors.lastname: Naito
authors.forename: M
authors.initials: M
authors.lastname: Kataoka
authors.forename: J K
authors.initials: JK
authors.lastname: Lanyi
authors.forename: R
authors.initials: R
authors.lastname: Needleman
authors.forename: H
authors.initials: H
authors.lastname: Saitô
mesh_terms: D000409:Alanine / Q000737:chemistry; D000595:Amino Acid Sequence; D001216:Asparagine / Q000235:genetics; D001224:Aspartic Acid / Q000737:chemistry* / Q000235:genetics; D001436:Bacteriorhodopsins / Q000737:chemistry* / Q000235:genetics; D002247:Carbon Isotopes; D003593:Cytoplasm / Q000737:chemistry / Q000235:genetics; D005110:Extracellular Space / Q000737:chemistry / Q000235:genetics; D019617:Halobacterium salinarum; D006863:Hydrogen-Ion Concentration; D008969:Molecular Sequence Data; D016297:Mutagenesis, Site-Directed; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods; D011487:Protein Conformation; D011522:Protons; D012545:Schiff Bases / Q000737:chemistry; D013696:Temperature; D013816:Thermodynamics; D014633:Valine / Q000737:chemistry
chemical_list: D002247:Carbon Isotopes; D011522:Protons; D012545:Schiff Bases; D001224:Aspartic Acid; D001436:Bacteriorhodopsins; D001216:Asparagine; D014633:Valine; D000409:Alanine