title: Substituent and solvent effects on the UV-vis absorption spectrum of the photoactive yellow protein chromophore.
abstract: Solvent effects on the UV-vis absorption spectra and molecular properties of four models of the photoactive yellow protein (PYP) chromophore have been studied with ASEP/MD, a sequential quantum mechanics/molecular mechanics method. The anionic trans-p-coumaric acid (pCA(-)), thioacid (pCTA(-)), methyl ester (pCMe(-)), and methyl thioester (pCTMe(-)) derivatives have been studied in gas phase and in water solution. We analyze the modifications introduced by the substitution of sulfur by oxygen atoms and hydrogen by methyl in the coumaryl tail. We have found some differences in the absorption spectra of oxy and thio derivatives that could shed light on the different photoisomerization paths followed by these compounds. In solution, the spectrum substantially changes with respect to that obtained in the gas phase. The n → π1* state is destabilized by a polar solvent like water, and it becomes the third excited state in solution displaying an important blue shift. Now, the π → π1* and π → π2* states mix, and we find contributions from both transitions in S1 and S2. The presence of the sulfur atom modulates the solvent effect and the first two excited states become practically degenerate for pCA(-) and pCMe(-) but moderately well-separated for pCTA(-) and pCTMe(-).
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: F Fernández
authors.initials: FF
authors.lastname: García-Prieto
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: M A
authors.initials: MA
authors.lastname: Aguilar
authors.affiliation: ‡Department of Chemistry-Ångström, The Theoretical Chemistry Programme, Uppsala University, P.O. Box 518, SE-751 20 Uppsala, Sweden.
authors.forename: I Fdez
authors.initials: IF
authors.lastname: Galván
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: A
authors.initials: A
authors.lastname: Muñoz-Losa
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: F J
authors.initials: FJ
authors.lastname: Olivares del Valle
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: M L
authors.initials: ML
authors.lastname: Sánchez
authors.affiliation: †Área de Química Física, University of Extremadura, Avda. Elvas s/n, José M.a Viguera Lobo Building, 06071 Badajoz, Spain.
authors.forename: M E
authors.initials: ME
authors.lastname: Martín
mesh_terms: D001426:Bacterial Proteins / Q000737:chemistry*; D003198:Computer Simulation; D003373:Coumaric Acids / Q000737:chemistry; D005740:Gases / Q000737:chemistry; D006859:Hydrogen / Q000737:chemistry; D008958:Models, Molecular; D015394:Molecular Structure; D010100:Oxygen / Q000737:chemistry; D055668:Photochemical Processes; D020283:Photoreceptors, Microbial / Q000737:chemistry*; D011789:Quantum Theory; D012996:Solutions; D012997:Solvents / Q000737:chemistry*; D013057:Spectrum Analysis; D013455:Sulfur / Q000737:chemistry; D014867:Water / Q000737:chemistry
chemical_list: D001426:Bacterial Proteins; D003373:Coumaric Acids; D005740:Gases; D020283:Photoreceptors, Microbial; D012996:Solutions; D012997:Solvents; C050162:photoactive yellow protein, Bacteria; D014867:Water; D013455:Sulfur; D006859:Hydrogen; D010100:Oxygen