Computational Photochemistry and Photobiology
Computational Photochemistry and Photobiology
Disciplines
Chemistry (100%)
Keywords
-
Quantum Chemistry,
Excited states,
Conical Intersections,
Dynamics,
Retinal,
Excited-State Proton Transfer
In the last years, Computational Chemistry has made dramatic progress due to combined developments in computational methods and in computer technology. Computer simulations based on quantum chemical methods have reached an accuracy, which, in many cases, is competitive to experiment. The field of photochemistry and photobiology is fascinating since it combines a set of challenging theoretical questions with interesting chemical problems. The quantum chemical description of excited states is significantly more demanding than that for the ground state. Key features of excited-state energy surfaces are conical intersections between different states. In the region of conical intersections the Born-Oppenheimer approximation breaks down, which is a main fundament of Quantum Chemistry. These intersections are also of great mechanistic importance since they form funnels through which ultra-fast radiationless transfer to the other state occurs. In the last years we have made substantial progress in developing methods for the analytic computation of energy gradients for excited states and for analytic nonadiabatic coupling vectors based on the multireference configuration interaction (MRCI) method. The availability of analytic gradients and coupling vectors is of utmost importance for the efficient determination of stationary points and minima on the crossing seam. The methods we have implemented into our COLUMBUS program system are worldwide unique features, which enhance the capabilities of excited-state calculations drastically. The power of our methods has been demonstrated by a large number of applications. It is the aim of the present project to use the just-mentioned computational possibilities in order to tackle outstanding problems in photochemistry and photobiology and to perform realistic simulations based on reliable excited-state energy surfaces. Two important classes of applications of photochemical/photobiological relevance will be investigated. The first one is the photodynamics of conjugated pi systems with particular emphasis on protonated Schiff bases as models for retinal and the primary process of vision. The second class of applications refers to intra- and intermolecular proton/hydrogen transfer and hydrogen detachment processes in excited states. These processes are of importance for the photostability of organic compounds, particularly for DNA bases. For the construction of excited-state energy surfaces we plan to use a combined approach of creating accurate benchmark results based on our MRCI methods and assessing other, less time-consuming approaches. For the latter, mainly, the TDDFT and RI-CC2 methods will be used. In addition to the accurate calculation of energy surfaces, dynamics simulations based on these surfaces constitute one key issue of our project. We plan to continue our strategy of adjusting parameters of semiempirical methods (AM1) to our MRCI results and use those for efficient surface-hopping dynamics studies. Furthermore, solvation and environmental effects in general will be computed in excited states using various approaches starting from explicit inclusion into the quantum chemical calculation via QM/MM techniques to continuum solvation. In particular, the sequential Monte Carlo Quantum Mechanics (S-MC/QM) approach will be applied in order to combine the advantages of creating statistically relevant ensembles and the accuracy of ab initio calculations.
Photochemical processes represent an extremely fascinating topic since they deviate considerably and many times quite unexpectedly from conventional chemical reactions in the ground state. A particular interesting question refers to the photostability of certain classes of substances, a property which protects molecules from dangerous destruction due to the absorption of the UV light of the sun. The genetic material of the DNA is especially susceptible to such damage since its nucleobases absorb UV light extremely well. Without shielding mechanisms a rapid degradation would be the consequence. How do these protective mechanisms look like? The answer to this question was one of the major topics of the present research project. The goal was to develop and apply theoretical simulation techniques which allow a vivid dynamical picture of the molecular processes involved. In order to achieve this goal several conditions had to be met and many preparations to be performed. The quantum chemical calculation of electronic excitation processes and the interaction of different electronic states are very involved and extremely challenging. Special methods and program packages have to be used. The COLUMBUS program system developed in our group provides excellent conditions for these calculations. For the dynamics simulations a special program package - NEWTON-X - was developed which used the mixed classical-quantum mechanical approach of surface hopping. In combination with COLUMBUS outstanding simulation of the photodynamical evolution of molecular systems could be performed. One of the major objects of these simulations were the afore-mentioned DNA/RNA nucleobases. For the first time, a comprehensive overview of the actually occurring photodynamical decay mechanisms could be given. It was found that there were two groups of nucleobases showing significantly different behavior. One group, the purine bases adenine and guanine, displayed a straightforward decay leading from the excited pi-pi* state back to the ground state in only 300 to 600 femto seconds. The pyrimidine bases thymine, uracil and cytosine showed a more complex behavior with trapping in local minima of excited states. But also in these cases the decay rates were ultrafast with decay times up to 5 pico seconds. This ultrafast decay is the core of the photostability since in this way the electronic excitation energy is converted directly into heat, and the potential damage can be avoided. Beyond simulation of the properties of isolated molecules, interactions with the environment (solvent or biological systems) were investigated. A quantum mechanical/molecular mechanics formalism was developed which allows efficient treatment of DNA and protein environments.
- Universität Wien - 100%
- Marco Antonio Chaer Nascimento, Universidade Federal de Rio de Janeiro - Brazil
- Sylvio Canuto, Universidade de Sao Paulo - Brazil
- Natasha Trendafilova, Universität Sofia - Burundi
- Mirjana Eckert-Maksic, Rudjer Boskovic Institute - Croatia
- Ron Shepard, Argonne National Laboratory - USA
Research Output
- 3420 Citations
- 51 Publications
-
2012
Title O + C2H4 potential energy surface: excited states and biradicals at the multireference level DOI 10.1007/s00214-012-1123-0 Type Journal Article Author West A Journal Theoretical Chemistry Accounts Pages 1123 -
2010
Title Matrix-controlled photofragmentation of formamide : dynamics simulation in argon by nonadiabatic QM / MM method DOI 10.1039/c0cp00174k Type Journal Article Author Eckert-Maksic M Journal Physical Chemistry Chemical Physics Pages 12719-12726 -
2010
Title Does Stacking Restrain the Photodynamics of Individual Nucleobases? DOI 10.1021/ja1029705 Type Journal Article Author Nachtigallova´ D Journal Journal of the American Chemical Society Pages 8261-8263 -
2010
Title Solvatochromic and Ionochromic Effects of Iron(II)bis(1,10-phenanthroline)dicyano: a Theoretical Study DOI 10.1021/ic9020299 Type Journal Article Author Georgieva I Journal Inorganic Chemistry Pages 1634-1646 -
2010
Title Singlet and triplet potential surfaces for the O2+C2H4 reaction DOI 10.1063/1.3490480 Type Journal Article Author Park K Journal The Journal of Chemical Physics Pages 184306 Link Publication -
2010
Title The effect of hydration on the photo-deactivation pathways of 4-aminopyrimidine DOI 10.1016/j.chemphys.2010.07.034 Type Journal Article Author Szymczak J Journal Chemical Physics Pages 110-117 -
2010
Title Non-adiabatic dynamics of pyrrole: Dependence of deactivation mechanisms on the excitation energy DOI 10.1016/j.chemphys.2010.07.014 Type Journal Article Author Barbatti M Journal Chemical Physics Pages 26-34 -
2010
Title Relaxation mechanisms of UV-photoexcited DNA and RNA nucleobases DOI 10.1073/pnas.1014982107 Type Journal Article Author Barbatti M Journal Proceedings of the National Academy of Sciences Pages 21453-21458 Link Publication -
2010
Title Effect of substituents on the excited-state dynamics of the modified DNA bases 2,4-diaminopyrimidine and 2,6-diaminopurine DOI 10.1039/b917852j Type Journal Article Author Gengeliczki Z Journal Physical Chemistry Chemical Physics Pages 5375-5388 Link Publication -
2010
Title The photodynamics of 2,4-diaminopyrimidine in comparison with 4-aminopyrimidine: The effect of amino-substitution DOI 10.1016/j.cplett.2010.07.098 Type Journal Article Author Nachtigallová D Journal Chemical Physics Letters Pages 129-134 -
2010
Title The charge-transfer states in a stacked nucleobase dimer complex: A benchmark study DOI 10.1002/jcc.21702 Type Journal Article Author Aquino A Journal Journal of Computational Chemistry Pages 1217-1227 -
2010
Title Photostability and solvation: photodynamics of microsolvated zwitterionic glycine DOI 10.1039/b925246k Type Journal Article Author Oncák M Journal Physical Chemistry Chemical Physics Pages 4906-4914 -
2010
Title Formamide as the Model Compound for Photodissociation Studies of the Peptide Bond DOI 10.1007/978-90-481-3034-4_3 Type Book Chapter Author Eckert-Maksic M Publisher Springer Nature Pages 77-106 -
2010
Title The UV absorption of nucleobases: semi-classical ab initio spectra simulations DOI 10.1039/b924956g Type Journal Article Author Barbatti M Journal Physical Chemistry Chemical Physics Pages 4959-4967 -
2008
Title Sensitivity of femtosecond quantum dynamics and control with respect to non-adiabatic couplings: Model simulations for the cis–trans isomerization of the dideuterated methaniminium cation DOI 10.1016/j.chemphys.2008.01.053 Type Journal Article Author Barbatti M Journal Chemical Physics Pages 145-153 -
2008
Title Ab initio study of the photochemistry of aminopyrimidine DOI 10.1002/qua.21612 Type Journal Article Author Zechmann G Journal International Journal of Quantum Chemistry Pages 1266-1276 -
2008
Title Mechanism of Ultrafast Photodecay in Restricted Motions in Protonated Schiff Bases: The Pentadieniminium Cation DOI 10.1021/ct800148n Type Journal Article Author Szymczak J Journal Journal of Chemical Theory and Computation Pages 1189-1199 -
2008
Title The interplay of skeletal deformations and ultrafast excited-state intramolecular proton transfer: Experimental and theoretical investigation of 10-hydroxybenzo[h]quinoline DOI 10.1016/j.chemphys.2007.10.021 Type Journal Article Author Schriever C Journal Chemical Physics Pages 446-461 -
2008
Title Theoretical investigation of the mode-specific induced non-radiative decay in 2-pyridone DOI 10.1016/j.chemphys.2008.02.007 Type Journal Article Author Barbatti M Journal Chemical Physics Pages 278-286 -
2008
Title Nonadiabatic Deactivation of 9H-Adenine: A Comprehensive Picture Based on Mixed Quantum-Classical Dynamics DOI 10.1021/ja800589p Type Journal Article Author Barbatti M Journal Journal of the American Chemical Society Pages 6831-6839 -
2008
Title The effect of protonation on the photodissociation processes in formamide – An ab initio surface hopping dynamics study DOI 10.1016/j.chemphys.2008.01.026 Type Journal Article Author Antol I Journal Chemical Physics Pages 308-318 -
2008
Title Photophysics and Deactivation Pathways of Thymine DOI 10.1021/jp804309x Type Journal Article Author Zechmann G Journal The Journal of Physical Chemistry A Pages 8273-8279 -
2007
Title Can the Nonadiabatic Photodynamics of Aminopyrimidine Be a Model for the Ultrafast Deactivation of Adenine? DOI 10.1021/jp070089w Type Journal Article Author Barbatti M Journal The Journal of Physical Chemistry A Pages 2852-2858 -
2007
Title Simulation of the photodeactivation of formamide in the nO-p* and p-p* states: An ab initio on-the-fly surface-hopping dynamics study DOI 10.1063/1.2804862 Type Journal Article Author Antol I Journal The Journal of Chemical Physics Pages 234303 -
2007
Title Theoretical Study of Metal-Ligand Interaction in Sm(III), Eu(III), and Tb(III) Complexes of Coumarin-3-Carboxylic Acid in the Gas Phase and Solution DOI 10.1021/ic7016616 Type Journal Article Author Georgieva I Journal Inorganic Chemistry Pages 10926-10936 -
2007
Title The on-the-fly surface-hopping program system Newton-X: Application to ab initio simulation of the nonadiabatic photodynamics of benchmark systems DOI 10.1016/j.jphotochem.2006.12.008 Type Journal Article Author Barbatti M Journal Journal of Photochemistry and Photobiology A: Chemistry Pages 228-240 -
2006
Title Excited-State Properties and Environmental Effects for Protonated Schiff Bases: A Theoretical Study DOI 10.1002/cphc.200600199 Type Journal Article Author Aquino A Journal ChemPhysChem Pages 2089-2096 -
2009
Title Dynamics starting at a conical intersection: Application to the photochemistry of pyrrole DOI 10.1063/1.3175799 Type Journal Article Author Sellner B Journal The Journal of Chemical Physics Pages 024312 -
2009
Title UV excitation and radiationless deactivation of imidazole DOI 10.1063/1.3056197 Type Journal Article Author Barbatti M Journal The Journal of Chemical Physics Pages 034305 -
2009
Title Ultrafast internal conversion pathway and mechanism in 2-(2'-hydroxyphenyl)benzothiazole : a case study for excited-state intramolecular proton transfer systems DOI 10.1039/b814255f Type Journal Article Author Barbatti M Journal Physical Chemistry Chemical Physics Pages 1406-1415 -
2009
Title Excited-State Diproton Transfer in [2,2'-Bipyridyl]-3,3'-diol: the Mechanism Is Sequential, Not Concerted DOI 10.1021/jp9032172 Type Journal Article Author Plasser F Journal The Journal of Physical Chemistry A Pages 8490-8499 -
2009
Title The Isomerization Barrier in Cyanocyclobutadienes: An ab Initio Multireference Average Quadratic Coupled Cluster Study DOI 10.1021/jp9015273 Type Journal Article Author Eckert-Maksic´ M Journal The Journal of Physical Chemistry A Pages 8351-8358 -
2009
Title Theoretical Study of the Relations between Structure and Photophysical Properties of Model Oligofluorenes with Central Keto Defect DOI 10.1021/jp902658u Type Journal Article Author Lukes? V Journal The Journal of Physical Chemistry A Pages 14141-14149 -
2009
Title Is the Photoinduced Isomerization in Retinal Protonated Schiff Bases a Single- or Double-Torsional Process? DOI 10.1021/jp903329j Type Journal Article Author Szymczak J Journal The Journal of Physical Chemistry A Pages 11907-11918 -
2009
Title O(3P) + C2H4 Potential Energy Surface: Study at the Multireference Level DOI 10.1021/jp905070z Type Journal Article Author West A Journal The Journal of Physical Chemistry A Pages 12663-12674 -
2009
Title Photodynamics Simulations of Thymine: Relaxation into the First Excited Singlet State DOI 10.1021/jp905085x Type Journal Article Author Szymczak J Journal The Journal of Physical Chemistry A Pages 12686-12693 Link Publication -
2009
Title The electronically excited states of RDX (hexahydro-1,3,5-trinitro-1,3,5-triazine): Vertical excitations DOI 10.1002/qua.22043 Type Journal Article Author Borges I Journal International Journal of Quantum Chemistry Pages 2348-2355 -
2009
Title Excited-state non-adiabatic dynamics simulations of pyrrole DOI 10.1080/00268970802665639 Type Journal Article Author Vazdar M Journal Molecular Physics Pages 845-854 Link Publication -
2008
Title Nonadiabatic excited-state dynamics of polar p-systems and related model compounds of biological relevance DOI 10.1039/b709315m Type Journal Article Author Barbatti M Journal Physical Chemistry Chemical Physics Pages 482-494 Link Publication -
2011
Title Theoretical study of the excitation spectrum of azomethane DOI 10.1016/j.chemphys.2010.08.013 Type Journal Article Author Szalay P Journal Chemical Physics Pages 9-16 -
2011
Title Semiclassical dynamics simulations of charge transport in stacked p-systems DOI 10.1063/1.3526697 Type Journal Article Author Plasser F Journal The Journal of Chemical Physics Pages 034309 -
2011
Title The decay mechanism of photoexcited guanine - A nonadiabatic dynamics study DOI 10.1063/1.3521498 Type Journal Article Author Barbatti M Journal The Journal of Chemical Physics Pages 014304 -
2011
Title Electronic spectra of nitroethylene DOI 10.1002/qua.23080 Type Journal Article Author Borges I Journal International Journal of Quantum Chemistry Pages 1225-1232 -
2010
Title Photodynamics of Azomethane: A Nonadiabatic Surface-Hopping Study DOI 10.1021/jp101745t Type Journal Article Author Sellner B Journal The Journal of Physical Chemistry A Pages 8778-8785 -
2010
Title Nonadiabatic Excited-State Dynamics with Hybrid ab Initio Quantum-Mechanical/Molecular-Mechanical Methods: Solvation of the Pentadieniminium Cation in Apolar Media DOI 10.1021/jp103101t Type Journal Article Author Ruckenbauer M Journal The Journal of Physical Chemistry A Pages 6757-6765 -
2010
Title Azomethane: Nonadiabatic Photodynamical Simulations in Solution DOI 10.1021/jp108844g Type Journal Article Author Ruckenbauer M Journal The Journal of Physical Chemistry A Pages 12585-12590 -
2010
Title The effect of C5 substitution on the photochemistry of uracil DOI 10.1039/b925803p Type Journal Article Author Nachtigallová D Journal Physical Chemistry Chemical Physics Pages 4924-4933 Link Publication -
2006
Title Ab initio nonadiabatic dynamics study of ultrafast radiationless decay over conical intersections illustrated on the Na3F cluster DOI 10.1063/1.2209233 Type Journal Article Author Mitric R Journal The Journal of Chemical Physics Pages 024303 -
2006
Title The nonadiabatic deactivation paths of pyrrole DOI 10.1063/1.2363376 Type Journal Article Author Barbatti M Journal The Journal of Chemical Physics Pages 164323 -
2006
Title An Ab Initio Study of the Excited States, Isomerization Energy Profiles and Conical Intersections of a Chiral Cyclohexylidene Derivative DOI 10.1021/jp066090x Type Journal Article Author Schreiber M Journal The Journal of Physical Chemistry A Pages 238-243 -
2006
Title Excited-State Proton Transfer in 7-Hydroxy-4-methylcoumarin along a Hydrogen-Bonded Water Wire DOI 10.1021/jp0662202 Type Journal Article Author Georgieva I Journal The Journal of Physical Chemistry A Pages 127-135