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Computational Photochemistry and Photobiology

Computational Photochemistry and Photobiology

Hans Lischka (ORCID: )
  • Grant DOI 10.55776/P18411
  • Funding program Principal Investigator Projects
  • Status ended
  • Start September 1, 2006
  • End August 31, 2010
  • Funding amount € 250,772
  • Project website

Disciplines

Chemistry (100%)

Keywords

    Quantum Chemistry, Excited states, Conical Intersections, Dynamics, Retinal, Excited-State Proton Transfer

Abstract Final report

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.

Research institution(s)
  • Universität Wien - 100%
International project participants
  • 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
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

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