ONIOM approach for non-adiabatic on-the-fly molecular dynamics demonstrated for the backbone controlled Dewar valence isomerization.

scientific article published in May 2012

ONIOM approach for non-adiabatic on-the-fly molecular dynamics demonstrated for the backbone controlled Dewar valence isomerization. is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1063/1.4720090
P698PubMed publication ID22667560

P50authorThomas CarellQ109816
Wolfgang ZinthQ1679080
Benjamin P. FingerhutQ56997615
P2093author name stringRegina de Vivie-Riedle
Korbinian Heil
Wolfgang J Schreier
Sven Oesterling
Andreas Glas
Karin Haiser
P2860cites workSinglet excited-state behavior of uracil and thymine in aqueous solution: a combined experimental and computational study of 11 uracil derivativesQ46887004
Combining Quantum Mechanics Methods with Molecular Mechanics Methods in ONIOM.Q51630551
Analytic evaluation of nonadiabatic coupling terms at the MR-CI level. I. Formalism.Q51636123
Ab initio molecular dynamics and time-resolved photoelectron spectroscopy of electronically excited uracil and thymine.Q51908461
How shaped light discriminates nearly identical biochromophores.Q52901323
Theoretical studies on photoisomerizations of (6-4) and Dewar photolesions in DNA.Q53265327
A computer simulation method for the calculation of equilibrium constants for the formation of physical clusters of molecules: Application to small water clustersQ56432306
FLUORESCENCE QUANTUM YIELD DETERMINATION OF PYRIMIDINE (6-4) PYRIMIDONE PHOTOADDUCTSQ56919103
Mechanism of UV-Induced Formation of Dewar Lesions in DNAQ57376745
QM/MM: what have we learned, where are we, and where do we go from here?Q57402150
Ultrafast Deactivation Channel for Thymine DimerizationQ57588718
Thymine dimerization in DNA is an ultrafast photoreactionQ24642044
DNA (6-4) photolyases reduce Dewar isomers for isomerization into (6-4) lesionsQ27659908
Bicycle-pedal model for the first step in the vision processQ28184176
Ab initio studies on the radiationless decay mechanisms of the lowest excited singlet states of 9H-adenineQ30851107
DNA excited-state dynamics: from single bases to the double helixQ33384715
Photochemical reaction dynamics of the primary event of vision studied by means of a hybrid molecular simulationQ33874533
Tautomeric selectivity of the excited-state lifetime of guanine/cytosine base pairs: the role of electron-driven proton-transfer processes.Q34212590
Relaxation mechanisms of UV-photoexcited DNA and RNA nucleobasesQ34411668
Primary processes underlying the photostability of isolated DNA bases: adenineQ34771917
Internal conversion to the electronic ground state occurs via two distinct pathways for pyrimidine bases in aqueous solutionQ35578677
Solution-state structure of the Dewar pyrimidinone photoproduct of thymidylyl-(3'----5')-thymidineQ36439402
Incorporation of a QM/MM buffer zone in the variational double self-consistent field methodQ37301582
The thymine-thymine pyrimidine-pyrimidone(6-4) ultraviolet light photoproduct is highly mutagenic and specifically induces 3' thymine-to-cytosine transitions in Escherichia coliQ37612232
Nonadiabatic events and conical intersectionsQ37827118
Three-layer ONIOM studies of the dark state of rhodopsin: the protonation state of Glu181.Q40056152
Synthesis of pyrimidin-2-one deoxyribosides and their ability to support the growth of the deoxyriboside-requiring organism Lactobacillus acidophilus R26Q42064042
Conical intersection dynamics of the primary photoisomerization event in visionQ42877841
Exploring the sloped-to-peaked S2/S1 seam of intersection of thymine with electronic structure and direct quantum dynamics calculationsQ43072618
Comparison of the non-radiative decay mechanisms of 4-pyrimidinone and uracil: an ab initio studyQ43091160
Photophysics of the pi,pi* and n,pi* states of thymine: MS-CASPT2 minimum-energy paths and CASSCF on-the-fly dynamicsQ43282638
Photodynamics simulations of thymine: relaxation into the first excited singlet stateQ43289724
A convergence study of QM/MM isomerization energies with the selected size of the QM region for peptidic systemsQ44671997
Efficient deactivation of a model base pair via excited-state hydrogen transfer.Q45171568
Triplet-state formation along the ultrafast decay of excited singlet cytosineQ45257621
Thymine dimerization in DNA model systems: cyclobutane photolesion is predominantly formed via the singlet channelQ46077403
Photoinduced nonadiabatic dynamics of pyrimidine nucleobases: on-the-fly surface-hopping study with semiempirical methodsQ46111111
Ultrafast internal conversion pathway and mechanism in 2-(2'-hydroxyphenyl)benzothiazole: a case study for excited-state intramolecular proton transfer systems.Q46118851
Excited-state dynamics of cytosine reveal multiple intrinsic subpicosecond pathwaysQ46249391
Nonradiative decay mechanisms of the biologically relevant tautomer of guanine.Q46286615
Searching for conical intersections of potential energy surfaces with the ONIOM method: application to previtamin D.Q46476611
Molecular basis of DNA photodimerization: intrinsic production of cyclobutane cytosine dimers.Q46483883
Three-state conical intersections in cytosine and pyrimidinone basesQ46553326
Ab initio study of a biradical radiationless decay channel of the lowest excited electronic state of cytosine and its derivativesQ46704522
Ab initio multiple spawning dynamics using multi-state second-order perturbation theoryQ46882516
P433issue20
P407language of work or nameEnglishQ1860
P304page(s)204307
P577publication date2012-05-01
P1433published inJournal of Chemical PhysicsQ900472
P1476titleONIOM approach for non-adiabatic on-the-fly molecular dynamics demonstrated for the backbone controlled Dewar valence isomerization.
P478volume136

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cites work (P2860)
Q53033883Design of specially adapted reactive coordinates to economically compute potential and kinetic energy operators including geometry relaxation.
Q38675953Dewar valence isomers, the third type of environmentally relevant DNA photoproducts induced by solar radiation.
Q49852856Mechanism of ultrafast non-reactive deactivation of the retinal chromophore in non-polar solvents.
Q37058620Monitoring Non-Adiabatic Dynamics of the RNA Base Uracil by UV-Pump-IR-Probe Spectroscopy
Q36458849Monitoring conical intersections in the ring opening of furan by attosecond stimulated X-ray Raman spectroscopy
Q37644148Probing the Conical Intersection Dynamics of the RNA Base Uracil by UV-Pump Stimulated-Raman-Probe Signals; Ab Initio Simulations
Q48122153Substituent effects on the relaxation dynamics of furan, furfural and β-furfural: a combined theoretical and experimental approach
Q58765577Time-resolved nuclear dynamics in bound and dissociating acetylene

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