The Primary Photochemistry of Vision Occurs at the Molecular Speed Limit

Johnson, Philip J. M.; Farag, Marwa H.; Halpin, Alexei; Morizumi, Takefumi; Prokhorenko, Valentyn I.; Knoester, Jasper; Jansen, Thomas L. C.; Ernst, Oliver P.; Miller, R. J. Dwayne

doi:10.1021/acs.jpcb.7b02329

Cited by 49 publications

(102 citation statements)

References 37 publications

(70 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…S 1 therefore preserves a strongly reactive CT character, and Figure 3 shows that bond length inversion is complete (BLA <0) along the C5=C6-C7=C8-C9=C10-C11=C12 fragment of the chromophore. Both effects lead in the specific protein environment to a barrierless potential and a rapid downhill progression reaching the CInt within less than 100 fs, in agreement with experiments [31,[93][94][95][96]. In 13C/ASR, after an initial BLA displacement, S 1 and S 2 are degenerate in the 40-80 fs time interval, and the dihedral angles, along the C 13 =C 14 & C 15 =N axes, remain almost planar [86].…”

Section: Theoretical Framework: Potential Energy Surfaces and Cintsupporting

confidence: 84%

Sub-picosecond C=C bond photo-isomerization: evidence for the role of excited state mixing

Agathangelou¹,

Roy²,

Marín³

et al. 2021

Comptes Rendus. Physique

View full text Add to dashboard Cite

Sub-picosecond photo-isomerization is the major primary process of energy conversion in retinal proteins and has as such been in the focus of extensive theoretical and experimental work over the past decades. In this review article, we revisit the long-standing question as to how the protein tunes the isomerization speed and quantum yield. We focus on our recent contributions to this field, which underscore the concept of a delicate mixing of reactive and non-reactive excited states, as a result of steric properties and electrostatic interactions with the protein environment. Further avenues and new approaches are outlined which hold promise for advancing our understanding of these intimately coupled chromophore-protein systems. Résumé

show abstract

Section: Theoretical Framework: Potential Energy Surfaces and Cintsupporting

confidence: 84%

Sub-picosecond C=C bond photo-isomerization: evidence for the role of excited state mixing

Agathangelou¹,

Roy²,

Marín³

et al. 2021

Comptes Rendus. Physique

View full text Add to dashboard Cite

show abstract

“…Also, an ultrafast decay of the S 1 probability towards the photo-products already at 50 fs 38 is common to all results based on the three-dimensional model. We notice quantitative differences between exact results (black lines) and the two approximations of the metric tensor, i.e., constant (dark-green lines) and diagonal-constant (light-green lines).…”

Section: Analysis Of the Model Based On Quantum Dynamics Simulationsmentioning

confidence: 55%

“…For all these reasons, our study goes beyond previous reports based on two-dimensional and/or empirically determined PES models. [21][22][23]25,38,53,56,57 The analysis of the results focuses on three main aspects of PSB3 captured dynamics:…”

Section: Introductionmentioning

confidence: 99%

Quantum and Quantum-Classical Studies of the Photoisomerization of a Retinal Chromophore Model

Marsili

Olivucci

Lauvergnat

et al. 2020

J. Chem. Theory Comput.

View full text Add to dashboard Cite

We report an in-depth analysis of the photo-induced isomerization of the 2-cispenta-2,4-dieniminium cation: a minimal model of the 11-cis retinal protonated Schiff base chromophore of the dim-light photoreceptor rhodopsin. Based on recently-developed three-dimensional potentials parametrized on ab initio multi-state multi-configurational second-order perturbation theory data, we perform quantum-dynamical studies. In addition, simulations based on various quantum-classical methods, among which Tully surface hopping and the coupled-trajectory approach derived from the exact factorization, allow us to validate their performance against vibronic-wavepacket propagation and, therefore, a purely quantum treatment. Quantum-dynamics results uncover qualitative differences with respect to the two-dimensional Hahn-Stock potentials, widely-used as model potentials for the isomerization of the same chromophore, due to the increased dimensionality and three-mode correlation. Quantum-classical simulations show, instead, that three-dimensional model potentials are capable of capturing a number of features revealed by atomistic simulations and experimental observations. In particular, a recently reported vibrational phase relationship between double-bond torsion and hydrogen-out-of-plane modes critical for rhodopsin isomerization efficiency is correctly reproduced.

show abstract

“…In this process, a photon is absorbed by a chromophore in a light receptor, which causes photoisomerisation. This change in structure induces a change in the structure of the photoreceptor and the resulting signal transduction pathways that lead to a visual signal [5]. This process is very rapid (< 200 femtoseconds) and has a high yield.…”

Section: Introductionmentioning

confidence: 99%

DNA Waves and Their Applications in Biology

Fioranelli¹,

Sepehri²,

Roccia³

et al. 2019

Open Access Maced J Med Sci

View full text Add to dashboard Cite

AIM:In this research, we show that DNA waves have many applications in biology. DNA is formed by the joining of quantum particles like electrons and charged atoms. DNA has different motions during transcription, translation, and replication, in which the charged particles move, accelerate, and emit waves. Thus, DNA could emit quantum waves.METHODS:Two methods are proposed to observe the effect of DNA waves. The first proposed method measures DNA waves emitted by bacteria suspended in the milk. The vessel of milk is placed in the interior of an inductor. One side of the vessel is connected to a generator and another side to a scope. By sending a current to the inductor, an input electromagnetic field is produced. Bacteria interact with the input field, change it and produce new output signals. Using the scope, the output signals are observed and compared with the input signals. The number of DNA waves produced also depends on temperature.RESULTS:At lower temperatures, bacterial replication is less, and fewer DNA waves are produced. Conversely, more bacteria are generated at higher temperatures, and more DNA waves are produced. The second proposed method acquires and images of DNA signals of chick embryos. In this method, a circuit is constructed that consists of a graphene or metal tube, generator, inductor, scope, DNA in the interior of eggs and DNA exterior to the eggs. Magnetic waves pass the interior and exterior DNA as well as the graphene. The DNA is excited and the exciting interior/exterior DNA exchanges waves. Some of these waves interact with electrons in the graphene tube, and a current is generated. Properties of the chick embryo DNA can be explored by analysing changes in the waves that emerge from the eggs.CONCLUSION:It is concluded that DNA waves could be used extensively in imaging and provide for us the exact information about evolutions of DNAs interior of biological systems.

show abstract

The Primary Photochemistry of Vision Occurs at the Molecular Speed Limit

Cited by 49 publications

References 37 publications

Sub-picosecond C=C bond photo-isomerization: evidence for the role of excited state mixing

Sub-picosecond C=C bond photo-isomerization: evidence for the role of excited state mixing

Quantum and Quantum-Classical Studies of the Photoisomerization of a Retinal Chromophore Model

DNA Waves and Their Applications in Biology

Contact Info

Product

Resources

About