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Carsten Kötting

Publications and source records attributed to Carsten Kötting.

5 recordsLinked to original sources

A phosphoryl transfer intermediate in the GTPase reaction of Ras in complex with its GTPase-activating protein.

The hydrolysis of nucleoside triphosphates by enzymes is used as a regulation mechanism in key biological processes. Here, the GTP hydrolysis of the protein complex of Ras with its GTPase-activating protein is monitored at atomic resolution in a noncrystalline state by time-resolved FTIR spectroscopy. At 900 ms, after the attack of water at the gamma-phosphate, there appears a H2PO4- intermediate that is shown to be hydrogen-bonded in an eclipsed conformation to the beta-phosphate of GDP. The H2PO4- intermediate is in a position where it can either reform GTP or be released from the protein in 7 s in the rate-limiting step of the GTPase reaction. We propose that such an intermediate also occurs in other GTPases and ATPases.

Binding Sites↗

Proteins in action monitored by time-resolved FTIR spectroscopy.

In the post genome era proteins coming into the focus of life sciences. X-ray structure analysis and NMR spectroscopy are established methods to determine the geometry of proteins. In order to determine the molecular reaction mechanism of proteins, time-resolved FTIR (trFTIR) difference spectroscopy emerges as a valuable tool. In this Minireview we describe the trFTIR difference spectroscopy and show its application on the light-driven proton pump bacteriorhodopsin (bR), the photosynthetic reaction center and the GTPase Ras, which is crucial in signal transduction. The main principles of the technique are presented, including a summary of triggering techniques, scan modes and analysis.

Bacteriorhodopsins↗

Monitoring protein-ligand interactions by time-resolved FTIR difference spectroscopy.

Time-resolved FTIR difference spectroscopy is a valuable tool to monitor the dynamics of protein-ligand interactions, which selects out of the background absorbance of the whole sample the absorbance bands of the protein groups and of the ligands, which are involved in the protein reaction. The absorbance changes can be monitored with time-resolutions down to nanoseconds and followed then over nine orders of time up to seconds even in membrane proteins with the size of 100,000 Dalton. Here, we will discuss the various experimental setups. We will show new developments for sample cells and how to trigger a reaction within these cells. The kinetic analysis of the data will be discussed. A crucial step in the data analysis is the clear-cut band assignment to chemical groups of the protein and the ligand. This is done either by site directed mutagenesis or by isotopically labeling. Examples for band assignments will be presented in this chapter.

Bacteriorhodopsins↗

Femtochemistry of Norrish type-I reactions: III. Highly excited ketones--theoretical.

Time-dependant density functional theory (TDDFT) and ab initio methods (CASSCF and CASMP2) are applied here for the investigation of the excited-state potential energy surfaces of ketones studied experimentally in the accompanying paper, number IV in the series. The aim is to provide a general and detailed physical picture of the Norrish type-I reaction from S0 and S1 potentials (papers I and II) and from higher-energy potentials (papers III and IV). Particular focus here is on reactions following excitation to the 3s, 3p, and 3d Rydberg state and to the (nz-->pi*) and (pi-->pi*) valence states. It is shown that the active orbitals in the CASSCF calculations can be chosen so that accurate results are obtained with a small active space. Dynamic corrections of the state-specific CASSCF energies at the multireference MP2 level do not improve the results for the Rydberg states but are significant for the valence states. The geometries of the Rydberg states are similar to the ground state; the S1 and other valence states are not. A common property of the valence states is the elongated CO bond and the pyramidalization of the carbonyl carbon atom. As a consequence, these valence states cross all Rydberg states along the CO stretching coordinate and provide an efficient pathway down to the 3s Rydberg states (S2) through a series of conical intersections (CIs). The nonadiabatic coupling vector of the CI between the (pi-->pi*) and the 3s Rydberg states guides energy channeling into the asymmetric CC-stretching mode. The energy demand for the CC bond breakage (Norrish type-I) on the S2 surface is lower than that of the CI leading to the S1 state. This CC bond breakage leads to a linear excited state acetyl radical (3s Rydberg). Crossing a small barrier the 3s acyl radical can access a CI leading either to a second CC bond breakage or to a hot ground-state acetyl radical. The barriers for the Norrish type-I reaction on the various excited-state surfaces can be rationalized within the framework of valence-bond theory. The dynamic picture of the Norrish type-I reactions is now clear: The excitation to high-energy states leads to the nonconcerted breakage of the alpha-CC bonds by an "effective downhill" potential in space involving the active excitation center CO, CC stretching, and CCO bending nuclear motions, but not, as usually thought, a direct repulsive potential along the CC bond. In our accompanying paper (part IV), it is shown that the results from the experimental investigations of Norrish type-I reactions on the femtosecond timescale are consistent with these theoretical results.

Journal Article↗

Femtochemistry of Norrish type-I reactions: IV. Highly excited ketones--experimental.

Femtosecond dynamics of Norrish type-I reactions of cyclic and acyclic ketones have been investigated in real time for a series of 13 compounds using femtosecond-resolved time-of-flight mass spectrometry. A general physical description of the ultrafast processes of ketones excited into a high-lying Rydberg state is presented. It accounts not only for the results that are presented herein but also for the results of previously reported studies. For highly excited ketones, we show that the Norrish type-I reaction is nonconcerted, and that the first bond breakage occurs along the effectively repulsive S2 surface involving the C-C bond in a manner which is similar to that of ketones in the S1 state (E. W.-G. Diau et al. ChemPhysChem 2001, 2, 273-293). The experimental results show that the wave packet motion out of the initial Franck-Condon region and down to the S2 state can be resolved. This femtosecond (fs) internal conversion from the highly excited Rydberg state to the S2 state proceeds through conical intersections (Rydberg-valence) that are accessed through the C=O stretching motion. In one of these conical intersections, the internal energy is guided into an asymmetric stretching mode. This explains the previously reported pronounced nonstatistical nature of the reaction. The second bond breakage involves an excited-state acyl radical and occurs on a time scale that is up to one order of magnitude longer than the first. We discuss the details regarding the ion chemistry, which determines the appearance of the mass spectra that arise from ionization on the fs time scale. The experimental results presented here, aided by the theoretical work reported in paper III, provide a unified picture of Norrish reactions on excited states and on the ground-state potential energy surfaces.

Journal Article↗