TY - JOUR A1 - Friedl, Christian A1 - Renger, Thomas A1 - Berlepsch, Hans V. A1 - Ludwig, Kai A1 - Schmidt am Busch, Marcel A1 - Megow, Jörg T1 - Structure Prediction of Self-Assembled Dye Aggregates from Cryogenic Transmission Electron Microscopy, Molecular Mechanics, and Theory of Optical Spectra JF - The journal of physical chemistry : C, Nanomaterials and interfaces N2 - Cryogenic transmission electron microscopy (cryo-TEM) studies suggest that TTBC molecules self-assemble in aqueous solution to form single-walled tubes with a diameter of about 35 A. In order to reveal the arrangement and mutual orientations of the individual molecules in the tube, we combine information from crystal structure data of this dye with a calculation of linear absorbance and linear dichroism spectra and molecular dynamics simulations. We start with wrapping crystal planes in different directions to obtain tubes of suitable diameter. This set of tube models is evaluated by comparing the resulting optical spectra with experimental data. The tubes that can explain the spectra are investigated further by molecular dynamics simulations, including explicit solvent molecules. From the trajectories of the most stable tube models, the short-range ordering of the dye molecules is extracted and the optimization of the structure is iteratively completed. The final structural model is a tube of rings with 6-fold rotational symmetry, where neighboring rings are rotated by 30 and the-transition dipole moments of the chromophores form an angle of 74 with respect to the symmetry axis of the tube. This model is in agreement with cryo-TEM images and can explain the optical spectra, consisting of a sharp red-shifted J-band that is polarized parallel to to the symmetry axis of the tube and a broad blue-shifted H-band polarized perpendicular to this axis. The general structure of the homogeneous spectrum of this hybrid HJ-aggregate is described by an analytical model that explains the difference in redistribution of oscillator strength inside the vibrational manifolds of the J- and H-bands and the relative intensities and excitation energies of those bands. In addition to the-particular system investigated here, the present methodology can be expected to aid the structure prediction for a wide range of self-assembled dye aggregates. Y1 - 2016 U6 - https://doi.org/10.1021/acs.jpcc.6b05856 SN - 1932-7447 VL - 120 SP - 19416 EP - 19433 PB - American Chemical Society CY - Washington ER - TY - GEN A1 - Megow, Jörg A1 - Röhr, Merle I. S. A1 - Schmidt am Busch, Marcel A1 - Renger, Thomas A1 - Mitrić, Roland A1 - Kirstein, Stefan A1 - Rabe, Jürgen P. A1 - May, Volkhard T1 - Site-dependence of van der Waals interaction explains exciton spectra of double-walled tubular J-aggregates N2 - The simulation of the optical properties of supramolecular aggregates requires the development of methods, which are able to treat a large number of coupled chromophores interacting with the environment. Since it is currently not possible to treat large systems by quantum chemistry, the Frenkel exciton model is a valuable alternative. In this work we show how the Frenkel exciton model can be extended in order to explain the excitonic spectra of a specific double-walled tubular dye aggregate explicitly taking into account dispersive energy shifts of ground and excited states due to van der Waals interaction with all surrounding molecules. The experimentally observed splitting is well explained by the site-dependent energy shift of molecules placed at the inner or outer side of the double-walled tube, respectively. Therefore we can conclude that inclusion of the site-dependent dispersive effect in the theoretical description of optical properties of nanoscaled dye aggregates is mandatory. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 191 Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-79978 SP - 6741 EP - 6747 ER - TY - JOUR A1 - Megow, Jörg A1 - Röhr, Merle I. S. A1 - Schmidt am Busch, Marcel A1 - Renger, Thomas A1 - Mitrić, Roland A1 - Kirstein, Stefan A1 - Rabe, Jürgen P. A1 - May, Volkhard T1 - Site-dependence of van der Waals interaction explains exciton spectra of double-walled tubular J-aggregates JF - Physical chemistry, chemical physics : PCCP ; a journal of European chemical societies N2 - The simulation of the optical properties of supramolecular aggregates requires the development of methods, which are able to treat a large number of coupled chromophores interacting with the environment. Since it is currently not possible to treat large systems by quantum chemistry, the Frenkel exciton model is a valuable alternative. In this work we show how the Frenkel exciton model can be extended in order to explain the excitonic spectra of a specific double-walled tubular dye aggregate explicitly taking into account dispersive energy shifts of ground and excited states due to van der Waals interaction with all surrounding molecules. The experimentally observed splitting is well explained by the site-dependent energy shift of molecules placed at the inner or outer side of the double-walled tube, respectively. Therefore we can conclude that inclusion of the site-dependent dispersive effect in the theoretical description of optical properties of nanoscaled dye aggregates is mandatory. Y1 - 2015 U6 - https://doi.org/10.1039/c4cp05945j SN - 1463-9084 SN - 1463-9076 VL - 17 IS - 10 SP - 6741 EP - 6747 PB - Royal Society of Chemistry CY - Cambridge ER - TY - JOUR A1 - Kress, H. A1 - Jarrin, A. A1 - Thuroff, E. A1 - Saunders, R. A1 - Weise, C. A1 - Schmidt am Busch, Marcel A1 - Knapp, E. W. A1 - Wedde, M. A1 - Vilcinskas, Andreas T1 - A Kunitz type protease inhibitor related protein is synthesized in Drosophila prepupal salivary glands and released into the moulting fluid during pupation N2 - From the Drosophila virilis late puff region 31C, we microcloned two neighbouring genes, Kil-1 and Kil-2, that encode putative Kunitz serine protease inhibitor like proteins. The Kil-1 gene is expressed exclusively in prepupal salivary glands. Using a size mutant of the KIL-1 protein and MALDI-TOF analysis, we demonstrate that during pupation this protein is released from the prepupal salivary glands into the pupation fluid covering the surface of the pupa. 3-D- structure predictions are consistent with the known crystal structure of the human Kunitz type protease inhibitor 2KNT. This is the first experimental proof for the extra-corporal presence of a distinct Drosophila prepupal salivary gland protein. Possible functions of KIL-1 in the context of the control of proteolytic activities in the pupation fluid are discussed. (C) 2004 Elsevier Ltd. All rights reserved Y1 - 2004 SN - 0965-1748 ER -