TY - JOUR A1 - Bujotzek, Alexander A1 - Shan, Min A1 - Haag, Rainer A1 - Weber, Marcus T1 - Towards a rational spacer design for bivalent inhibition of estrogen receptor JF - J. Comput.-Aided Mol. Des. Y1 - 2011 VL - 25(3) SP - 253 EP - 262 ER - TY - JOUR A1 - Koschek, A1 - Durmaz, Vedat A1 - Krylova, A1 - Wieczorek, A1 - Gupta, Pooja A1 - Richter, A1 - Bujotzek, Alexander A1 - Fischer, A1 - Haag, Rainer A1 - Freund, A1 - Weber, Marcus A1 - Rademann, T1 - Peptide polymer ligands for a tandem WW-domain, a soft multivalent protein-protein interaction: lessons on the thermodynamic fitness of flexible ligands JF - Beilstein J. Org. Chem. Y1 - 2015 VL - 11 SP - 837 EP - 847 ER - TY - CHAP A1 - Fackeldey, Konstantin A1 - Bujotzek, Alexander T1 - Local Quantum-Like Updates in Classical Molecular Simulation Realized Within an Uncoupling-Coupling Approach T2 - Progress in Industrial Mathematics at ECMI 2012 N2 - In this article a method to improve the precision of the classical molecular dynamics force field by solving an approximation problem with scattered quantum mechanical data is presented. This novel technique is based on two steps. In the first step a partition of unity scheme is used for partitioning the state space by meshfree basis functions. As a consequence the potential can be localized for each basis function. In a second step, for one state in each meshfree basis function, the precise QM-based charges are computed. These local QM-based charges are then used, to optimize the local potential function. The performance of this method is shown for the alanine tripeptide. Y1 - 2014 U6 - https://doi.org/10.1007/978-3-319-05365-3_42 VL - 19 SP - 309 EP - 313 ER - TY - THES A1 - Bujotzek, Alexander T1 - Molecular Simulation of Multivalent Ligand-Receptor Systems Y1 - 2013 UR - http://www.diss.fu-berlin.de/diss/receive/FUDISS_thesis_000000094981 ER - TY - JOUR A1 - Bujotzek, Alexander A1 - Schütt, Ole A1 - Nielsen, Adam A1 - Fackeldey, Konstantin A1 - Weber, Marcus T1 - ZIBgridfree: Efficient Conformational Analysis by Partition-of-Unity Coupling JF - Journal of Mathematical Chemistry Y1 - 2014 U6 - https://doi.org/10.1007/s10910-013-0265-1 VL - 52 IS - 3 SP - 781 EP - 804 ER - TY - JOUR A1 - Shan, Min A1 - Carlson, Kathryn E. A1 - Bujotzek, Alexander A1 - Wellner, Anja A1 - Gust, Ronald A1 - Weber, Marcus A1 - Katzenellenbogen, John A. A1 - Haag, Rainer T1 - Nonsteroidal Bivalent Estrogen Ligands - An Application of the Bivalent Concept to the Estrogen Receptor JF - ACS Chem. Biol. Y1 - 2013 VL - 8 IS - 4 SP - 707 EP - 715 ER - TY - JOUR A1 - Shan, Min A1 - Bujotzek, Alexander A1 - Abendroth, Frank A1 - Seitz, Oliver A1 - Weber, Marcus A1 - Haag, Rainer T1 - Conformational Analysis of Bivalent Estrogen Receptor-Ligands: From Intramolecular to Intermolecular Binding JF - ChemBioChem, 12(17) Y1 - 2011 U6 - https://doi.org/10.1002/cbic.201100529 SP - 2587 EP - 2598 ER -