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Publications of iGRASPseed Scholars

Our iGRASPseed fellows contributed to several publications in Scientific Journals, but also in books. Please find a lists of all publications:

  • Viennet, T., Wördehoff, M. M., Uluca, B., Poojari, C., Shaykhalishani, H., Willbold, D., Strodel, B., Heise, H., Buell, A.K., Hoyer, W., Etzkorn, M. (2018) Structural insights from lipid-bilayer nanodiscs link α-Synuclein membrane-binding modes to amyloid fibril formation. Communications Biology DOI: 10.1038/s42003-018-0049-z
  • Clemens, R., Zaschke-Kriesche, J., Khosa S., Smits S.H.J. (2018) Insight into two ABC transporter families involved in lantibiotic resistance. Front. Mol. Biosci. DOI:10.3389/fmolb.2017.00091 
  • Goel, P., Jumpertz, T., Tichá, A., Ogorek, I., Mikles, D.C., Hubalek, M., Pietrzik, C.U., Strisovsky, K., Schmidt, B., Weggen, S. (2018) "Discovery and validation of 2-styryl substituted benzoxazin-4-ones as a novel scaffold for rhomboid protease inhibitors." Biorg Med Chem Lett DOI: 10.1016/j.bmcl.2018.02.017
  • Goel, P., Jumpertz, T., Mikles, D.C., Tichá, A., Nguyen, M.T.N., Verhelst, S., Hubalek, M., Johnson, D.C., Bachovchin, D.A., Ogorek, I., Pietrzik, C.U., Strisovsky, K., Schmidt, B., Weggen, S. (2017) "Discovery and Biological Evaluation of Potent and Selective N-Methylene Saccharin-Derived Inhibitors for Rhomboid Intramembrane Proteases." Biochemistry 56(51):6713-6725.
  • Bakkes, P.J., Riehm, J.L., Sagadin, T., Rühlmann, A., Schubert, P., Biemann, S., Girhard, M., Hutter, M.C., Bernhardt, R., Urlacher, V. B. (2017) "Engineering of versatile redox partner fusions that support monooxygenase activity of functionally diverse cytochrome P450s." Sci Rep 7:9570
  • Schillinger, O., Panwalkar., V., Strodel, B., Dingley, A.J. (2017) "Molecular Dynamics Simulations Reveal Key Roles of the Interleukin-6 Alpha Receptor in the Assembly of the Human Interleukin-6 Receptor Complex." J Phys Chem B 121:8113-8122
  • Minges, A., Groth, G. (2017) "Small-molecule inhibition of pyruvate phosphate dikinase targeting the nucleotide binding site." PLoS One 12:e0181139
  • Minges, A., Höppner, A., Groth, G. (2017) "Trapped intermediate state of plant pyruvate phosphate dikinase indicates substeps in catalytic swiveling domain mechanism." Protein Sci 26(8):1667-1673
  • Ciupka, D., Gohlke, H. (2017) "On the potential alternate binding change mechanism in a dimeric structure of Pyruvate Phosphate Dikinase". Sci. Rep. 7: 8020
  • Bramski, J., Dick, M., Classen, T., Pietruszka, P. (2017) "Probing the Acetaldehyde-Sensitivity of 2-Deoxy-ribose-5-phosphate Aldolase (DERA) Leads to Resistant Variants" J Biotechnol
  • Minges, A., Ciupka, D., Winkler, C., Höppner, A., Gohlke, H. and Groth, G. (2017) "Structural intermediates and directionality of the swiveling motion of Pyruvate Phosphate Dikinase". Sci. Rep. 7: 45389.
  • Rühlmann, A., Antovic, D., Müller, T.J.J., Urlacher, V. (2017) "Regioselective Hydroxylation of Stilbenes by Engineered Cytochrome P450 from Thermobifida fusca YX". Adv Synth Catal DOI:10.1002/adsc.201601168
  • Kaschner, M., Schillinger, O., Fettweis, T., Nutschel, C., Krause, F., Fulton, A.D., Strodel, B., Stadler, A., Jaeger, K.-E., Krauss, U. (2017). "A combination of mutational and computational scanning guides the design of an artificial ligand-binding controlled lipase OPEN" Sci Rep 7:42592 
  • Nouri, K., Fansa, E.K., Amin, E., Nakhaei-Rad, S., Dvorsky, R., Gremer, L., Timson, D.J., Schmitt, L., Häussinger, D., Ahmadian, M.R. (2016). "IQGAP1 interaction with RHO family proteins revisited: kinetic and equilibrium evi-dence for two distinct binding sites." J Biol Chem 291(51):26364-26376
  • Amin, E., Jaiswal, M., Derewenda, U., Reis, K., Nouri, K., Aspenström, P., Somlyo, A., Dvorsky, R., Ahmadian, MR. (2016). "Deciphering the molecular and functional basis of the RhoGAP family proteins: A systematic approach towards selective inactivation of the Rho family proteins." J Biol Chem. 23:291:20353-71
  • Thomaier, M., Gremer, L., Dammers, C., Fabig, J., Neudecker, P., Willbold, D. (2016). "High-affinity binding of monomeric but not oligomeric amyloid-β to ganglioside GM1 containing nanodiscs."  Biochemistry 55(48):6662-667
  • Viegas, A., Viennet, T., Etzkorn, M. (2016). "The power, pitfalls and potential of the nanodisc system for NMR-based studies." Journal of Biological Chemistry 397(12):1335-1354
  • Viennet, T., Viegas, A., Kuepper, A., Arens, S., Gelev, V., Petrov, O., Grossmann, T.N., Heise, H., Etzkorn, M. (2016). "Selective protein hyperpolarization in cell lysates using targeted dynamic nuclear polarization" Angew Chem Int Ed Engl. 55(36): 10746-10750
  • Khosa, S., Lagedroste, M., Smits, S. (2016). "Protein defense systems against the lantibiotic nisin: Function of the immunity protein NisI and the resistance protein NSR." Frontiers in Microbiology 7:504
  • Viegas, A., Viennet, T., Yu, T. Y., Schumann, F., Bermel, W., Wagner, G. and Etzkorn, M. (2016). "UTOPIA NMR: activating unexploited magnetization using interleaved low-gamma detection." Journal of Biomolecular NMR 64(1): 9-15.
  • Khosa, S., Hoeppner, A., Gohlke, H., Schmitt, L. and Smits, S. H. (2016). "Structure of the response regulator NsrR from Streptococcus agalactiae, which is involved in lantibiotic resistance." PloS ONE 11(3): e0149903.
  • Khosa, S., Frieg, B., Mulnaes, D., Kleinschrodt, D., Hoeppner, A., Gohlke, H. and Smits, S. H. (2016). "Structural basis of lantibiotic recognition by the nisin resistance protein from Streptococcus agalactiae." Scientific reports 6: 18679.
  • Dick, M., Weiergraber, O. H., Classen, T., Bisterfeld, C., Bramski, J., Gohlke, H. and Pietruszka, J. (2016). "Trading off stability against activity in extremophilic aldolases." Scientific reports 6:17908.
  • Dick, M., Hartmann, R., Weiergraber, O. H., Bisterfeld, C., Classen, T., Schwarten, M., Neudecker, P., Willbold, D. and Pietruszka, J. (2016). "Mechanism-based inhibition of an aldolase at high concentrations of its natural substrate acetaldehyde: structural insights and protective strategies." Chemical Science 7:4492-4502
  • Bisterfeld, C., Küberl, I., Dick, M. and Pietruszka, J. (2016). "A fluorogenic screening for enantio- and diastereoselectivity of 2-deoxy-d-ribose-5-phosphate aldolases." Synlett 27(1): 11-16.
  • Wördehoff, M. M., Bannach, O., Shaykhalishahi, H., Kulawik, A., Schiefer, S., Willbold, D., Hoyer, W. and Birkmann, E. (2015). "Single fibril growth kinetics of alpha-synuclein." Journal of Molecular Biology 427(6): 1428-1435.
  • Wildberg, A., Della Corte, D. and Schröder, G. F. (2015). "Coupling an ensemble of homologues improves refinement of protein homology models." J Chem Theory Comput 11(12): 5578-82.
  • Shaykhalishahi, H., Mirecka, E., Gauhar, A., Gruning, C., Wördehoff, M., Feuerstein, S., Stoldt, M., Hard, T., Willbold, D. and Hoyer, W. (2015). "Engineered binding proteins to amyloidogenic intrinsically disordered proteins." Protein Science 24: 123-123.
  • Shaykhalishahi, H., Gauhar, A., Wördehoff, M. M., Gruning, C. S. R., Klein, A. N., Bannach, O., Stoldt, M., Willbold, D., Hard, T. and Hoyer, W. (2015). "Contact between the 1 and 2 segments of alpha-synuclein that inhibits amyloid formation." Angewandte Chemie-International Edition 54(30): 8837-8840.
  • Sanabria, H., Tsytlonok, M., Wang, Y. F., Park, C. G., Felekyan, S., Hemmen, K., Tompa, P. and Seidel, C. A. M. (2015). "Post-translational modification of P27 regulates signal transmission via a dynamic interaction with Cdk2/Cyclin." Biophysical Journal 108(2): 193a-193a.
  • Nouri, K., Moll, J. M., Milroy, L. G., Hain, A., Dvorsky, R., Amin, E., Lenders, M., Nagel-Steger, L., Howe, S., Smits, S. H., Hengel, H., Schmitt, L., Munk, C., Brunsveld, L. and Ahmadian, M. R. (2015). "Biophysical characterization of nucleophosmin interactions with human immunodeficiency virus Rev and Herpes Simplex Virus US11." PloS ONE 10(12): e0143634.
  • Ma, P., Schillinger, O., Schwarten, M., Lecher, J., Hartmann, R., Stoldt, M., Mohrluder, J., Olubiyi, O., Strodel, B., Willbold, D. and Weiergraber, O. H. (2015). "Conformational polymorphism in autophagy-related protein GATE-16." Biochemistry 54(35): 5469-5479.
  • Kubiak, J., Kovacic, F., Dollinger, P., Bleffert, F., Jaeger, K. E., Gohlke, H. and Seidel, C. A. M. (2015). "Conformational fluctuations as an intrinsic mechanism of action of lipase foldase studied by the high-precision FRET toolkit and MD simulations." Biophysical Journal 108(2): 211a-212a.
  • Khosa, S., Hoeppner, A., Kleinschrodt, D. and Smits, S. H. (2015). "Overexpression, purification, crystallization and preliminary X-ray diffraction of the nisin resistance protein from Streptococcus agalactiae." Acta crystallographica. Section F, Structural biology communications 71(Pt 6): 671-5.
  • Khosa, S., Hoeppner, A., Kleinschrodt, D. and Smits, S. H. (2015). "Overexpression, purification and crystallization of the response regulator NsrR involved in nisin resistance." Acta crystallographica. Section F, Structural biology communications 71(Pt 10): 1322-6.
  • Della Corte, D., Wildberg, A. and Schroder, G. F. (2015). "Protein structure refinement with adaptively restrained homologous replicas." Proteins.
  • Chen, H., Daletos, G., Abdel-Aziz, M. S., Thomy, D., Dai, H., Brötz-Oesterhelt, H., Lin, W. and Proksch, P. (2015). "Inducing secondary metabolite production by the soil-dwelling fungus Aspergillus terreus through bacterial co-culture." Phytochem. Letters 12: 35-41.
  • Caye, A., Strullu, M., Guidez, F., Cassinat, B., Gazal, S., Fenneteau, O., Lainey, E., Nouri, K., Nakhaei-Rad, S., Dvorsky, R., Lachenaud, J., Pereira, S., Vivent, J., Verger, E., Vidaud, D., Galambrun, C., Picard, C., Petit, A., Contet, A., Poiree, M., Sirvent, N., Mechinaud, F., Adjaoud, D., Paillard, C., Nelken, B., Reguerre, Y., Bertrand, Y., Haussinger, D., Dalle, J. H., Ahmadian, M. R., Baruchel, A., Chomienne, C. and Cave, H. (2015). "Juvenile myelomonocytic leukemia displays mutations in components of the RAS pathway and the PRC2 network." Nat Genet 47(11): 1334-40.
  • Thakur, H. C., Singh, M., Nagel-Steger, L., Kremer, J., Prumbaum, D., Fansa, E. K., Ezzahoini, H., Nouri, K., Gremer, L., Abts, A., Schmitt, L., Raunser, S., Ahmadian, M. R. and Piekorz, R. P. (2014). "The centrosomal adaptor TACC3 and the microtubule polymerase chTOG interact via defined C-terminal subdomains in an Aurora-A kinase-independent manner." J Biol Chem 289(1): 74-88.
  • Taha, M. S., Nouri, K., Milroy, L. G., Moll, J. M., Herrmann, C., Brunsveld, L., Piekorz, R. P. and Ahmadian, M. R. (2014). "Subcellular fractionation and localization studies reveal a direct interaction of the fragile X mental retardation protein (FMRP) with nucleolin." PloS ONE 9(3): e91465.
  • Sanabria, H., Rodnin, D., Fleissner, M., Kalinin, S., Felekyan, S., Hemmen, K., Peulen, T., Koberling, F., Kuhnemuth, R., Gohlke, H., Hubbell, W. and Seidel, C. A. M. (2014). "Visualizing structures, dynamics and function of enzymes." Biophysical Journal 106(2): 663a-663a.
  • Muller, H., Brener, O., Andreoletti, O., Piechatzek, T., Willbold, D., Legname, G. and Heise, H. (2014). "Progress towards structural understanding of infectious sheep PrP-amyloid." Prion 8(5): 344-358.
  • Hemmen, K., Rodnin, D., Rohrbeck, D., Adariani, S. R., Sanabria, H. and Seidel, C. A. M. (2014). "Deciphering folding pathways of phage T4 lysozyme: Influence of multiple conformations." Biophysical Journal 106(2): 259a-259a.
  • Zhang, S. C., Nouri, K., Amin, E., Taha, M. S., Nakhaeizadeh, H., Nakhaei-Rad, S., Dvorsky, R. and Ahmadian, M. R. (2014). "Classical Rho Proteins: Biochemistry of Molecular Switch Function and Regulation." In: RAS Superfamily small G Proteins,  Biology and Mechanism 1, Chapter 14, pp. 327-340, A. Wittinghofer (Ed.), Springer Verlag
  • Tasch, B. O. A., Bensch, L., Antovic, D. and Müller, T. J. J. (2013). "Masuda borylation-Suzuki coupling (MBSC) sequence of vinylhalides and its application in a one-pot synthesis of 3,4-biarylpyrazoles." Organic & Biomolecular Chemistry 11(36): 6113-6118.
  • Tasch, B. O. A., Antovic, D., Merkul, E. and Müller, T. J. J. (2013). "One-Pot synthesis of camalexins and 3,3 '-biindoles by the masuda borylation-suzuki arylation (MBSA) sequence." European Journal of Organic Chemistry 2013(21): 4564-4569.
  • Sanabria, H., Hemmen, K., Rohrbeck, D., Rodnin, D., Kalinin, S., Felekyan, S. and Seidel, C. A. M. (2013). "Temporal dynamics and FRET restrained modeling of an "invisible" excited state of T4 lysozyme." Biophysical Journal 104(2): 346a-346a.
  • Ola, A. R., Thomy, D., Lai, D., Brötz-Oesterhelt, H. and Proksch, P. (2013). "Inducing secondary metabolite production by the endophytic fungus Fusarium tricinctum through coculture with Bacillus subtilis." J Nat Prod 76(11): 2094-9.
  • Khosa, S., AlKhatib, Z. and Smits, S. H. (2013). "NSR from Streptococcus agalactiae confers resistance against nisin and is encoded by a conserved nsr operon." Biological chemistry 394(11): 1543-9.
  • Gruning, C. S. R., Klinker, S., Wolff, M., Schneider, M., Toksoz, K., Klein, A. N., Nagel-Steger, L., Willbold, D. and Hoyer, W. (2013). "The off-rate of monomers dissociating from amyloid-beta protofibrils." Journal of Biological Chemistry 288(52): 37104-37111.