Publications of J. Söding

Journal Article (110)

61.
Journal Article
Sievers, F.; Wilm, A.; Dineen, D.; Gibson, T. J.; Karplus, K.; Li, W.; Lopez, R.; McWilliam, H.; Remmert, M.; Söding, J. et al.; Thompson, J. D.; Higgins, D. G.: Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Molecular Systems Biology 7, 539 (2011)
62.
Journal Article
Söding, J.; Remmert, M.: Protein sequence comparison and fold recognition: progress and good-practice benchmarking. Current Opinion in Structural Biology 21 (3), pp. 404 - 411 (2011)
63.
Journal Article
Frauer, C.; Rottach, A.; Meilinger, D.; Bultmann, S.; Fellinger, K.; Hasenoeder, S.; Wang, M.; Qin, W.; Söding, J.; Spada, F. et al.; Leonhardt, H.: Different binding properties and function of CXXC zinc finger domains in Dnmt1 and Tet1. PLoS One 6 (2), e16627 (2011)
64.
Journal Article
Lammens, K.; Bemeleit, D. J.; Moeckel, C.; Clausing, E.; Schele, A.; Hartung, S.; Schiller, C. B.; Lucas, M.; Angermueller, C.; Söding, J. et al.; Straesser, K.; Hopfner, K. P.: The Mre11:Rad50 structure shows an ATP-dependent molecular clamp in DNA double-strand break repair. Cell 145 (1), pp. 54 - 66 (2011)
65.
Journal Article
Armache, J. P.; Jarasch, A.; Anger, A. M.; Villa, E.; Becker, T.; Bhushan, S.; Jossinet, F.; Habeck, M.; Dindar, G.; Franckenberg, S. et al.; Marquez, V.; Mielke, T.; Thomm, M.; Berninghausen, O.; Beatrix, B.; Söding, J.; Westhof, E.; Wilson, D. N.; Beckmann, R.: Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-angstrom resolution. Proceedings of the National Academy of Sciences of the United States of America 107 (46), pp. 19748 - 19753 (2010)
66.
Journal Article
Armache, J. P.; Jarasch, A.; Anger, A. M.; Villa, E.; Becker, T.; Bhushan, S.; Jossinet, F.; Habeck, M.; Dindar, G.; Franckenberg, S. et al.; Marquez, V.; Mielke, T.; Thomm, M.; Berninghausen, O.; Beatrix, B.; Söding, J.; Westhof, E.; Wilson, D. N.; Beckmann, R.: Localization of eukaryote-specific ribosomal proteins in a 5.5-angstrom cryo-EM map of the 80S eukaryotic ribosome. Proceedings of the National Academy of Sciences of the United States of America 107 (46), pp. 19754 - 19759 (2010)
67.
Journal Article
Graebsch, A.; Roche, S.; Kostrewa, D.; Söding, J.; Niessing, D.: Of bits and bugs - On the use of bioinformatics and a bacterial crystal structure to solve a eukaryotic repeat-protein structure. PLoS One 5 (10), e13402 (2010)
68.
Journal Article
Mayer, A.; Lidschreiber, M.; Siebert, M.; Leike, K.; Söding, J.; Cramer, P.: Uniform transitions of the general RNA polymerase II transcription complex. Nature Structural and Molecular Biology 17 (10), pp. 1272 - 1278 (2010)
69.
Journal Article
Alva, V.; Remmert, M.; Biegert, A.; Lupas, A. N.; Söding, J.: A galaxy of folds. Protein Science 19 (1), pp. 124 - 130 (2010)
70.
Journal Article
Lasi, M.; Pauly, B.; Schmidt, N.; Cikala, M.; Stiening, B.; Kaesbauer, T.; Zenner, G.; Popp, T.; Wagner, A.; Knapp, R. T. et al.; Huber, A. H.; Grunert, M.; Söding, J.; David, C. N.; Boettger, A.: The molecular cell death machinery in the simple cnidarian Hydra includes an expanded caspase family and pro- and anti-apoptotic Bcl-2 proteins. Cell Research 20 (7), pp. 812 - 825 (2010)
71.
Journal Article
Remmert, M.; Biegert, A.; Linke, D.; Lupas, A. N.; Soeding, J.: Evolution of outer membrane beta-barrels from an ancestral beta beta hairpin. Molecular Biology and Evolution 27 (6), pp. 1348 - 1358 (2010)
72.
Journal Article
Biegert, A.; Söding, J.: Sequence context-specific profiles for homology searching. Proceedings of the National Academy of Sciences of the United States of America 106 (10), pp. 3770 - 3775 (2009)
73.
Journal Article
Bateman, A.; Finn, R. D.; Sims, P. J.; Wiedmer, T.; Biegert, A.; Söding, J.: Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors. Bioinformatics 25 (2), pp. 159 - 162 (2009)
74.
Journal Article
Biegert, A.; Söding, J.: A boost for sequence searching. G.I.T. Laboratory Journal 9-10, pp. 22 - 23 (2009)
75.
Journal Article
Hildebrand, A.; Remmert, M.; Biegert, A.; Söding, J.: Fast and accurate automatic structure prediction with HHpred. Proteins: Structure, Function, and Bioinformatics 77 (S9), pp. 128 - 132 (2009)
76.
Journal Article
Remmert, M.; Linke, D.; Lupas, A. N.; Söding, J.: HHomp-prediction and classification of outer membrane proteins. Nucleic Acids Research 37 (Suppl. 2), pp. W446 - W451 (2009)
77.
Journal Article
Agarwal, V.; Remmert, M.; Biegert, A.; Söding, J.: PDBalert: Automatic, recurrent remote homology tracking and protein structure prediction. BMC Structural Biology 8, 51 (2008)
78.
Journal Article
Jasiak, A. J.; Hartmann, H.; Karakasili, E.; Kalocsay, M.; Flatley, A.; Kremmer, E.; Strässer, K.; Martin, D. E.; Söding, J.; Cramer, P.: Genome-associated RNA polymerase II includes the dissociable Rpb4/7 subcomplex. The Journal of Biological Chemistry 283, pp. 26423 - 26427 (2008)
79.
Journal Article
Chaudhuri, I.; Söding, J.; Lupas, A. N.: Evolution of the beta-propeller fold. Proteins: Structure, Function, and Bioinformatics 71 (2), pp. 795 - 803 (2008)
80.
Journal Article
Biegert, A.; Söding, J.: De novo identification of highly diverged protein repeats by probabilistic consistency. Bioinformatics 24 (6), pp. 807 - 814 (2008)
Go to Editor View