Publications of J. Söding

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)

Biegert, A.; Söding, J.: A boost for sequence searching. G.I.T. Laboratory Journal 9-10, pp. 22 - 23 (2009)

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)

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)

Agarwal, V.; Remmert, M.; Biegert, A.; Söding, J.: PDBalert: Automatic, recurrent remote homology tracking and protein structure prediction. BMC Structural Biology 8, 51 (2008)

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)

Chaudhuri, I.; Söding, J.; Lupas, A. N.: Evolution of the beta-propeller fold. Proteins: Structure, Function, and Bioinformatics 71 (2), pp. 795 - 803 (2008)

Biegert, A.; Söding, J.: De novo identification of highly diverged protein repeats by probabilistic consistency. Bioinformatics 24 (6), pp. 807 - 814 (2008)

Fischer, J. D.; Mayer, C. E.; Söding, J.: Prediction of protein functional residues from sequence by probability density estimation. Bioinformatics 24 (5), pp. 613 - 620 (2008)

Hsiao, N. H.; Söding, J.; Linke, D.; Lange, C.; Hertweck, C.; Wohlleben, W.; Takano, E.: ScbA from Streptomyces coelicolor A3(2) has homology to fatty acid synthases and is able to synthesize-butyrolactones. Microbiology/SGM 153 (5), pp. 1394 - 1404 (2007)

Alva, V.; Ammelburg, M.; Söding, J.; Lupas, A. N.: On the origin of the histone fold. BMC Structural Biology 7, 17 (2007)

Karpenahalli, M. R.; Lupas, A. N.; Söding, J.: TPRpred: A tool for prediction of TPR-, PPR- and SELI-like repeats from protein sequences. BMC Bioinformatics 8, 2 (2007)

Gruber, M.; Söding, J.; Lupas, A. N.: Comparative analysis of coiled-coil prediction methods. Journal of Structural Biology 155 (2), pp. 140 - 145 (2006)

Biegert, A.; Mayer, C.; Remmert, M.; Söding, J.; Lupas, A. N.: The MPI Bioinformatics toolkit for protein sequence analysis. Nucleic Acids Research (London) 34, pp. W335 - W339 (2006)

Söding, J.; Remmert, M.; Biegert, A.: HHrep: de novo protein repeat detection and the origin of TIM barrels. Nucleic Acids Research (London) 34, pp. W137 - W142 (2006)

Söding, J.; Remmert, M.; Biegert, A.; Lupas, A. N.: HHsenser: Exhaustive transitive profile search using HMM-HMM comparison. Nucleic Acids Research (London) 34, pp. W374 - W378 (2006)

Albrecht, R.; Zeth, K.; Söding, J.; Lupas, A.; Linke, D.: Expression, crystallization and preliminary X-ray crystallographic studies of the outer membrane protein OmpW from Escherichia coli. Acta Crystallographica Section F: Structural Biology and Crystallization Communications 62 (4), pp. 415 - 418 (2006)

Coles, M.; Djuranovic, S.; Söding, J.; Frickey, T.; Koretke, K.; Truffault, V.; Martin, J.; Lupas, A. N.: AbrB-like transcription factors assume a swapped hairpin fold that is evolutionarily related to double-psi beta barrels. Structure 13 (6), pp. 919 - 928 (2005)

Gruber, M.; Söding, J.; Lupas, A. N.: REPPER-repeats and their periodicities in fibrous proteins. Nucleic Acids Research (London) 33, pp. W239 - W243 (2005)

Moussian, B.; Söding, J.; Schwarz, H.; Nüsslein-Volhard, C.: Retroactive, a membrane-anchored extracellular protein related to vertebrate snake neurotoxin-like proteins, is required for cuticle organization in the larva of Drosophila melanogaster. Developmental Dynamics 233 (3), pp. 1056 - 1063 (2005)