Publications
^{_{Protein Evolution}}

Zibat, A.; Zhang, X.; Dickmanns, A.; Stegmann, K.; Dobbelstein, A.; Alachram, H.; Soliwoda, R.; Salinas, G.; Görlich, D.; Kschischo, M. et al.; Wollnik, B.; Dobbelstein, M.: N4-hydroxycytidine, the active compound of Molnupiravir, promotes SARS-CoV-2 mutagenesis and escape from a neutralizing nanobody. iScience 26 (10), 107786 (2023)

Kaminski, K.; Ludwiczak, J.; Pawlicki, K.; Alva, V.; Dunin-Horkawicz, S.: pLM-BLAST: distant homology detection based on direct comparison of sequence representations from protein language models. Bioinformatics Epub ahead, btad579 (2023)

Martinez-Goikoetxea, M.; Lupas, A.: New protein families with hendecad coiled coils in the proteome of life. Journal of Structural Biology 215 (3), 108007 (2023)

Maksymenko, K.; Maurer, A.; Aghaallaei, N.; Barry, C.; Borbarán-Bravo, N.; Ullrich, T.; Dijkstra, T.; Hernandez-Alvarez, B.; Müller, P.; Lupas, A. et al.; Skokowa, J.; ElGamacy, M.: The design of functional proteins using tensorized energy calculations. Cell Reports Methods 3 (8), 100560 (2023)

Podobnik, M.; Singh, A.; Fu, Z.; Dooley, C.; Frohnhöfer, H.; Firlej, M.; Stednitz, S.; Elhabashy, H.; Weyand, S.; Weir, J. et al.; Lu, J.; Nüsslein-Volhard, C.; Irion, U.: kcnj13 regulates pigment cell shapes in zebrafish and has diverged by cis-regulatory evolution between Danio species. Development 150 (16), dev.201627 (2023)

Wu, Y.; Chen, K.-W.; Li, Y.-N.; Qiu, K.-Y.; Lu, G.; Shu, T.; Sun, T.-Y.; Hou , Z.-Q.; Wu, Y.-D.; Yu, L.-J.: Propeptide-Mediated Allosteric Regulation of Xylanase Xyl-1: An Integrated Experimental and Computational Analysis. Journal of Agricultural and Food Chemistry 71 (30), pp. 11692 - 11703 (2023)

Alexander, L.; Durairaj, J.; Kryshtafovych, A.; Abriata, L.; Bayo, Y.; Bhabha, G.; Breyton, C.; Caulton, S.; Chen, J.; Degroux, S. et al.; Ekiert, D.; Erlandsen, B.; Freddolino, P.; Gilzer, D.; Greening, C.; Grimes, J.; Grinter, R.; Gurusaran, M.; Hartmann, M.; Hitchman, C.; Keown, J.; Kropp, A.; Kursula, P.; Lovering, A.; Lemaitre, B.; Lia, A.; Liu, S.; Logotheti, M.; Lu, S.; Markússon, S.; Miller, M.; Minasov, G.; Niemann, H.; Opazo, F.; Phillips jr, G.; Davies, O.; Rommelaere, S.; Rosas-Lemus, M.; Roversi, P.; Satchell, K.; Smith, N.; Wilson, M.; Wu, K.-L.; Xia, X.; Xiao, H.; Zhang, W.; Zhou, Z.; Fidelis, K.; Topf, M.; Moult, J.; Schwede, T.: Protein target highlights in CASP15: Analysis of models by structure providers. Proteins: Structure, Function, and Bioinformatics Epub ahead (2023)

Braun, V.; Ratcliff, A.; Celia, H.; Buchanan, S.: Energization of Outer Membrane Transport by the ExbB ExbD Molecular Motor. Journal of Bacteriology 205 (6), e0003523 (2023)

Grandchamp, A.; Kühl, L.; Lebherz, M.; Brüggemann, K.; Parsch, J.; Bornberg-Bauer, E.: Population genomics reveals mechanisms and dynamics of de novo expressed open reading frame emergence in Drosophila melanogaster. Genome Research 33 (6), pp. 872 - 890 (2023)

Fuchs, A.: Specific, sensitive and quantitative protein detection by in-gel fluorescence. Nature Communications 14 (1), 2505 (2023)

Böhning, J.; Dobbelstein, A.; Sulkowski, N.; Eilers, K.; von Kügelgen, A.; Tarafder, A.; Peak-Chew, S.-Y.; Skehel, M.; Alva, V.; Filloux, A. et al.; Bharat, T.: Architecture of the biofilm-associated archaic Chaperone-Usher pilus CupE from Pseudomonas aeruginosa. PLoS Pathogens 19 (4), e1011177 (2023)

Heames, B.; Buchel, F.; Aubel, M.; Tretyachenko, V.; Loginov, D.; Novák, P.; Lange, A.; Bornberg-Bauer, E.; Hlouchová, K.: Experimental characterization of de novo proteins and their unevolved random-sequence counterparts. Nature Ecology & Evolution 7 (4), pp. 570 - 580 (2023)

Iyengar, B.; Bornberg-Bauer, E.: Neutral models of de novo gene emergence suggest that gene evolution has a preferred trajectory. Molecular Biology and Evolution 40 (4), msad079 (2023)

von Kügelgen, A.; van Dorst, S.; Yamashita, K.; Sexton, D.; Tocheva, E.; Murshudov, G.; Alva, V.; Bharat, T.: Interdigitated immunoglobulin arrays form the hyperstable surface layer of the extremophilic bacterium Deinococcus radiodurans. Proceedings of the National Academy of Sciences of the United States of America 120 (16), e2215808120 (2023)

Aubel, M.; Eicholt, L.; Bornberg-Bauer, E.: Assessing structure and disorder prediction tools for de novo emerged proteins in the age of machine learning. F1000Research (2023)

Kuchta, R.; Heim, C.; Herrmann, A.; Maiwald, S.; Ng, Y.; Sosič, I.; Keuler, T.; Krönke, J.; Gütschow, M.; Hartmann, M. et al.; Steinebach, C.: Accessing three-branched high-affinity cereblon ligands for molecular glue and protein degrader design. RSC Chemical Biology 4 (3), pp. 229 - 234 (2023)

Aubel, M.; Bornberg-Bauer, E.: Introducing creative destruction as a mechanism in protein evolution. Proceedings of the National Academy of Sciences of the United States of America 120 (6), e2220460120 (2023)

Mantovani, O.; Haffner, M.; Selim, K.; Hagemann, M.; Forchhammer, K.: Roles of second messengers in the regulation of cyanobacterial physiology: the carbon-concentrating mechanism and beyond. microLife 4, uqad008 (2023)

Selim, K.; Haffner, M.; Mantovani, O.; Albrecht, R.; Zhu, H.; Hagemann, M.; Forchhammer, K.; Hartmann, M.: Carbon signaling protein SbtB possesses atypical redox-regulated apyrase activity to facilitate regulation of bicarbonate transporter SbtA. Proceedings of the National Academy of Sciences of the United States of America 120 (8), e2205882120 (2023)

Selim, K.; Zimmer, E.: SbtB: der fehlende Sensor für anorganischen Kohlenstoff in Cyanobakterien. Biospektrum 29 (2), pp. 140 - 143 (2023)