SuperLooper - a prediction server for the modeling of loops in globular and membrane proteins. - Peter Werner Hildebrand; Andrean Goede; Raphael A. Bauer; Björn A. Grüning; Jochen Ismer; Elke Michalsky; Robert Preissner (Nucleic Acids Res., 2009)

RHYTHM - a server to predict the orientation of transmembrane helices in channels and membrane-coils. - Alexander S. Rose; Stephan Lorenzen; Andrean Goede; Björn A. Grüning; Peter Werner Hildebrand (Nucleic Acids Res., 2009)

Voronoia: analyzing packing in protein structures. - Kristian Rother; Peter Werner Hildebrand; Andrean Goede; Björn A. Grüning; Robert Preissner (Nucleic Acids Res., 2009)

MPlot - a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins. - Alexander S. Rose; Andrean Goede; Peter Werner Hildebrand (Nucleic Acids Res., 2010)

Voronoia4RNA - a database of atomic packing densities of RNA structures and their complexes. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Andrean Goede; Kristian Rother; Peter Werner Hildebrand (Nucleic Acids Res., 2013)

MP: PD - a data base of internal packing densities, internal packing defects and internal waters of helical membrane proteins. - Alexander S. Rose; Dominic Theune; Andrean Goede; Peter Werner Hildebrand (Nucleic Acids Res., 2014)

NGL Viewer: a web application for molecular visualization. - Alexander S. Rose; Peter W. Hildebrand (Nucleic Acids Res., 2015)

SL2: an interactive webtool for modeling of missing segments in proteins. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Andrean Goede; Robert Preissner; Peter W. Hildebrand (Nucleic Acids Res., 2016)

A fragment based method for modeling of protein segments into cryo-EM density maps. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Peter W. Hildebrand (BMC Bioinform., 2017)

GPCR-SSFE 2.0 - a fragment-based molecular modeling web tool for Class A G-protein coupled receptors. - Catherine L. Worth; Franziska Kreuchwig; Johanna K. S. Tiemann; Annika Kreuchwig; Michele Ritschel; Gunnar Kleinau; Peter W. Hildebrand; Gerd Krause (Nucleic Acids Res., 2017)

FragFit: a web-application for interactive modeling of protein segments into cryo-EM density maps. - Johanna K. S. Tiemann; Alexander S. Rose; Jochen Ismer; Mitra D. Darvish; Tarek Hilal; Christian M. T. Spahn; Peter W. Hildebrand (Nucleic Acids Res., 2018)

HomolWat: a web server tool to incorporate 'homologous' water molecules into GPCR structures. - Eduardo Mayol; Adrián García-Recio; Johanna K. S. Tiemann; Peter W. Hildebrand; Ramon Guixà-González; Mireia Olivella; Arnau Cordomí (Nucleic Acids Res., 2020)

Voronoia 4-ever. - René Staritzbichler; Nikola Ristic; Andrean Goede; Robert Preissner; Peter Werner Hildebrand (Nucleic Acids Res., 2021)

MDsrv: visual sharing and analysis of molecular dynamics simulations. - Michelle Kampfrath; René Staritzbichler; Guillermo Pérez Hernández; Alexander S. Rose; Johanna K. S. Tiemann; Gerik Scheuermann; Daniel Wiegreffe; Peter W. Hildebrand (Nucleic Acids Res., 2022)

AlignMe: an update of the web server for alignment of membrane protein sequences. - René Staritzbichler; Emily Yaklich; Edoardo Sarti; Nikola Ristic; Peter W. Hildebrand; Lucy R. Forrest (Nucleic Acids Res., 2022)

SmoothT - a server constructing low-energy pathways from conformational ensembles for interactive visualization and enhanced sampling. - René Staritzbichler; Nikola Ristic; Tülin Stapke; Peter W. Hildebrand (Bioinform., 2023)

mdciao: Accessible Analysis and Visualization of Molecular Dynamics Simulation Data. - Guillermo Pérez Hernández; Peter W. Hildebrand (PLoS Comput. Biol., 2025)