Publication
Protein design and folding: Template trapping of self-assembled helical bundles
Related publications (82)
Inferring interaction partners from protein sequences using mutual information
Anne-Florence Raphaëlle Bitbol
Functional protein-protein interactions are crucial in most cellular processes. They enable multi-protein complexes to assemble and to remain stable, and they allow signal transduction in various pathways. Functional interactions between proteins result in ...
2018Unintended specificity of an engineered ligand-binding protein facilitated by unpredicted plasticity of the protein fold
Attempts to create novel ligand-binding proteins often focus on formation of a binding pocket with shape complementarity against the desired ligand (particularly for compounds that lack distinct polar moieties). Although designed proteins often exhibit bin ...
OXFORD UNIV PRESS2018Toward a unified scoring function for native state discrimination and drug-binding pocket recognition
Protein folding and receptor–ligand recognition are fundamental processes for any living organism. Although folding and ligand recognition are based on the same chemistry, the existing empirical scoring functions target just one problem: predicting the cor ...
2018Enhanced Student Learning in Proteomics - an Interactive Tool Support for Teaching Workflows
Teaching and learning support for bioinformatics has become a popular research area. Proteomics education can be bridged with technology enhancements such that tool support for protein structures experiments. Generally, students in proteomics require diffe ...
IEEE2018Molecular Imaging of Biopolymers Enabled by Electrospray-Ion Beam Deposition
Biomolecular functional complexes often serve as inspiration for the development of artificial molecular nanostructures. The functionality of the biomolecular structures is based on complex and adaptable binding motifs that have evolved over billions of ye ...
EPFL2017Molecular Effects of Concentrated Solutes on Protein Hydration, Dynamics, and Electrostatics
Matteo Dal Peraro, Luciano Andres Abriata, Enrico Spiga
Most studies of protein structure and function are performed in dilute conditions, but proteins typically experience high solute concentrations in their physiological scenarios and biotechnological applications. High solute concentrations have well-known e ...
Cell Press2016Middle-down approaches for mass spectrometry-based protein identification and characterization
Mass spectrometry (MS) has emerged over the last two decades as the analytical technique of choice in systems-level protein studies, known as proteomics. Two are the MS-based approaches generally applied to proteomics: bottom-up (BU), which relies on the p ...
EPFL2016Phage selection of chemically stabilized alpha-helical peptide ligands
Christian Heinis, Pierre Vincent Dessen, Philippe Diderich, Davide Bertoldo, Maola Khan Mohammad Golam
Short alpha-helical peptides stabilized by linkages between constituent amino acids offer an attractive format for ligand development. In recent years, a range of excellent ligands based on stabilized alpha-helices were generated by rational design using a ...
2016Extended Bottom-Up Proteomics with Secreted Aspartic Protease Sap9
Yury Tsybin, Kristina Srzentic, Unige Anna Laskay
We investigate the benefits and experimental feasibility of approaches enabling the shift from short (1.7 kDa on average) peptides in bottom-up proteomics to about twice longer (similar to 3.2 kDa on average) peptides in the so-called extended bottom-up pr ...
Elsevier Science Bv2014Mechanism to Trigger Unfolding in O6--Alkylguanine-DNA Alkyltransferase
Ursula Röthlisberger, Elizabeth Claire Brunk, Birgit Mollwitz
O6-alkylguanine-DNA alkyltransferase (AGT) adopts a non-enzymatic suicide mechanism for the repair of methylated guanine bases by transferring the methyl adduct to itself, thereby initiating unfolding and fast degradation. Classical molecular dynamics simu ...
Wiley-Blackwell2013