BonvinLab
Welcome!
The Utrecht Biomolecular Interactions software portal provides access to software tools developed in the Computational Structural Biology group / NMR Research Group of Utrecht University with a main focus on the characterization of biomolecular interactions. Please note that this site is in active development.
Research
Research within the computational structural biology group focuses on the development of reliable bioinformatic and computational approaches to predict, model and dissect biomolecular interactions at atomic level.
For this, bioinformatic data, structural information and available biochemical or biophysical experimental data are combined to drive the modelling process. By following a holistic approach integrating various experimental information sources with computational structural biology methods we aim at obtaining a comprehensive description of the structural and dynamic landscape of complex biomolecular machines, adding the structural dimension to interaction networks and opening the route to systematic and genome-wide studies of biomolecular interactions.
Services
HADDOCK v2.4
HADDOCK is an integrative platform for the modeling of biomolecular complexes. It supports a large variety of input data and can deal multi-component assembles of proteins, peptide, small molecules and nucleic acids.
Go to serviceHADDOCK v2.5
We are working on a new and modern interface for HADDOCK! Soon we will make it availble for everyone stay tuned!
🚧 Team testing 🚧
Prodigy
PRODIGY predicts the binding affinity of protein-protein and protein-small molecules complexes and also allows to classify crystallographic interfaces as biological or not.
Go to service
proABC-2
proABC-2 predicts which residues of an antibody are forming intermolecular contacts with its cognate antigen.
Go to service
DISVIS
DISVIS quantifies and visualizes the information content of distance restraints between two molecules.
Go to service
WHISCY
WHISCY predicts protein-protein interfaces, based primarily on conservation, but also taking into account structural information.
Go to service
FANDAS
Fast Analysis of multidimensional NMR DAta Sets (FANDAS) is a tool to predict peaks for multidimensional NMR experiments on proteins.
Go to service
Software
FCC Clustering
FCC Clustering is a tool to cluster protein structures based on their shape complementarity.
Go to software
Benchmark and Datasets
Prot-DNA Docking
Our Protein-DNA benchmark contains 47 unbound-unbound test cases of a varying degree of difficulty. Visit the site to read more and download the benchmark.
Go to benchmark
Binding Affinity
We present a protein−protein binding affinity benchmark consisting of binding constants (Kd’s) for 81 complexes.
Go to benchmark
Learn More
Powered by
This website uses cookies solely for authentication purposes to enable access to our scientific web services. By continuing to use our site, you acknowledge and agree to the necessary use of these cookies for accessing our services.