Pareto trade-offs in nanobody binding affinity and its correlation with the geometry of nanobody–antigen structural space
Nanobodies (Nb), truncated versions of heavy-chain–only antibodies from camelids, are the smallest known antigen (Ag)-binding protein fragments and therefore represent a more traceable system for understanding the principles that determine antibody binding affinity. We...
This introductory session provides a foundational overview of nanobody (VHH) libraries and their role in binder discovery. Participants will learn the key differences between immune libraries (from antigen-immunized animals), naïve or pre-immune libraries (from non-immunized sources), and synthetic libraries (constructed through targeted sequence design and CDR randomization).
The session...
Recent advances in high-throughput sequencing and structure prediction have enabled “virtual panning” of naïve nanobody (VHH) repertoires. This session reviews the core modules of computational nanobody discovery: repertoire profiling via MiXCR and clonotype clustering, homology modeling with NanobodyBuilder2 and ColabFold/Boltz1, and docking benchmarking of published VHH–antigen complexes...
In the hands-on workshop, participants rotate through brief, guided exercises:
- Processing VHH sequences and clustering clonotypes with MiXCR;
- Building and comparing VHH models side-by-side using NanobodyBuilder2 vs. ColabFold/Boltz1;
- Visualizing antigen–VHH interfaces;
- Interpreting ZDock/Boltz-1 predictions via DockQ scores;
- Exploring CDR motif distributions from MiXCR...
In the practical part of the workshop, participants will gain hands-on experience with phage display-based nanobody panning. Working in small groups, they will perform a selection round using a nanobody (VHH) library and a chosen model antigen immobilized on a solid surface. The goal is to enrich for nanobody clones that specifically bind the target.
The workflow includes incubation of the...
In the practical part of the workshop, participants will gain hands-on experience with phage display-based nanobody panning. Working in small groups, they will perform a selection round using a nanobody (VHH) library and a chosen model antigen immobilized on a solid surface. The goal is to enrich for nanobody clones that specifically bind the target.
The workflow includes incubation of the...
In the practical part of the workshop, participants will gain hands-on experience with phage display-based nanobody panning. Working in small groups, they will perform a selection round using a nanobody (VHH) library and a chosen model antigen immobilized on a solid surface. The goal is to enrich for nanobody clones that specifically bind the target.
The workflow includes incubation of the...
In the practical part of the workshop, participants will gain hands-on experience with phage display-based nanobody panning. Working in small groups, they will perform a selection round using a nanobody (VHH) library and a chosen model antigen immobilized on a solid surface. The goal is to enrich for nanobody clones that specifically bind the target.
The workflow includes incubation of the...
Nanobodies (Nbs) from pre-immune libraries could exhibit deficiencies in biophysical properties, such as stability and affinity, necessitating an optimization step. This can be achieved either in vitro through controlled mutagenesis followed by another round of panning or in silico by proposing variants. This approach, which involves screening multiple single-site variants, may demand...
Nanobodies (VHHs) have proved to be valid substitutes of conventional IgG antibodies in basic research and diagnostics, and they are actively tested to confirm their therapeutic potential. Because of their size (~125 amino acids), significantly smaller than that of ordinary antibodies, VHHs can be modelled in silico in relatively short time with the current computational resources.
In this...
More information to follow.
Session in which PhD students present their current work or problem they want to develop, and get feedback from lecturers and peers.
Nanobodies, also known as single-domain antibody fragments derived from camelid heavy-chain antibodies, have emerged as valuable tools in structural biology. Due to their small size, high stability, and strong binding affinity, nanobodies serve effectively as crystallization chaperones, aiding in the formation of well-ordered crystals.
Their ability to recognize specific epitopes on target...
Advanced microscopy techniques are continually redefining how we study biological systems, offering unprecedented spatial and temporal resolution. In super-resolution fluorescence microscopy, spatial resolution can reach the scale of tens of nanometers. However, as optical resolution improves, molecular labeling is increasingly becoming the limiting factor.
In this talk, we will focus on how...
Session in which PhD students present their current work or problem they want to develop, and get feedback from lecturers and peers.
Session in which PhD students present their current work or problem they want to develop, and get feedback from lecturers and peers.
