Abridged Agenda

We are very thankful with our sponsors who contribute with our event!

Wednesday 25 – Friday 27 November 2026 · All times are CET (UTC+1)

ELIXIR 3D-BioInfo Annual General Meeting (AGM) Wednesday 25 November, 12:00 CET → Friday 27 November, 12:30 CET The AGM runs from the opening reception on Wednesday to the closing session on Friday. Every session that is part of the AGM is marked with an orange bar on the left of the programme below.

Wednesday 25 November 2026

ELIXIR 3D-BioInfo AGM opens · 12:00 CET
12:00–13:30	Reception and lunch
13:30–14:00	Activity 1: Infrastructure and Protein Annotation Scaling AI protein structure prediction to virology Joe Grove, University of Glasgow, UK
14:00–14:30	Activity 1: Infrastructure and Protein Annotation RIVET: attaching literature context to protein residues Melanie Vollmar, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK
14:30–15:30	Activity 1: Infrastructure and Protein Annotation Short talks The Missense3D portal: bridging genomics with proteomics by leveraging protein structures for variant interpretation Alessia David, Imperial College London Towards Tunnelome: Unveiling the Functional and Pathogenic Landscape of Protein Tunnels in Proteome Scale Anna Spackova, Palacký University Olomouc Multimodal Geometric Deep Learning Reveals an Atlas of Catalytic Sites for the Human Proteoform Jérôme Tubiana, Tel Aviv University FAIRifying the ELIXIR 3D-BioInfo Protein-Protein Interface Benchmark for AI readiness Emidio Capriotti, University of Bologna
15:30–16:00	Coffee break
16:00–16:30	Activity 2: Complexes Foldseek-Interface enables clustering of the resolved protein interface universe Katja Luck, Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA
16:30–17:00	Activity 2: Complexes Solving 3D puzzles of biomolecular interactions by physics- and AI-based integrative modelling Alexandre Bonvin, Computational Structural Biology Group, Bijvoet Centre for Biomolecular Research, Department of Chemistry, Faculty of Science, Utrecht University, Utrecht
17:00–18:00	Activity 2: Complexes Short talks Fold or flop: quality assessment of AlphaFold predictions on whole proteomes Edoardo Sarti, Inria - Université Côte d'Azur, Biot, France Mapping the reliability domain of protein AI: what protein language models represent, and where their predictions fail Olga Kalinina, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) The Gating Mechanism and Sodium Ion Transport in the Epithelial Sodium Channel Karam Botrous, Institute for Functional Gene Analytics (IFGA) MDaRes: An R Tool for Residue-level Analysis of Local Conformational Dynamics in Proteins Anna Marabotti, Department of Chemistry and Biology "A. Zambelli", University of Salerno
19:00	Conference dinner at La Limonaia Ticketed event if registering for ELIXIR AGM only; included in full conference registration, reservation required

Thursday 26 November 2026

09:00–09:30	Activity 3: Protein–ligand interactions Invited speaker Boltz and BoltzGen Jeremy Wohlwend, CSO, Boltz
09:30–10:00	Activity 3: Protein–ligand interactions Invited speaker Assessing Boltz-2 Performance for the Binding Classification of Docking Hits Prof. Didier Rognan, University of Strasbourg
10:00–11:00	Activity 3: Protein–ligand interactions Short talks Virtual Kinome Assay: Fast, Scalable, and Interpretable Prediction of Kinome-Wide Binding Affinity Profiles Elisa Lustrino, Sapienza University of Rome Interrogating contrastive learning embeddings for structure-based virtual screening: a case study on DrugCLIP Javier Sánchez Utgés, University College London Deep Learning of Protein–Ligand Interaction Fingerprints Based on Functional Atom Matching for Drug Discovery and Protein Design Christoph Manitz, Leipzig University / ScaDS.AI / KünzeLab – Institute for Drug Discovery, Leipzig, Germany Structure-Based Fragment Growing Using Chemical Fragment Spaces Christiane Ehrt, University of Hamburg, ZBH – Center for Bioinformatics, Germany
11:00–11:30	Coffee break
11:30–12:30	ELIXIR session Implementation Studies Lada Biedermannova, Institute of Biotechnology; Jennifer Fleming,EMBL-EBI; Bohdan Schneider, Institute of Biotechnology of the Czech Academy of Sciences; Gerardo Tauriello, Universitat Basel/SIB; Vincent Zoete, University of Lausanne
	END OF ELIXIR AGM
12:30–13:30	Continuation of 3D-BioInfo 2026; lunch
13:30–14:00	Activity 4: Nucleic Acid Structures Computational Modeling of RNA 3D Structures, Modifications, Folding, and Interactions Janusz Bujnicki, International Institute of Molecular and Cell Biology in Warsaw, Poland
14:00–14:30	Activity 4: Nucleic Acid Structures Behind the Curtain: Exploring Hidden Molecular States of Nucleic Acids by Hyperpolarized NMR Lukáš Trantírek, CEITEC Masaryk University, Czech Republic
14:30–15:30	Activity 4: Nucleic Acid Structures Short talks CORAL: a dual-encoder cross-attention model that recovers RNA–protein interface geometry at residue and domain scale without structural supervision Manuela Helmer-Citterich, University of Rome Tor Vergata ARIEL: An Openly Accessible Database of RNA–Ligand Binding Affinities with Experimental Structures Mohit Chawla, KAUST, Saudi Arabia LaRNAl: a web platform for RNA structure analysis Maksim Serdakov, IMol Polish Academy of Sciences RNA-Puzzles: RNA 3D structure prediction in the past decade Zhichao (Chichau) Miao, Guangzhou National Laboratory
15:30–16:00	Coffee break
16:00–16:30	Activity 5: Protein Engineering and Design Functional peptide binder design beyond the natural amino acid space Patrick Bryant, SciLifeLab, Stockholm University, Sweden
16:30–17:00	Activity 5: Protein Engineering and Design Title to be announced Ora Schueler-Furman, Hebrew University Jerusalem, Israel
17:00–18:00	Activity 5: Protein Engineering and Design Short talks State-specific Scaffolding of the Growth Hormone Secretagogue Receptor Florian Juhani Olander, Leipzig University, Medical Faculty, Institute for Drug Discovery Structure-Guided Generative Design of Amyloid-Selective Antibody Candidates for Transthyretin Amyloidosis (ATTR) Ugo Lomoio, Magna Graecia University of Catanzaro Protein design for the inversion of metalloenzyme stereoselectivity Cosimo Ciofalo, University of Florence Much ado about nothing: modeling amino acid replacement with predicted protein structures Lukas Buschmann, Dresden University of Technology (TU Dresden), ScaDS.AI
18:00–19:00	Poster session

Friday 27 November 2026

09:00–09:30	3DSIG: Structural Bioinformatics and Computational Biophysics A zero-shot thermodynamic potential for protein mutational stability Gábor Erdős, Department of Biochemistry, ELTE Eötvös Loránd University, Budapest, Hungary
09:30–10:00	3DSIG: Structural Bioinformatics and Computational Biophysics Protein Language Models in the Post-AlphaFold era Michael Heinzinger, Institute of Computational Biology, Helmholtz Center, Munich, 85764, Germany
10:00–11:00	3DSIG: Structural Bioinformatics and Computational Biophysics Short talks PED 2026: a FAIR platform for integrative, machine-learning and proteome-scale ensembles of intrinsically disordered proteins Alexander Monzon, Department of Biomedical Sciences, University of Padova Systematic Structural Characterization of Missense Mutations in Schizophrenia Risk Genes Shaolei Teng, Howard University PIPENN-EMB ensemble net and protein embeddings generalise protein interface prediction beyond homology K. Anton Feenstra, Vrije Universiteit Amsterdam Exploring the Universe of Zinc-Binding Proteins through Structure Prediction and Protein Language Models Antonio Rosato, University of Florence
11:00–11:30	Coffee break
11:30-12:00 12:00–12:30	3DSIG: Structural Bioinformatics and Computational Biophysics TBD Franca Fraternali, Research Department of Structural and Molecular Biology, Division of Biosciences, University College London, London, UK Closing session

Part of the ELIXIR 3D-BioInfo AGM
Programme subject to change. All times are Central European Time (CET, UTC+1).