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CAMEO-3D @cameo3d.org · 23/12/2025

🚀 New paper in @natmethods.nature.com! We present OpenStructure's powerful scoring capabilities, used to assess predictionsin CAMEO and CASP. Read the full study here: 🔗 doi.org/10.1038/s415... #StructuralBiology #Bioinformatics #OpenStructure #CASP #CAMEO #ProteinStructure

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CAMEO-3D @cameo3d.org · 27/08/2025

🔬 Workshop: Future of Structure Prediction Benchmarking 📅 Sept 8, 2025 | Basel 💡 Talks + breakout sessions on #CASP #CAPRI #CAMEO & benchmarking for drug discovery 🎟️ Free registration (limited spots): lu.ma/ws9nu1xf Join us to explore how benchmarking can drive breakthroughs in structure prediction.

lu.ma

The future of structure prediction benchmarking: measuring progress and breakthroughs · Luma

Benchmarking has been a key driver of progress in protein structure prediction methods. As the field continues to evolve, several key questions prevail: How…

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CAMEO-3D @cameo3d.org · 08/08/2025

Runs N' Poses is a great example of how to rigorously filter protein–ligand complexes for structural similarity: www.biorxiv.org/content/10.1....

Figure 4 in the Runs N' Poses paper shows how one can combine sequence identity with ligand similarity metrics to assess the structural novelty of protein-ligand complexes.

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CAMEO-3D @cameo3d.org · 08/08/2025

💡Note: these are sequences where the only template available is < 40% sequence identity, making it already a stricter scenario than usual splits with 2021 training cutoffs.

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CAMEO-3D @cameo3d.org · 08/08/2025

Even at 40% sequence identity, SWISS-MODEL models have an LDDT greater than 0.7 on average. If you want to build a meaningful validation set without leakage, you need to adopt a significantly more stringent criterion.

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CAMEO-3D @cameo3d.org · 08/08/2025

We looked at 3891 past CAMEO targets (January 2020 to April 2024). We plotted the LDDT of homology-based SWISS-MODEL prediction against the sequence identity of the top BLAST template, filtering for hits with at least 80% coverage of the target sequence.

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CAMEO-3D @cameo3d.org · 08/08/2025

Filtering out homologous structures from the PDB at 40% sequence identity is not enough to create a robust test set. Significant leakage persists at this level, and comparative modeling can still produce high quality models.

Scatter plot of LDDT as a function of sequence identity for high coverage homology models. The horizontal red line at 40% sequence identity highlights the presence high quality models in the low sequence identity region.

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CAMEO-3D @cameo3d.org · 28/04/2025

Create your account and register your server now! cameo3d.org

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CAMEO-3D @cameo3d.org · 28/04/2025

Detailed per-target scores and interactive 3D visualization.

The target page with server results and superposed 3D structures.

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CAMEO-3D @cameo3d.org · 28/04/2025

Custom timeframes, automatic server comparisons on shared targets, multi-metric evaluations, and interactive boxplots for selected servers.

The CAMEO results page with custom timeframes, common subset comparison, and boxplots

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CAMEO-3D @cameo3d.org · 28/04/2025

Introducing CAMEO Structures & Complexes - automated weekly blind benchmarking of structure prediction servers. Now with heteromeric and protein-ligand complexes. Join us and register your server now! cameo3d.org

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