Protein Binders
12 min
The Architecture of De Novo Protein Binders
An in-depth exploration into the structural mandates of synthetic protein design, focusing on thermodynamic stability and binding affinity benchmarks in therapeutic contexts.
Knowledge Center
Knowledge Center
Method notes and reviews from the WeaveSeq Engineering Division: protein binders, hotspot selection, interface design, assay development, and diagnostic translation, built on AffiniBind™.
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FeaturedPipeline Validation
10 min read
Benchmarking Binding-Site Fingerprinting — DB5.5 Validation of the AffiniBind Pipeline
Evaluating the AffiniBind surface fingerprinting pipeline against 223 protein-protein complexes from the Docking Benchmark 5.5 — 87.9% patch hit rate, 96.4% Top-3, and 0.853 AUC on held-out test data.
The Archive
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Hotspot Selection08 minComputational Strategies for Binding Hotspot Identification
Utilizing alanine scanning and molecular dynamics to pinpoint high-energy residues critical for intermolecular stabilization.
Interface Design15 minGeometric Complementarity in Interface Engineering
Designing steric fit and electrostatic patterns to maximize specificity in therapeutic protein–protein interactions.
Assay Development10 minHigh-Throughput Validation of Synthetic Binders
Standardizing SPR and BLI protocols for the rapid assessment of library-generated protein variants at scale.
Protein Binders22 minScaffold Engineering for Multispecific Binding
Methods for introducing multiple paratopes onto a single rigid framework without compromising core stability.
Assay Development14 minQuantifying Binding Kinetics in Complex Serum
Navigating the challenges of off-target interactions and non-specific binding in physiological environments.
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From method to molecule
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