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Does sequence clustering confound AlphaFold2?
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DOI：10.1016/j.jmb.2025.169376.png)
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Abstract
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• Clarifies misconceptions about AF-Cluster’s intended use. • Describes ablation study to directly test role of evolutionary couplings in neural net. • Refutes claims that evolutionary couplings are not used by AF-Cluster.
Keywords:
AlphaFold2
conformational ensembles
evolutionary couplings
clustering
metamorphic proteins
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