ERBA is a new staged multimodal adapter that improves protein language model predictions of enzyme kinetic parameters by separately modeling substrate recognition and induced-fit conformational changes.
Ankh: Optimized protein language model unlocks general- purpose modelling.arXiv:2301.06568
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PLASMA applies regularized optimal transport with Sinkhorn iterations to produce fast, interpretable residue-level alignments and similarity scores between protein structures.
AgentPLM equips pre-trained protein language models with reasoning-augmented decoding using tools such as ESMFold and FoldX plus contrastive agent policy optimization, reporting state-of-the-art gains on de novo enzyme, antibody, and thermostability tasks.
citing papers explorer
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Multimodal Protein Language Models for Enzyme Kinetic Parameters: From Substrate Recognition to Conformational Adaptation
ERBA is a new staged multimodal adapter that improves protein language model predictions of enzyme kinetic parameters by separately modeling substrate recognition and induced-fit conformational changes.
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Fast and Interpretable Protein Substructure Alignment via Optimal Transport
PLASMA applies regularized optimal transport with Sinkhorn iterations to produce fast, interpretable residue-level alignments and similarity scores between protein structures.
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AgentPLM: Agentic Protein Language Models with Reasoning-Augmented Decoding for Protein Sequence Design
AgentPLM equips pre-trained protein language models with reasoning-augmented decoding using tools such as ESMFold and FoldX plus contrastive agent policy optimization, reporting state-of-the-art gains on de novo enzyme, antibody, and thermostability tasks.