Youdong Mao

BiHiTo: Biomolecular Hierarchy-inspired Tokenization

BiHiTo introduces a tokenizer inspired by biomolecular hierarchies to improve structure reconstruction and dynamic conformation exploration, achieving better performance than existing methods.

ProAR: Probabilistic Autoregressive Modeling for Molecular Dynamics

ProAR generates molecular dynamics trajectories with reduced error and improved conformational accuracy compared to existing methods.

UBE3C retrofits the proteasome to enforce degradation of ultra-stable folds

This study reveals how UBE3C reprograms the proteasome to degrade ultra-stable protein folds by bypassing USP14 and enhancing substrate unfolding.

Differential higher-order superassembly of HECT-type UBE3 ligases controlled by calcium signals

The paper determines cryo-EM structures of UBE3B and UBE3C in complex with calmodulin, showing how calcium signaling controls their higher-order assembly and activity.

A kinetic model for USP14 regulated substrate degradation in 26S proteasome

The paper develops a kinetic model to describe USP14-regulated substrate degradation in the 26S proteasome, showing that USP14 reduces degradation rates and depends on substrate and ATP concentrations.

Rapaprotin is Activated by an Endopeptidase to Disassemble 26S Proteasome

This paper identifies rapaprotin as a 26S proteasome assembly inhibitor that is activated by PREP to induce apoptosis and synergizes with proteasome inhibitors in cancer cells.

Salt-dependent non-catalytic allostery of human USP14-regulated 26S proteasome

This study uses cryo-EM and genetic engineering to show how USP14 non-catalytically regulates proteasome activity through salt-dependent allosteric changes.

A conserved N-terminal motif of CUL3 mediates assembly and licenses E3 ligase activation of CRL3KLHL22

The paper identifies a conserved N-terminal motif in CUL3 that mediates dimerization and activates CRL3KLHL22 E3 ligase function.

Visualizing conformational space of functional biomolecular complexes by deep manifold learning

This paper introduces AlphaCryo4D, a deep learning framework for atomic-level cryo-EM reconstructions of conformational continua in biomolecular complexes, demonstrating its ability to visualize dynamic components and hidden conformational space.

Asymmetric structures and conformational plasticity of the uncleaved full-length human immunodeficiency virus (HIV-1) envelope glycoprotein trimer

This study investigates the conformational plasticity of the uncleaved HIV-1 Env trimer and its implications for antibody recognition and Env cleavage.

Structural insights into the conformational plasticity of the full-length trimeric HIV-1 envelope glycoprotein precursor

This study uses cryo-EM to reveal two conformational states of the HIV-1 Env precursor, explaining its plasticity and implications for immune response.