Runfeng Lin

Detection of protein symmetry and structural rearrangements using secondary structure elements

This study introduces a computational pipeline using secondary structure elements to detect protein symmetry and structural rearrangements, identifying 17,130 circularly related proteins and 26,739 proteins with indel mutations.

Decoupling Topology from Geometry: Detecting Large-Scale Conformational Changes via Conformational Scanning

This paper introduces a method to identify proteins with identical topology but different conformations from the PDB, enabling the study of large-scale structural dynamics.

Millisecond Prediction of Protein Contact Maps from Amino Acid Sequences

This paper introduces a fast method to predict protein contact maps from sequences, achieving high accuracy in 110 milliseconds.

Unraveling Viral peptide-G4 Interactions: the NS3 Protease Domain of Yellow Fever Virus Binds G-Quadruplexes with High Specificity and Affinity

This study identifies the NS3 protease domain of Yellow Fever Virus as a high-affinity G4 binder, revealing its interaction mechanism and potential as an antiviral target.

Compression of protein secondary structures enables ultra-fast and accurate structure searching

The paper introduces a compact representation of protein structures called Secondary Structure Elements (SSEs) that enable fast and accurate structure searching with performance comparable to Foldseek.