The GalaxyRefine web server, available at http://galaxy.seoklab.org/refine, is a tool for refining protein structure models generated by contemporary prediction methods. The method, successfully tested in CASP10, involves rebuilding side-chain conformations and performing side-chain repacking followed by molecular dynamics simulations for overall structure relaxation. This approach significantly improves both global and local structure quality, as evidenced by the CASP10 assessment, where it outperformed other methods in refining local structures and side-chain quality. GalaxyRefine can enhance models from state-of-the-art servers like I-TASSER and ROSETTA, providing five refined models with detailed structural changes and improvements in GDT-HA, RMSD, and MolProbity scores. The server runs on a cluster of Linux servers, uses Python and MySQL for web application, and requires a single-chain protein structure in PDB format as input.The GalaxyRefine web server, available at http://galaxy.seoklab.org/refine, is a tool for refining protein structure models generated by contemporary prediction methods. The method, successfully tested in CASP10, involves rebuilding side-chain conformations and performing side-chain repacking followed by molecular dynamics simulations for overall structure relaxation. This approach significantly improves both global and local structure quality, as evidenced by the CASP10 assessment, where it outperformed other methods in refining local structures and side-chain quality. GalaxyRefine can enhance models from state-of-the-art servers like I-TASSER and ROSETTA, providing five refined models with detailed structural changes and improvements in GDT-HA, RMSD, and MolProbity scores. The server runs on a cluster of Linux servers, uses Python and MySQL for web application, and requires a single-chain protein structure in PDB format as input.