The SWISS-MODEL workspace is a web-based integrated service designed for protein structure homology modeling. It provides a user-friendly environment for building protein homology models at various levels of complexity, from highly automated to manual intervention. The workspace integrates necessary tools, programs, and databases, allowing users to access and perform homology modeling from any web-connected computer without the need for downloading large software packages. Key features include template selection, model building, and structure quality evaluation. The accuracy, stability, and reliability of the automated SWISSMODEL server pipeline have been continuously validated through the EVA-CM evaluation project. The workspace supports different modeling modes—automated, alignment, and project—each tailored to the complexity of the modeling task. It also includes tools for domain assignment, secondary structure prediction, and disorder prediction. The quality of individual models can be assessed using various graphical plots and reports. The workspace is accessible at http://swissmodel.expasy.org/workspace/ and has been applied to model human Cyclin A1 and Transmembrane Protease 3 (TMPRSS3), demonstrating its utility in biological research.The SWISS-MODEL workspace is a web-based integrated service designed for protein structure homology modeling. It provides a user-friendly environment for building protein homology models at various levels of complexity, from highly automated to manual intervention. The workspace integrates necessary tools, programs, and databases, allowing users to access and perform homology modeling from any web-connected computer without the need for downloading large software packages. Key features include template selection, model building, and structure quality evaluation. The accuracy, stability, and reliability of the automated SWISSMODEL server pipeline have been continuously validated through the EVA-CM evaluation project. The workspace supports different modeling modes—automated, alignment, and project—each tailored to the complexity of the modeling task. It also includes tools for domain assignment, secondary structure prediction, and disorder prediction. The quality of individual models can be assessed using various graphical plots and reports. The workspace is accessible at http://swissmodel.expasy.org/workspace/ and has been applied to model human Cyclin A1 and Transmembrane Protease 3 (TMPRSS3), demonstrating its utility in biological research.