Matic Broz founded ProteinIQ on May 24, 2025, to make serious bioinformatics tools usable without local infrastructure. The first version launched a day later with 13 browser-based tools for protein parameters, sequence processing, drug discovery, and structure viewing.
The summer went into the everyday file work that sits around every analysis. Dedicated converters from FASTQ, PDB, SDF, and plain text to FASTA arrived in June. At the end of August, server-side compute opened up heavier molecular workflows that a browser alone could not run.
October 2025 brought the first generally available cloud tools, including protein parameters, ADMET-AI, and FASTA splitting. Soon after, every tool moved into one shared layout, with inputs and settings beside the output and a history of past jobs a click away.
From November the catalogue grew quickly. DiffDock-L and GNINA brought molecular docking. LigandMPNN, ProteinMPNN, and SolubleMPNN added sequence design, while Boltz-2, Chai-1, and RFdiffusion 2 covered biomolecular structure prediction and backbone design. The first paid plans went live in mid-November for researchers who needed more compute, while the core sequence and property tools became free. We also started writing guides for practical bioinformatics.
December added Protenix for AlphaFold 3-style complex prediction, then AlphaFold2, MAFFT, Foldseek, IQ-TREE, MUSCLE5, and HMMER for folding, alignment, structure search, and phylogenetics. Full-screen outputs arrived at the same time, and by the end of the year DockQ, AlphaFlow, and AutoDock-GPU had deepened docking review and conformational sampling.
In January 2026 the community passed 1,000 members. Antibody work became a focus with AbLang, AntiFold, and ImmuneBuilder, alongside the AI Assistant for day-to-day research support and gmx_MMPBSA for binding free energy estimates. Membership doubled to 2,000 by March, lighter self-serve plans for individuals and small teams followed in April, and we crossed 5,000 members at the end of that month. In September, batch runs became generally available, so one submission can test many candidates instead of one at a time.
Today more than 14,700 members run folding, docking, design, sequence, and analysis workflows across 290+ tools. They work in university labs, biotech teams, classrooms, and independent projects.
Their work is starting to appear in the literature. Researchers at Michigan State University validated predicted viral protein structures for a study in Microorganisms, a team at Zhejiang University screened AI-designed peptides for the Journal of Medicinal Chemistry, and scientists at the Barcelona Supercomputing Center and ICP-CSIC compared plastic-degrading enzymes in Microbial Biotechnology. Groups at the Czech Academy of Sciences and the Fourth Military Medical University have published with ProteinIQ in BMC Plant Biology and Translational Neurodegeneration. More are collected in our research stories.