Updated project metadata. This dataset corresponds to several experiments performed in order to identify proteins interacting with Immunity-related GTPase family M member 2 (Irgm2) in murine macrophages. To that aim, a version of the protein fused with the GFP (Egfp-Irgm2) was transduced in immortalized murine Bone Marrow-Derived Macrophages (iBMDMs), and Irgm2 complexes were subsequently purified using anti-GFP Trap technology. Different experiments were performed using either cells initially primed by treatment with interferon gamme (IFNg) or without any priming (NP), and in each case, cells were either infected with Salmonella (STm) or non infected (mock), leading to 4 different conditions. Corresponding control samples were prepared in the same way using macrophages transduced with GFP only (Egfp), leading to 8 different types of samples. Three independent biological experiments were performed for each condition, and each sample was analysed in triplicate by mass spectrometry, resulting in 72 LC-MS runs contained in the dataset.