Methionine sulfoxide reductases protect cells by repairing oxidatively damaged methionine residues in proteins. Here, we report the first three-dimensional structure of the mammalian selenoprotein methionine sulfoxide reductase B1 (MsrB1), determined by high resolution NMR spectroscopy. Heteronuclear multidimensional spectra yielded NMR spectral assignments for the reduced form of MsrB1 in which catalytic selenocysteine (Sec) was replaced with cysteine (Cys). MsrB1 consists of a central structured core of two -sheets and a highly flexible, disordered N-terminal region. Analysis of pH dependence of NMR signals of catalytically relevant residues, comparison with the data for bacterial MsrBs, and NMR-based structural analysis of methionine sulfoxide (substrate) and methionine sulfone (inhibitor) binding to MsrB1 at the atomic level reveal a mechanism involving catalytic Sec 95 and resolving Cys 4 residues in catalysis. The MsrB1 structure differs from the structures of Cys-containing MsrBs in the use of distal selenenylsulfide, residues needed for catalysis, and the mode in which the active form of the enzyme is regenerated. In addition, this is the first structure of a eukaryotic zinc-containing MsrB, which highlights the structural role of this metal ion bound to four conserved Cys. We integrated this information into a structural model of evolution of MsrB superfamily.Methionine sulfoxide (MetSO) 3 is readily formed by oxidation of methionine in cells, especially under conditions of oxidative stress, but can be enzymatically reduced back to methionine by MetSO reductases (Msrs). Msrs are thiol-based oxidoreductases in which cysteine (Cys) functions as a catalytic residue. These enzymes are classified into two families, MsrA and MsrB, according to their substrate specificity. MsrA catalyzes the reduction of the s-form of MetSO (Met-s-SO), whereas MsrB can only reduce the r-form (Met-r-SO). These two enzyme families reduce MetSO residues in proteins, but MsrA can also reduce free Met-s-SO. Msrs are crucial repair proteins that protect cells against oxidative stress and have been implicated delaying the aging process and protecting against neurodegeneration (1, 2). In addition, a new class of Msr, called fRMsr, has recently been identified (3) and characterized from Escherichia coli and Saccharomyces cerevisiae (3, 4). This enzyme is specific for free Met-r-SO but is not active with protein-based Met-r-SO. fRMsr also functions as an antioxidant protein (4).Selenocysteine (Sec) is a rare amino acid that is co-translationally incorporated into proteins at UGA codons. Selenoproteins (i.e. Sec-containing proteins) are found in all three domains of life. Among the functionally characterized selenoproteins, most are oxidoreductases in which Sec replaces Cys normally found in the active site (e.g. glutathione peroxidase and thioredoxin reductase). The most profound characteristic provided by Sec in selenoenzymes is higher catalytic efficiency of these enzymes compared with their Cys mutants or Cys homologs (5-7). In ma...