Obesity is a globally prevalent metabolic disorder closely associated with gut microbiota dysbiosis. However, the precise role of the microbiota and its related metabolism in this disease remains unclear. Through fecal metagenomic data mining and clinical cohort validation, we identified a gut bacterial strain with anti-obesity potential, Enterococcus faecium (E. faecium). It inhibited adipocyte enlargement, dyslipidemia, and hepatic steatosis in obese mice by metabolizing leucine to produce leucic acid (LEA). Colonization with E. faecium or exogenous LEA supplementation improved obesity-associated metabolic phenotypes. Mechanistically, E. faecium metabolized leucine into LEA via its branched-chain amino acid metabolic enzymes. The bacterium-derived LEA regulated mitochondrial oxidative phosphorylation and thus alleviated obesity. Furthermore, using a high-content screening system and an in vitro fermentation model, we found that the dietary fiber glucomannan exerted anti-obesity effects by promoting the growth of E. faecium. This study reveals the critical role of microbial metabolism and LEA production in ameliorating the onset and progression of obesity, providing a theoretical basis for dietary fiber intervention strategies targeting the gut microbiota.