This study investigated the structural changes in oak and larch lignin-carbohydrate complexes (LCCs) during hydrothermal treatment and enzymatic hydrolysis. Hydrothermal treatment caused hemicellulose degradation (degradation rate at 170 ℃: larch 19.40%; oak, 22.26%). The LCC1 (glucan-lignin) fraction was the highest in the raw material of both biomasses. The LCC3 (xylan-lignin) and LCC2 (glucomannan-lignin) fractions were high in oak and larch, respectively; these fractions decreased as the hydrothermal treatment temperature increased (owing to hemicellulose degradation). Both biomasses had phenyl glycoside, benzyl ether (BE), and γ-ester (Est) linkages. The BE and Est linkages decreased as the hydrothermal treatment temperature increased; the Est linkages decrease was more significantly in oak than in larch. The efficiency of enzymatic hydrolysis was higher in oak than that in larch and increased as the hydrothermal treatment temperature increased. Furthermore, enzyme adsorption on the LCC1 sensor was higher in oak than in larch. The chemical compositions and LCC linkages of the biomass were changed by the hydrothermal treatment, which affected the efficiency of enzymatic hydrolysis. Moreover, the efficiency of enzymatic hydrolysis was higher for oak than for larch because of the difference hemicellulose and cellulose contents and LCC linkages.