We report here that alterations of either His 291 -␣ or His 146 - in the active site of human branched-chain ␣-ketoacid dehydrogenase (E1b) impede both the decarboxylation and the reductive acylation reactions catalyzed by E1b as well as the binding of cofactor thiamin diphosphate (ThDP). In a refined human E1b active-site structure, His 291 -␣, which aligns with His 407 in Escherichia coli pyruvate dehydrogenase and His 263 in yeast transketolase, is on a largely ordered phosphorylation loop. The imidazole ring of His 291 -␣ in E1b coordinates to the terminal phosphate oxygen atoms of bound ThDP. The N3 atom of wild-type His 146 - , which can be protonated, binds a water molecule and points toward the aminopyrimidine ring of ThDP. Remarkably, the H291A-␣ mutation results in a complete order-to-disorder transition of the loop region, which precludes the binding of the substrate lipoyl-bearing domain to E1b. The H146A- mutation, on the other hand, does not alter the loop structure, but nullifies the reductive acylation activity of E1b. Our results suggest that: 1) His 291 -␣ plays a structural rather than a catalytic role in the binding of cofactor ThDP and the lipoyl-bearing domain to E1b, and 2) His 146 - is an essential catalytic residue, probably functioning as a proton donor in the reductive acylation of lipoamide on the lipoyl-bearing domain.The mammalian branched-chain ␣-ketoacid dehydrogenase (BCKD) 1 complex catalyzes the oxidative decarboxylation of branched-chain ␣-ketoacids (Reaction 1) derived from transamination of leucine, isoleucine, and valine (1).The BCKD complex is a member of the highly conserved mitochondrial ␣-ketoacid dehydrogenase multienzyme complexes. This metabolic machine of 4 ϫ 10 6 daltons in size is organized around a 24-mer dihydrolipoyl transacylase (E2b) core, to which multiple copies of branched-chain ␣-ketoacid dehydrogenase (E1b), dihydrolipoamide dehydrogenase (E3), BCKD kinase, and BCKD phosphatase bind. In patients with heritable maple syrup urine disease, activity of the BCKD complex is deficient, resulting in often fatal acidosis, neurological disorders, and mental retardation (1).The E1b component is a thiamin diphosphate (ThDP)-dependent enzyme consisting of two ␣ (M r ϭ 45,500) and two  (M r ϭ 37,500) subunits. The heterotetramer catalyzes both the ThDP-mediated decarboxylation of the ␣-ketoacids (Reaction 2) and the reductive acylation of the lipoyl moiety covalently attached to the -hairpin tip of the lipoic acid-bearing domain (LBD) on the E2b subunit (Reaction 3).Crystal structures of Pseudomonas E1b (2) and human E1b (3) have been determined. These E1b proteins are heterotetramers each containing two ␣-and two -subunits that form two ThDP-binding pockets at the ␣/Ј and the ␣Ј/ interfaces. This topology is conserved between E1b proteins and the homodimeric yeast transketolase; in the latter two ThDP-binding sites are formed at head-to-tail interfaces between two identical subunits (4), each corresponding to a fused ␣ and  or ␣Ј and Ј subunits of E1b. Res...