The expression of selenoproteins requires the translational recoding of the UGA stop codon to selenocysteine. In eukaryotes, this requires an RNA stem loop structure in the 3-untranslated region, termed a selenocysteine insertion sequence (SECIS), and SECIS-binding protein 2 (SBP2). This study implicates SBP2 in dictating the hierarchy of selenoprotein expression, because it is the first to show that SBP2 distinguishes between SECIS elements in vitro. Using RNA electrophoretic mobility shift assays, we demonstrate that a naturally occurring mutation in SBP2, which correlates with abnormal thyroid hormone function in humans, lies within a novel, bipartite RNA-binding domain. This mutation alters the RNA binding affinity of SBP2 such that it no longer stably interacts with a subset of SECIS elements. Assays performed under competitive conditions to mimic intracellular conditions suggest that the differential affinity of SBP2 for various SECIS elements will determine the expression pattern of the selenoproteome. We hypothesize that the selective loss of a subset of selenoproteins, including some involved in thyroid hormone homeostasis, is responsible for the abnormal thyroid hormone metabolism previously observed in the affected individuals.Selenium is an essential micronutrient for human health. Most of the selenium in the body is found as selenocysteine, which is incorporated into proteins termed selenoproteins. Selenoproteins are believed to be involved in such diverse aspects of human health as immunity, fertility, cancer prevention, and atherosclerosis (1). The human selenoproteome is composed of ϳ25 members (2). Those of known function include the glutathione peroxidases, the thioredoxin reductases, and the deiodinases, all of which are involved in oxidation-reduction reactions within cells (3, 4).Selenoprotein synthesis is unusual, because it relies on the translational recoding of a UGA stop codon to selenocysteine within the coding region of selenoprotein mRNAs. The dual nature of this codon implies that chain termination and selenocysteine insertion are competing processes; however, this area remains poorly understood at this time. In recent years, much progress has been made in delineating the necessary components for selenocysteine incorporation. This process requires an RNA stem-loop structure termed the selenocysteine insertion sequence (SECIS), 2 which is located in the 3Ј-untranslated region of eukaryotic selenoprotein mRNAs (5). In addition, a selenocysteine-charged tRNA (Sec-tRNA Sec ) (6) and an elongation factor dedicated to selenocysteine insertion (EFSec) (7,8) are necessary. Several other protein factors have roles in SectRNA Sec synthesis and delivery, and interactions between the selenoprotein mRNA, Sec-tRNA Sec , and the ribosome have also been identified. Currently, the exact order of events and series of interactions remains unclear. For a comprehensive review of selenocysteine insertion see reviews by Hatfield and Gladyshev (9) and Hoffman and Berry (10).Our lab has a long standing inte...