The amine/SH-modifying fluorescein 5-isothiocyanate (FITC) specifically labeled Lys 185 in the putative membrane-spanning region of the phosphate carrier from both the cytosolic and matrix sides of bovine heart mitochondria at 0°C and pH 7.2, and the labeling inhibited the phosphate transport. Nonmodifying fluorescein derivatives having similar structural features to those of ADP and ATP (Majima, E., Yamaguchi, N., Chuman, H., Shinohara, Y., Ishida, M., Goto, S., and Terada, H. (1998) Biochemistry 37, 424 -432) inhibited the specific FITC labeling and phosphate transport, but the nonfluorescein phenylisothiocyanate did not inhibit FITC labeling, suggesting that there is a region recognizing the adenine nucleotides in the phosphate carrier and that this region is closely associated with the transport activity. The phosphate transport inhibitor pyridoxal 5-phosphate inhibited the specific FITC labeling, possibly due to competitive modification of Lys 185 . In addition, FITC inhibited the ADP transport and specific labeling of the ADP/ATP carrier with the fluorescein SH reagent eosin 5-maleimide. Based on these results, we discuss the structural features of the phosphate carrier in relation to its transport activity.There are various solute carriers in the mitochondrial inner membrane to support ATP synthesis by oxidative phosphorylation. The 30-kDa solute carriers, consisting of a three-repeat structure containing a certain consensus sequence, are members of the mitochondrial solute carrier family (1). Of these, the ADP/ATP carrier mediating transport of ADP and ATP, the phosphate carrier mediating the symport of orthophosphate (P i ) and H ϩ , and the type 1 uncoupling protein forming the short circuit of the proton current (2-4) have received considerable attention. These carriers take similar topologies of six transmembrane helices with three large hydrophilic loops facing the matrix, and their homodimers are thought to be their functional units (2,3,5,6). However, their precise structural characteristics are not fully understood in relation to their transport functions.Because fluorescein derivatives have been thought to have similar structural features to those of adenine nucleotides (7, 8), they have been used as fluorescent probes in studies on the kinetics and conformational changes caused by their interactions with the adenine nucleotide binding sites of proteins such as ATPases (9 -11), NAD(P) ϩ -dependent dehydrogenases (12, 13), and kinases (7,8). In fact, we recently reported that the geometric and electronic structures of fluorescein analogs are very similar to those of ADP/ATP (14). In addition, we found that various fluorescein derivatives have high affinities to the ADP/ATP carrier in bovine heart mitochondria, and the binding leads to inhibition of the transport activity (4,14,15). Of the fluorescein analogs, the SH reagent eosin 5-maleimide (EMA) 1 most significantly interacts with the ADP/ATP carrier; it quickly and specifically labels Cys 159 in the second loop facing the matrix of the bovine ...