Cystinosin, the lysosomal cystine exporter defective in cystinosis, is the founding member of a family of heptahelical membrane proteins related to bacteriorhodopsin and characterized by a duplicated motif termed the PQ loop. PQ-loop proteins are more frequent in eukaryotes than in prokaryotes; except for cystinosin, their molecular function remains elusive. In this study, we report that three yeast PQ-loop proteins of unknown function, Ypq1, Ypq2, and Ypq3, localize to the vacuolar membrane and are involved in homeostasis of cationic amino acids (CAAs). We also show that PQLC2, a mammalian PQ-loop protein closely related to yeast Ypq proteins, localizes to lysosomes and catalyzes a robust, electrogenic transport that is selective for CAAs and strongly activated at low extracytosolic pH. Heterologous expression of PQLC2 at the yeast vacuole rescues the resistance phenotype of an ypq2 mutant to canavanine, a toxic analog of arginine efficiently transported by PQLC2. Finally, PQLC2 transports a lysine-like mixed disulfide that serves as a chemical intermediate in cysteamine therapy of cystinosis, and PQLC2 gene silencing trapped this intermediate in cystinotic cells. We conclude that PQLC2 and Ypq1–3 proteins are lysosomal/vacuolar exporters of CAAs and suggest that small-molecule transport is a conserved feature of the PQ-loop protein family, in agreement with its distant similarity to SWEET sugar transporters and to the mitochondrial pyruvate carrier. The elucidation of PQLC2 function may help improve cysteamine therapy. It may also clarify the origin of CAA abnormalities in Batten disease.

Choline is an important metabolite in all cells due to the major contribution of phosphatidylcholine to the production of membranes, but it takes on an added role in cholinergic neurons where it participates in the synthesis of the neurotransmitter acetylcholine. We have cloned a suppressor for a yeast choline transport mutation from a Torpedo electric lobe yeast expression library by functional complementation. The full-length clone encodes a protein with 10 putative transmembrane domains, two of which contain transporter-like motifs, and whose expression increased high-affinity choline uptake in mutant yeast. The gene was called CTL1 for its choline transporter-like properties. The homologous rat gene, rCTL1, was isolated and found to be highly expressed as a 3.5-kb transcript in the spinal cord and brain and as a 5-kb transcript in the colon. In situ hybridization showed strong expression of rCTL1 in motor neurons and oligodendrocytes and to a lesser extent in various neuronal populations throughout the rat brain. High levels of rCTL1 were also identified in the mucosal cell layer of the colon. Although the sequence of the CTL1 gene shows clear homology with a single gene in Caenorhabditis elegans, several homologous genes are found in mammals (CTL2-4). These results establish a new family of genes for transporter-like proteins in eukaryotes and suggest that one of its members, CTL1, is involved in supplying choline to certain cell types, including a specific subset of cholinergic neurons. C ells contain large amounts of choline incorporated in their membranes, and all plant and animal cells, including unicellular organisms, absorb free choline as a nutrient. At cholinergic nerve terminals, the sodium-dependent high affinity choline uptake mechanism that is coupled to acetylcholine synthesis has been particularly well characterized at the functional level (1-3) but has thus far eluded diverse attempts at identification based on protein purification (4), even in conjunction with the use of a selective and irreversible ligand (5).The yeast choline transporter has been isolated by homologous complementation by using a choline transport deficient yeast strain (6), and heterologous complementation of yeast mutants with a yeast expression library made with Arabidopsis thaliana cDNA has been used to identify the potassium transporter of plants (7). We decided to adapt the strategy of complementation cloning to the problem of neuronal choline transport by using choline transport deficient yeast with the highly cholinergic electric lobes of Torpedo as a source of cDNA. However, the single clone isolated, capable of partially restoring choline uptake in the mutant yeast, did not resemble the yeast choline transporter (8) and is thus considered to be a heterologous suppressor for the choline transport mutation. We report the sequences of genes both homologous and orthologous to the Torpedo choline transporter-like protein, tCTL1, and we begin the characterization of this new family of transmembrane proteins by studying ...