Based on the now available crystallographic data of the G-protein-coupled receptor (GPCR) prototype rhodopsin, many studies have been undertaken to build or verify models of other GPCRs. Here, we mined evolution as an additional source of structural information that may guide GPCR model generation as well as mutagenesis studies. The sequence information of 61 cloned orthologs of a P2Y-like receptor (GPR34) enabled us to identify motifs and residues that are important for maintaining the receptor function. The sequence data were compared with available sequences of 77 rhodopsin orthologs. Under a negative selection mode, only 17% of amino acid residues were preserved during 450 million years of GPR34 evolution. On the contrary, in rhodopsin evolution ϳ43% residues were absolutely conserved between fish and mammals. Despite major differences in their structural conservation, a comparison of structural data suggests that the global arrangement of the transmembrane core of GPR34 orthologs is similar to rhodopsin. The evolutionary approach was further applied to functionally analyze the relevance of common scaffold residues and motifs found in most of the rhodopsin-like GPCRs. Our analysis indicates that, in contrast to other GPCRs, maintaining the unique function of rhodopsin requires a more stringent network of relevant intramolecular constrains.Among the different families of transmembrane receptors, G-protein-coupled receptors (GPCRs) 1 form the largest superfamily. Molecular cloning studies and genome data analyses have revealed ϳ1200 -1300 members of the GPCR superfamily in mammalian genomes (1). To predict and understand ligand binding and signal transduction as well as the consequences of structural changes (e.g. disease-causing mutations) within a receptor molecule, detailed information about the native receptor structure in its inactive and active conformations is required. Currently, a high-resolution structure is available only for bovine rhodopsin (2), which now provides the basis to generate models of other GPCRs (3). However, recent studies point out that even with a crystal structure in hand, construction of reliable receptor models still requires time-consuming refinements based on data from mutagenesis, cross-linking, and NMR studies (4).Herein, we mined evolution as an additional source of structural information that may direct GPCR modeling and mutagenesis studies. This idea has been successfully applied in an early stage of GPCR structure/function analysis. The sequences of Ͼ200 different members of the GPCR family were used to predict the approximate arrangements of the seven transmembrane helices (5). To determine more distinct structural determinants that participate in ligand recognition and signal transduction, sequence analysis has to be focused on a single receptor subtype. The structural diversity of a given receptor among different species is the result of a long evolutionary process characterized by a continuous accumulation of mutations. However, the maintenance of vital functions in...