In this work, we describe the three-dimensional crystal structure and solution studies of the Plus-C group member, AgamOBP48. The AgamOBP48 structure constitutes a three-dimensional domain-swapped dimer thus far unique among dipteran OBPs. The three-dimensional domain swapping results in the creation of novel binding sites. Structural comparison with the monomeric AgamOBP47 reveals significant structural characteristics and differences that may play a role in dimer formation and consequently in odor detection. Finally, in silico and in solution binding studies with a synthetic compound, EN12, discovered by ligand- and structure-based virtual screening, reveal potential interactions and binding characteristics that promote its strong binding to AgamOBP48.