The ability of sterol carrier protein-2 (SCP-2) to interact with long chain fatty acyl-CoAs was examined. SCP-2 bound fluorescent fatty acyl-CoAs at a single site with high affinity. K d values for cis-and trans-parinaroylCoA were 4.5 and 2.8 nM, respectively. Saturated 10 -18-carbon and unsaturated 14 -20-carbon fatty acyl-CoAs displaced SCP-2-bound fluorescent ligand. Oleoyl-CoA and oleic acid (but not coenzyme A) significantly altered SCP-2 Trp 50 emission and anisotropy decay, thereby increasing SCP-2 rotational correlation time, SCP-2 hydrodynamic radius, and SCP-2 Trp 50 remaining anisotropy up to 1.7-, 1.2-, and 1.3-fold, respectively. These changes were not accompanied by significant alterations in protein secondary structure as determined by circular dichroism. Finally, SCP-2 differentially altered the fluorescence emission and anisotropy decays of bound cis-and trans-parinaroyl-CoA. Both fluorescent fatty acyl-CoAs were located within a very ordered (limited cone angle of rotation) environment within SCP-2, as shown by a remaining anisotropy of 0.365 and 0.361 and a wobbling cone angle of 12 and 13°, respectively. These anisotropy values were very close to those of such ligands in a propylene glass. However, the rotational relaxation times exhibited by SCP-2-bound cis-and trans-parinaroyl-CoA, 8.4 -8.8 ns, were longer than those for the corresponding free fatty acid, 7.5-6.6 ns. These data show for the first time that SCP-2 is a fatty acylCoA-binding protein.Long chain fatty acyl-CoAs are not only important in the intermediary metabolism of fatty acids and the production of cellular energy; they are also potent regulators of many intracellular functions including neutrophil signaling, Ca 2ϩ signaling, insulin release, protein acylation, protein kinase activation, and gene transcription (reviewed in Ref. 1). The fatty acyl-CoAs are extremely potent, with regulatory activities occurring in the low nanomolar range (2-6).Cellular concentrations of fatty acyl-CoAs range from 2 to 248 nmol/g of protein, depending on tissue, and are as high as 110 -150 M in the cytosol of normal liver (reviewed in Ref. 1). Furthermore, fatty acyl-CoA levels can vary over a 20-fold range, depending on nutrition, drugs, endocrine status, or oxygenation (reviewed in Ref. 1). Cytosolic fatty acyl-CoAs are found bound to cell membranes (7) and to small nonenzymatic cytosolic proteins.It was recognized over 20 years ago that cytosolic fatty acidbinding proteins, representing 2-6% of cytosolic protein, can bind fatty acyl-CoAs (reviewed in Ref. 1). More than 17 members of this family have thus far been identified, with most of them having low micromolar affinities for fatty acyl-CoAs. More recently a totally different fatty acyl-CoA-binding protein (ACBP), 1 unrelated to the fatty acid-binding protein superfamily, was reported (8). ACBP has higher affinity for fatty acylCoAs than the fatty acid-binding proteins (9, 10).In contrast to the ACBP, the cellular sterol carrier protein-2 (SCP-2) has long been associated with the metabolism...