The binding of low molecular weight type II phospholipase A 2 (EC 3.1.1.4) to membrane surfaces and hydrolysis of phospholipid are thought to involve the formation of a hydrophobic channel into which a single substrate molecule diffuses before cleavage. The floor and right side of the channel are provided by hydrophobic residues 2, 5, and 9 of an amphipathic amino-terminal helix. The channel is postulated to form via a conformational change in this helix and inward movement of a hydrophobic flap (residue 69 side chain). We show that the amino-terminal tryptic peptide of human type II phospholipase A 2 forms a noncovalent complex with the tryptic peptide from residues 70 -74 of the enzyme. Further, the 70 -74-peptide sequence (FLSYK) dose-dependently inhibits phospholipid hydrolysis in a mixed micelle assay. This native peptide inhibition also occurred with type II enzymes from Crotalus durissus and Crotalus atrox, which have different amino acid sequences at the amino terminus as well as different 70 -74 regions of the molecules. Despite significant conservation of tertiary structure among the enzymes, inhibition by each peptide is specific to the enzyme from which the peptide sequence is derived. We propose that these native peptides inhibit enzyme activity via a sequencespecific, noncovalent interaction with the amino-terminal residues of the enzyme, thereby preventing the conformational change on binding to the micelle interface. These experiments demonstrate a new method for specific inhibition of phospholipase A 2 which, in principle, would be applicable to other biologically active polypeptides and proteins.Secretory phospholipases A 2 (PLA 2 ) 1 are a family of calciumdependent 14-kDa enzymes that catalyze the hydrolysis of the S n 2 fatty acyl ester bond of phospholipids (1). These enzymes, which were first described as components of snake venoms and later in mammals, are classified into two major classes, type I and type II, based on their primary structures. Type I PLA 2 of mammalian origin is mainly found in the pancreas (2), while the type II enzyme is stored in secretory granules in blood platelets, macrophages, and neutrophils (3, 4) and in tissues is localized in mast cells, Paneth cells, and chondrocytes (5, 6). It is also found in fluids derived from patients with inflammatory conditions (7,8) and is induced in several cell types in response to inflammatory stimuli (5). Despite differences in their primary sequences (ϳ30% homology only), crystal structures of PLA 2 from bovine pancreas (type I) and human synovial fluid (type II) are almost superimposable and, not surprisingly, the active sites from both types of enzymes are virtually identical (9). Asp-99 and His-48 form an essential catalytic dyad in the fashion of serine proteases (10). Tyr-52 and Tyr-73 appear to be associated with these two residues via a hydrogen bonding network, but there is evidence (11) that Tyr-52 is not essential for the catalytic reaction.From structure-function studies of type I and II enzymes, the first eight residu...