Autophagy is a vital response to nutrient starvation. Here, we screened a kinase-specific siRNA library using an autophagy assay in human embryonic kidney 293 cells that measures lipidation of the marker protein GFP-LC3 following amino acid starvation. This screen identified ULK1 in addition to other novel candidates that could be confirmed with multiple siRNAs. Knockdown of ULK1, but not the related kinase ULK2, inhibited the autophagic response. Also, ULK1 knockdown inhibited rapamycin-induced autophagy consistent with a role downstream of mTOR. Overexpression of ULK1 inhibited autophagy and this inhibition was independent of its kinase activity. Deletion of the PDZ domain-binding Val-Tyr-Ala motif at the ULK1 C terminus generated a more potent dominant-negative protein. Further deletions revealed that the minimal ULK1 dominant-negative region could be mapped to residues 1-351. Fulllength ULK1 localized to cytoplasmic structures, some of which were GFP-LC3-positive, and this localization required the conserved C-terminal domain. In contrast, ULK1-(1-351) was diffuse in the cytoplasm. These experiments reveal at least two domains in ULK1 which likely function via unique sets of effectors to regulate autophagy.During macroautophagy, a membrane cisterna wraps around cytoplasmic material to form a nascent autophagosome, which subsequently fuses with degradative endosomes. The targets of autophagy can include long-lived proteins, damaged organelles, ubiquitinated cellular substrates, and aberrant protein aggregates (1-4). Macroautophagy, which we refer to here as autophagy, is rapidly induced in response to amino acid deprivation and acts to recycle free molecular building blocks to the starving cell. Reflecting this cellular metabolic role, autophagy also appears to be critical in the maintenance of proper nutritional balance in the context of neonatal mice, developing Dictyostelium, and Caenorhabditis elegans undergoing development arrest (1, 5-7). Autophagy is also a major component of type-II non-apoptotic programmed cell death, and this may form part of the response to certain types of cell stress (8 -12). The recent implication of autophagy in medical contexts such as cancer, neurodegeneration and immunity have increased interest in elucidating the basic molecular mechanisms of the process (4, 13-16).Two yeast screens pioneered the identification of molecular components required for autophagy and a unified nomenclature has been devised for these genes (17)(18)(19). Although the function for many of these genes is unknown, a large proportion can be grouped into distinct biochemical pathways. Studies in yeast and mammalian cells have established the stepwise progression of these pathways, which appear to be essential at an early stage of autophagy (20, 21). For example, the gene products of Atg3, Atg4, Atg5, Atg7, Atg8, Atg10, Atg12, and Atg16 function coordinately in two interrelated ubiquitin-like conjugation systems (22-24). Importantly, yeast Atg8p and its mammalian homologs become covalently linked to a ph...