The heat shock protein 70 kDa (Hsp70)/DnaJ/nucleotide exchange factor system assists in intracellular protein (re)folding. Using solution NMR, we obtained a three-dimensional structure for a 75-kDa Hsp70-DnaJ complex in the ADP state, loaded with substrate peptide. We establish that the J domain (residues 1-70) binds with its positively charged helix II to a negatively charged loop in the Hsp70 nucleotide-binding domain. The complex shows an unusual "tethered" binding mode which is stoichiometric and saturable, but which has a dynamic interface. The complex represents part of a triple complex of Hsp70 and DnaJ both bound to substrate protein.Mutagenesis data indicate that the interface is also of relevance for the interaction of Hsp70 and DnaJ in the ATP state. The solution complex is completely different from a crystal structure of a disulfide-linked complex of homologous proteins [Jiang, et al. (2007) Mol Cell 28:422-433].protein interactions | structural biology T he heat shock protein 70 kDa, heat shock protein 40 kDa, nucleotide exchange factor (Hsp70/Hsp40/NEF) system, is an essential chaperone system that facilitates the folding and refolding of proteins in healthy and stressed cells (1). The system is upregulated in tumors (2), is involved in Alzheimer's disease (3), and is an emerging target for therapy of these diseases (3). In this work, we study the bacterial Hsp70/Hsp40/NEF system, which is called DnaK/DnaJ/GrpE. Because DnaK and DnaJ are, respectively, 68% and 54% homologous to their human counterparts Hsc70 and HDJ2, the bacterial system is generally viewed as a prototype for the human Hsp70 chaperone system. DnaK is an allosteric protein, in which ATP binding at the nucleotide-binding domain (NBD) causes substrate release at the substrate-binding domain (SBD) with opening of the LID (residues 508-602) (1). Although structures for the individual domains and several truncations have long been known, only one structure for a near complete, not mutated Hsp70 is available to date: DnaK(1-605) of Escherichia coli in the presence of ADP, and the substrate peptide NRLLLTG (NR) (4). In this structure, the LID domain is docked to the SBD, but the SBD-LID unit moves rather unrestricted with respect to the NBD. The NBD and SBD of DnaK do interact in the ATP state (5, 6), but no structure for any Hsp70 in that state has been determined to date.E. coli DnaJ contains an N-terminal 70-residue J domain, followed by an approximately 40-residue Gly/Phe-rich (GF) region, a Zn-Cys domain, a substrate-binding domain, and a dimerization domain. DnaJ binds to stretches of exposed hydrophobic residues in client proteins (7). The J domain alone has been shown to be sufficient to stimulate ATPase activity of DnaK (8) Residues 1-70 form an antiparallel two-helix bundle, referred to as helices II and III, with two small adjacent helical elements (9, 10). The positively charged residues referred to above are in helix II, whereas the HPD motif is located in a loop connecting helices II and III. The GF region (residues 71-108) ...