Botulinum neurotoxins (BoNTs) are zinc proteases that cleave SNARE proteins to elicit flaccid paralysis by inhibiting neurotransmitter-carrying vesicle fusion to the plasma membrane of peripheral neurons. Unlike other zinc proteases, BoNTs recognize extended regions of SNAP25 for cleavage; however, the molecular basis for this extended substrate recognition is unclear. Here, we define a multistep mechanism for recognition and cleavage of SNAP25 by BoNT/A. SNAP25 initially binds along the belt region of BoNT/A, which aligns the P5 residue to the S5 pocket at the periphery of the active site. Although the exact order of each step of recognition of SNAP25 by BoNT/A at the active site is not clear, the initial binding could subsequently orient the P4-residue of SNAP25 to form a salt bridge with the S4-residue, which opens the active site allowing the P1-residue access to the S1-pocket. Subsequent hydrophobic interactions between the P3 residue of SNAP25 and the S3 pocket optimize alignment of the scissile bond for cleavage. This explains how the BoNTs recognize and cleave specific coiled SNARE substrates and provides insight into the development of inhibitors to prevent botulism.
Botulinum neurotoxins (BoNTs)2 are the most potent protein toxins for humans (1). There are seven BoNT serotypes, A-G, with serotypes A, B, and E responsible for most natural human intoxications (2). BoNT serotypes are defined by the specificity of antibody neutralization where antibodies that neutralize one serotype fail to neutralize other serotypes. There are two licensed vaccines against botulism, a pentavalent vaccine against serotypes A-E (3) and a heptavalent vaccine against serotypes A-G (4). However, these vaccines are produced from chemically inactivated BoNT produced in Clostridium botulinum and are currently in limited supply. BoNT intoxication has significant morbidity and mortality (5, 6). Thus, there is a need to develop more efficient vaccines and therapies against botulism.BoNTs are zinc proteases that elicit flaccid paralysis by inhibiting the fusion of neurotransmitter-carrying vesicles to the plasma membrane of peripheral neurons. BoNTs are 150-kDa single chain proteins that are activated by proteolysis to generate disulfidelinked di-chain proteins. BoNTs are organized into three functional domains, an N-terminal catalytic domain (light chain, LC), an internal translocation domain (HCT), and a C-terminal receptor binding domain (HCR) (7,8). The tropism for neurons is due to the affinity of BoNT for receptors on peripheral neurons (7). BoNTs enter neurons via receptor-mediated endocytosis, and upon acidification of the early endosome LC is translocated into the cytosol. LCs cleave neurotransmitter vesicle fusion proteins; BoNT/A cleaves SNAP25 between residues 197 and 198, and BoNT/E cleaves SNAP25 between residues 180 and 181 (9). BoNT/C cleaves both SNAP25 and syntaxin (10), whereas the other BoNT serotypes and tetanus toxin cleave the vesicle-associated membrane protein (11).Unlike other zinc proteases, BoNTs recognize...