Natural killer cells and cytotoxic T lymphocytes accomplish the critically important function of killing virus-infected and neoplastic cells. They do this by releasing the pore-forming protein perforin and granzyme proteases from cytoplasmic granules into the cleft formed between the abutting killer and target cell membranes. Perforin, a 67-kilodalton multidomain protein, oligomerizes to form pores that deliver the pro-apoptopic granzymes into the cytosol of the target cell1,2,3,4,5,6. The importance of perforin is highlighted by the fatal consequences of congenital perforin deficiency, with more than 50 different perforin mutations linked to familial haemophagocytic lymphohistiocytosis (type 2 FHL)7. Here we elucidate the mechanism of perforin pore formation by determining the X-ray crystal structure of monomeric murine perforin, together with a cryo-electron microscopy reconstruction of the entire perforin pore. Perforin is a thin ‘key-shaped’ molecule, comprising an amino-terminal membrane attack complex perforin-like (MACPF)/cholesterol dependent cytolysin (CDC) domain8,9 followed by an epidermal growth factor (EGF) domain that, together with the extreme carboxy-terminal sequence, forms a central shelf-like structure. A C-terminal C2 domain mediates initial, Ca2+-dependent membrane binding. Most unexpectedly, however, electron microscopy reveals that the orientation of the perforin MACPF domain in the pore is inside-out relative to the subunit arrangement in CDCs10,11. These data reveal remarkable flexibility in the mechanism of action of the conserved MACPF/CDC fold and provide new insights into how related immune defence molecules such as complement proteins assemble into pores.
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Protein Data Bank
Structure factors and coordinates are deposited in the Protein Data Bank under accession number 3NSJ. Electron microscopy maps are deposited in the EM Databank (accession numbers EMD-1772 and EMD-1773 for the two conformations of perforin monomer and EMD-1769 for the pore).
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J.C.W. is an Australian Research Council Federation Fellow and Honorary National Health and Medical Research Council of Australia Principal Research Fellow. I.V., F.C. and M.A.D. are NHMRC Career Development Fellows. K.B. is an NHMRC C.J. Martin overseas training fellow. J.A.T. acknowledges the support of an NHMRC Senior Principal Research Fellowship during the course of the work. The authors thank the NHMRC, the ARC, the UK BBSRC and the Wellcome Trust for grant support. We thank the Australian synchrotron beamline scientists for technical support and access to the MX-2 Microfocus Beamline; we thank D. Clare and L. Wang for electron microscopy support, and D. Houldershaw, R. Westlake and K. Mahmood for computing support. We thank D. Steer and the Monash University Proteomics Unit for technical support.
The authors declare no competing financial interests.
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Law, R., Lukoyanova, N., Voskoboinik, I. et al. The structural basis for membrane binding and pore formation by lymphocyte perforin. Nature 468, 447–451 (2010). https://doi.org/10.1038/nature09518
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