Fig. 4: Binding interfaces between GSDMD and VHHGSDMD-2 and VHHGSDMD-6.
From: Pyroptosis inhibiting nanobodies block Gasdermin D pore formation
a Cartoon representation of the GSDMD NTD/GSDMD’ CTD–VHHGSDMD-2–VHHGSDMD-6 structure showing GSDMD, GSDMD’ NTD, VHHGSDMD-2 and VHHGSDMD-6. The CDR1, -2, and -3 regions of the nanobodies are highlighted in yellow, orange, and cyan, respectively. b Electrostatic surface potential of the GSDMD–nanobody complex. The VHHGSDMD-2 and VHHGSDMD-6 binding epitopes on the surface of GSDMD are marked with dotted lines. The complementary interfaces are displayed in the “open book” conformation. c Details of the VHHGSDMD-2 to GSDMD interface. The CDR1 (yellow) and CDR2 (orange) interactions with the NTD are shown in the middle panel, while the CRD3 (cyan) interactions are shown in the right panel. d Details of the VHHGSDMD-6 to GSDMD interface. The CDR interactions with the NTD and linker region of GSDMD are shown in the middle and right panel following the same color coding as in c.
