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- EMDB-36732: Cryo-EM structure of the gasdermin pore from Trichoplax adhaerens -
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Open data
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Basic information
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Title | Cryo-EM structure of the gasdermin pore from Trichoplax adhaerens | |||||||||
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Function / homology | Gasdermin-E / Gasdermin, pore forming domain / Gasdermin pore forming domain / ![]() ![]() ![]() | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Hou YJ / Sun Q / Zeng H / Ding J | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cleavage-independent activation of ancient eukaryotic gasdermins and structural mechanisms. Authors: Yueyue Li / Yanjie Hou / Qi Sun / Huan Zeng / Fanyi Meng / Xiang Tian / Qun He / Feng Shao / Jingjin Ding / ![]() Abstract: Gasdermins (GSDMs) are pore-forming proteins that execute pyroptosis for immune defense. GSDMs are two-domain proteins activated by proteolytic removal of the inhibitory domain. In this work, we ...Gasdermins (GSDMs) are pore-forming proteins that execute pyroptosis for immune defense. GSDMs are two-domain proteins activated by proteolytic removal of the inhibitory domain. In this work, we report two types of cleavage-independent GSDM activation. First, GSDM, a pore-forming domain-only protein from the basal metazoan , is a disulfides-linked autoinhibited dimer activated by reduction of the disulfides. The cryo-electron microscopy (cryo-EM) structure illustrates the assembly mechanism for the 44-mer GSDM pore. Second, RCD-1-1 and RCD-1-2, encoded by the polymorphic () gene in filamentous fungus , are also pore-forming domain-only GSDMs. RCD-1-1 and RCD-1-2, when encountering each other, form pores and cause pyroptosis, underlying allorecognition in . The cryo-EM structure reveals a pore of 11 RCD-1-1/RCD-1-2 heterodimers and a heterodimerization-triggered pore assembly mechanism. This study shows mechanistic diversities in GSDM activation and indicates versatile functions of GSDMs. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 228.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.2 KB 15.2 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.1 KB | Display | ![]() |
Images | ![]() | 130.2 KB | ||
Filedesc metadata | ![]() | 5.6 KB | ||
Others | ![]() ![]() | 187.2 MB 187.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8jywMC ![]() 8jyvC ![]() 8jyxC ![]() 8jyyC ![]() 8jyzC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Map
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Voxel size | X=Y=Z: 1.36 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_36732_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_36732_half_map_2.map | ||||||||||||
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Density Histograms |
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Sample components
-Entire : Gasdermin pore from Trichoplax adhaerens
Entire | Name: Gasdermin pore from Trichoplax adhaerens |
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Components |
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-Supramolecule #1: Gasdermin pore from Trichoplax adhaerens
Supramolecule | Name: Gasdermin pore from Trichoplax adhaerens / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() ![]() |
-Macromolecule #1: Gasdermin pore forming domain-containing protein
Macromolecule | Name: Gasdermin pore forming domain-containing protein / type: protein_or_peptide / ID: 1 / Number of copies: 88 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() ![]() |
Molecular weight | Theoretical: 27.213355 KDa |
Recombinant expression | Organism: ![]() ![]() ![]() |
Sequence | String: SGRPMFAVAV NEFIRSAGQD SLCGVPDINS SGDFMPLHII VKEVPKVLPC CRRPKIKRTP YTLNDILDEP CPNQLKSSDL VTFTEPLVS NVKASSSIGL QILKHFDSGA KGSKNFITSA SLGTVVKAET IDITKVLAKV RTAKAKVEND LVSRVMKTKR L CLGLVVET ...String: SGRPMFAVAV NEFIRSAGQD SLCGVPDINS SGDFMPLHII VKEVPKVLPC CRRPKIKRTP YTLNDILDEP CPNQLKSSDL VTFTEPLVS NVKASSSIGL QILKHFDSGA KGSKNFITSA SLGTVVKAET IDITKVLAKV RTAKAKVEND LVSRVMKTKR L CLGLVVET ACVAAAGKLT EADNWEISGH TNANIGEAVV TATAELDKNL SRKIEIPPGT ALAYSFMDLE ILEDRSLRVS SS AGAMFDS GKAESTV UniProtKB: Gasdermin pore forming domain-containing protein |
-Experimental details
-Structure determination
Method | ![]() |
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Aggregation state | particle |
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Sample preparation
Concentration | 0.5 mg/mL | ||||||||
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Buffer | pH: 7 Component:
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Grid | Model: Quantifoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: GRAPHENE OXIDE / Pretreatment - Type: GLOW DISCHARGE | ||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD![]() |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 49.0 e/Å2 |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |