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Basic information

Entry
Database: EMDB / ID: EMD-65173
TitleCryoEM structure of GasderminE-N pore
Map data
Sample
  • Complex: GSDME-N pore-C28
    • Protein or peptide: Gasdermin-E, N-terminal
KeywordsPyroptosis / Gasdermin / MEMBRANE PROTEIN
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.46 Å
AuthorsZhao X / Liu Z / Li S / Zhang K
Funding support1 items
OrganizationGrant numberCountry
Other government
CitationJournal: To Be Published
Title: Elucidating the Architectural Dynamics of MuB Filaments in Bacteriophage Mu DNA Transposition
Authors: Zhao X / Li S / Gao Y / Gong Q / Zhang K / Li S
History
DepositionJun 26, 2025-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_65173.png

Downloads & links

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Map

FileReleased
Voxel sizeX=Y=Z: 1.07 Å
Density
Contour LevelBy AUTHOR: 0.015
Minimum - Maximum-0.101101436 - 0.43637455
Average (Standard dev.)0.0005376254 (±0.013909)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 547.84 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : GSDME-N pore-C28

EntireName: GSDME-N pore-C28
Components
  • Complex: GSDME-N pore-C28
    • Protein or peptide: Gasdermin-E, N-terminal

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Supramolecule #1: GSDME-N pore-C28

SupramoleculeName: GSDME-N pore-C28 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Gasdermin-E, N-terminal

MacromoleculeName: Gasdermin-E, N-terminal / type: protein_or_peptide / ID: 1 / Number of copies: 28 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 29.633932 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: MFAKATRNFL REVDADGDLI AVSNLNDSDK LQLLSLVTKK KRFWCWQRPK YQFLSLTLGD VLIEDQFPSP VVVESDFVKY EGKFANHVS GTLETALGKV KLNLGGSSRV ESQSSFGTLR KQEVDLQQLI RDSAERTINL RNPVLQQVLE GRNEVLCVLT Q KITTMQKC ...String:
MFAKATRNFL REVDADGDLI AVSNLNDSDK LQLLSLVTKK KRFWCWQRPK YQFLSLTLGD VLIEDQFPSP VVVESDFVKY EGKFANHVS GTLETALGKV KLNLGGSSRV ESQSSFGTLR KQEVDLQQLI RDSAERTINL RNPVLQQVLE GRNEVLCVLT Q KITTMQKC VISEHMQVEE KCGGIVGIQT KTVQVSATED GNVTKDSNVV LEIPAATTIA YGVIELYVKL DGQFEFCLLR GK QGGFENK KRIDSVYLDP LVFREFA

UniProtKB: Gasdermin-E

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Number real images: 8188 / Average electron dose: 50.66 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.9 µm / Nominal defocus min: 1.1 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C28 (28 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 3.46 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.7.0) / Number images used: 162462
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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