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TitleLow-dose cryo-electron ptychography of proteins at sub-nanometer resolution.
Journal, issue, pagesNat Commun, Vol. 15, Issue 1, Page 8062, Year 2024
Publish dateSep 14, 2024
AuthorsBerk Küçükoğlu / Inayathulla Mohammed / Ricardo C Guerrero-Ferreira / Stephanie M Ribet / Georgios Varnavides / Max Leo Leidl / Kelvin Lau / Sergey Nazarov / Alexander Myasnikov / Massimo Kube / Julika Radecke / Carsten Sachse / Knut Müller-Caspary / Colin Ophus / Henning Stahlberg /
PubMed AbstractCryo-transmission electron microscopy (cryo-EM) of frozen hydrated specimens is an efficient method for the structural analysis of purified biological molecules. However, cryo-EM and cryo-electron ...Cryo-transmission electron microscopy (cryo-EM) of frozen hydrated specimens is an efficient method for the structural analysis of purified biological molecules. However, cryo-EM and cryo-electron tomography are limited by the low signal-to-noise ratio (SNR) of recorded images, making detection of smaller particles challenging. For dose-resilient samples often studied in the physical sciences, electron ptychography - a coherent diffractive imaging technique using 4D scanning transmission electron microscopy (4D-STEM) - has recently demonstrated excellent SNR and resolution down to tens of picometers for thin specimens imaged at room temperature. Here we apply 4D-STEM and ptychographic data analysis to frozen hydrated proteins, reaching sub-nanometer resolution 3D reconstructions. We employ low-dose cryo-EM with an aberration-corrected, convergent electron beam to collect 4D-STEM data for our reconstructions. The high frame rate of the electron detector allows us to record large datasets of electron diffraction patterns with substantial overlaps between the interaction volumes of adjacent scan positions, from which the scattering potentials of the samples are iteratively reconstructed. The reconstructed micrographs show strong SNR enabling the reconstruction of the structure of apoferritin protein at up to 5.8 Å resolution. We also show structural analysis of the Phi92 capsid and sheath, tobacco mosaic virus, and bacteriorhodopsin at slightly lower resolutions.
External linksNat Commun / PubMed:39277607 / PubMed Central
MethodsEM (single particle) / EM (helical sym.)
Resolution1.09 - 12.3 Å
Structure data

EMDB-19425: Low-dose cryo-electron ptychographic reconstruction of apoferritin recorded with CSA of 4.0 mrad
Method: EM (single particle) / Resolution: 5.8 Å

EMDB-19430: Low-dose cryo-electron ptychographic reconstruction of phi92-sheath recorded with CSA of 5.1 mrad
Method: EM (helical sym.) / Resolution: 8.4 Å

EMDB-19432: Low-dose cryo-electron ptychographic reconstruction of phi92-capsid recorded with CSA of 5.1 mrad
Method: EM (single particle) / Resolution: 12.3 Å

19436

8rqb

EMDB-19436, PDB-8rqb:
Cryo-EM structure of mouse heavy-chain apoferritin
Method: EM (single particle) / Resolution: 1.09 Å

EMDB-19885: Low-dose cryo-electron ptychographic reconstruction of TMV recorded with CSA of 6.1 mrad
Method: EM (helical sym.) / Resolution: 6.4 Å

Chemicals

ChemComp-FE:
Unknown entry

ChemComp-ZN:
Unknown entry

ChemComp-HOH:
WATER

Source
  • mus musculus (house mouse)
KeywordsMETAL BINDING PROTEIN / apoferritin / mouse / heavy-chain / high resolution

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