Since 2016, the Electron Microscopy (EM) facility provides advanced expertise in electron cryomicroscopy, from sample preparation to image analysis, with a focus on single particle analysis.

The equipment is maintained and managed by the facility staff, who also provide training and assistance for anyone wishing to use any of the equipment listed below.
Cryo-EM facilities are available for internal users and on a collaborative basis. Please get in touch with Sarah Schneider to discuss possible access.

Equipment

EM lab equipment

Tecnai G2 Spirit BT (T12)

120 kV accelerating voltage, LaB6 source. 16M CETA camera, used mainly for negative staining samples, but also capable of cryo-EM using side entry cryo-holders.

EM lab equipment

Glacios

200 kV accelerating voltage, field emission gun (X-FEG) source. This microscope is equipped with an autoloader, Falcon 4i direct electron detector and SelectrisX energy filter. The setup is connected to WARP on-the-fly data processing node. This microscope is used for cryo-EM sample optimisation and data collection.

Supporting equipment:

Fischione 1070 PLasma Cleaner

Vitrobot Mark IV

PELCO EasiGlow glow discharger

Edwards carbon evaporator

Data storage

We use 2PB storage system running on NetApp technology for cryo-EM data storage and processing. Additionally, a 200 TB parallel file system using BeeGFS technology is used as a scratch space for fast data processing.

High-performance computing cluster

The computing cluster shared with the Institut de Biologie Structurale (IBS) allows efficient data processing using state-of-the-art data processing software such as Relion or CryoSPARC. Eight cluster nodes comprising a total of 40 GPUs allow efficient data processing by multiple users. CPU cluster with 600 CPU provides additional resources for other software packages. Several dedicated GPU-servers are available for specialised usage (i.e. deep learning applications and on-the-fly data processing). High-performance computing at EMBL is supported by SBGrid.


Recent publications

  • Kouba T, Dubankova A, Drncova P, Donati E, Vidossich P, Speranzini V, Pflug A, Huchting J, Meier C, De Vivo M, Cusack S (2023)
    Direct observation of backtracking by influenza A and B polymerases upon consecutive incorporation of the nucleoside analog T1106.
    Cell reports 42(1):111901.
    https://doi.org/10.1016/j.celrep.2022.111901
  • Dolce LG, Zimmer AA, Tengo L, Weis F, Rubio MAT, Alfonzo JD, Kowalinski E (2022).
    Structural basis for sequence-independent substrate selection by eukaryotic wobble base tRNA deaminase ADAT2/3.
    Nat Commun. 13(1):6737.
    https://doi.org/10.1038/s41467-022-34441-z
  • Wandzik J, Kouba T, Karuppasamy M, Pflug A, Drncova P, Provaznik J, Azevedo N, Cusack S (2020).
    A Structure-Based Model for the Complete Transcription Cycle of Influenza Polymerase.
    Cell 181(4):877-893.
    https://doi.org/10.1016/j.cell.2020.03.061

EM Team


Collaboration

EMBL Grenoble also participates, together with the other Partnership for Structural Biology (PSB) institutes, in running the CM01 Titan Krios cryo-electron microscope at the ESRF for external users.

For more information regarding access, you can visit the ESRF page or contact EMBL staff scientist Michael Hons.

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