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Northwestern University Feinberg School of Medicine

Structural Biology Facility

The primary mission of the Structural Biology Facility is to provide state-of-the-art equipment, training, technical support and maintenance of equipment indispensable for structural biologists and other researchers studying the structures of biological macromolecules and materials. The facility also provides structure determination and data collection services, both for crystallography and cryoEM.

The facility plays an essential role in the research programs of investigators who are studying the relationship between macromolecular structure and function, using macromolecular structure as the starting point for structure-based drug design, or needing to characterize complex biomaterials. It is a unique resource at Northwestern University that capitalizes on the extensive expertise of its facility managers to provide access and support for experiments using the synchrotron radiation X-ray source at the Life Sciences Collaborative Access Team (LS-CAT) beamlines at the Advanced Photon Source (APS) at Argonne National Laboratory and state-of-the-art electron microscopes and detectors, suitable for atomic-level structural studies by CryoEM on the Evanston campus.

Contact Us

 Ao Cheng, PhD
Cryo-Em Facility Manager

Pamela J. Focia, PhD
Crystallography Facility Manager

Jason Pattie
Computational Facility Manger

Services & Equipment

 Key Services

Support and Training

  • Macromolecular Crystallography, from designing crystallization experiments to structure determination and refinement. 1:1 training available in all techniques.
  • CryoEM 1:1 training for users, support ranging from specimen development, specimen preparation, and imaging to computational image analysis, and structure determination
  • Computational drug design and structural simulations
  • Molecular graphics for analysis and presentation

Macromolecular Structure Determination and Analysis, Crystallography

  • Support for macromolecular crystallography at the Life Sciences Collaborative Access Team (LS-CAT) at Sector 21 of the Advanced Photon Source at Argonne National Laboratory, including Remote Data Collection capabilities
  • Robotics equipment for crystallization experiments on both campuses, including membrane proteins in the lipidic cubic phase and in bicelles
  • UV crystal imaging capabilities on both campuses
  • Software for structure analysis (Crystallography, NMR, Cryo EM, Modeling, Simulations and Drug Discovery)
  • Advanced graphics facilities for visualization/presentation of molecular structures
  • Powerful servers to perform long and complex calculations
  • High-throughput fluorometric analyses of macromolecular interactions

Full Services Section

  • Expert consultation (Crystallography, CryoEM, Computational)
  • Structure determination and data collection services for crystallography and cryoEM
  • Opportunity for potential/active users of the facility to have 1:1 meetings with facility staff to discuss project related issues or to obtain extensive training
  • Full-service structure determination by Facility Staff using X-ray crystallography techniques
  • JEOL 1400 Full Sample Evaluation - Fee for Service option to have initial sample evaluation performed by facility staff
  • CryoEM Glacios™ Full Sample Evaluation - Fee for Service option to have initial sample evaluation performed by facility staff

 Equipment

Synchrotron Crystallography (Sector 21, LS-CAT of the Advanced Photon Source, Argonne National Laboratory)

  • Dectris EIGER2 X 16M continuous readout detector (21-ID-D)
  • Dectris EIGER X 9M continuous readout detector (21-ID-F)
  • Dectris PILATUS3 X 6M continuous readout detector (21-ID-G)
  • 2 Rayonix MX-300 mm CCD detector (21-ID-F, 21-ID-G)
  • 4 Cryogenic Automated Transfer System (CATS) sample changers
  • 4 Oxford Cryojet liquid nitrogen cryocoolers
  • 3 Arinax MD3-UP microdifractometers
  • 4 MAATEL MD2 microdifractometers
  • Assorted cryocrystallography equipment and tools

In-House Crystallography (Chicago Campus in Tarry 7-710)

  • Art Robbins, Inc. Phoenix crystallization robot
  • Jansi UVEX UV/Vis microscope/imaging system
  • Stereomicroscopes (camera equipped, at room temperature and 4 degrees C)
  • Molecular characterization: Tecan Safire2 multimode, multiplate reader (UV/Vis, Fluorescence, Luminescence)

Evanston Campus (fourth floor of Cook Hall)

  • Art Robbins, Inc. Gryphon crystallization robot (for both soluble proteins, and also for membrane proteins using the Lipidic Cubic Phase and bicelles)
  • Robomicroscope automated crystal imaging system
  • 2 Jansi UVEX UV/Vis microscope/imaging systems (one each at room temperature and 4 degrees C)
  • Stereomicroscopes (at room temperature and 4 degrees C)
  • Incubators for temperature-controlled crystallization

Cryo Electron Microscopy (Evanston Campus, B509 Silverman Hall and Silverman Hall 2nd Floor)

  • Cressington 308R carbon coater and thickness monitor used to make carbon support films for TEM samples
  • Leica Carbon Coater ACE 600
  • 2 Vitrobot Systems for cryoEM grid preparation
  • Clipping Station and Tools
  • Glacios™ Cryo-TEM is equipped with a 200 kV field emission gun and features a Thermo Fisher Falcon 4i Direct Electron Detector, along with a Selectris post-column image filter which enhances the contrast of TEM images. This setup enables the acquisition of high-resolution structures down to atomic resolution. Additionally, the Glacios offers Fringe-Free Imaging (FFI), reducing the illuminated area and minimizing sample damage, allowing for more images to be captured within a single foil hole.
  • Pelco Glow Discharge apparatus

Computational (Evanston Campus, fourth floor of Cook Hall)

  • 24 node Xeon E5-2680/Pentium 4 Xeon/AMD Opteron cluster running Linux
  • 7 Quad-core Intel Xeon 3.4GHz workstations (3D stereo equipped for visualization and model building)
  • 3 Dual Quad-core Intel Xeon 3.5GHz workstations with GPU computing capabilities (3D stereo equipped for visualization, model building, and GPU computing)
  • DVD/CD writers for quick data backup
  • 45 tape LTO6 system for continuous data backup
  • Over 80 Tb of disk storage including RAID systems
  • 10 Gigabit fiber Ethernet connection to APS and to CryoEM microscope

 Software

We support a wide variety of software for structure determination and analysis with identical computing environments on both the Evanston and Chicago campuses. Macromolecular crystallography software includes the CCP4 suite, Phenix, CNS, SHARP, and SOLVE, and X-ray diffraction data processing programs HKL2000, XDS and MOSFLM. For cryoEM we support appion, EMAN, relion, Spider, Xmipps and others. For NMR we support CNS, FELIX and Aria. We support molecular graphics software for model building, analysis and presentation including COOT, Pymol, MIDAS, Molscript, Raster3D, RasMol, WHATIF, XtalView, Quanta and GRASP. We support modeling, simulations and drug discovery software packages including AlphaFold, DOCK, AutoDock, GOLD, SYBYL, Allegro, Delphi, GROMACS, AMBER, AMSOL, MS and INSIGHT/DISCOVER.

 Acknowledgement

All manuscripts and grants presenting work supported by this core should include the following acknowledgement:

This work used resources of the Northwestern University Structural Biology Facility, which is generously supported by NCI CCSG P30 CA060553 awarded to the Robert H. Lurie Comprehensive Cancer Center.

If K2 detector was used: 

The Gatan K2 direct electron detector was purchased with funds provided by the Chicago Biomedical Consortium with support from the Searle Funds at The Chicago Community Trust

If K3 detector was used: 

We acknowledge the use of the Ametek K3 direct electron detector, which was generously provided by Professor Robert A. Lamb, Ph.D., Sc.D., HHMI investigator

If LS-CAT resources were used:

This research used resources of the Advanced Photon Source, a U.S. Department of Energy (DOE) Office of Science User Facility operated for the DOE Office of Science by Argonne National Laboratory under Contract No. DE-AC02-06CH11357. Use of the LS-CAT Sector 21 was supported by the Michigan Economic Development Corporation and the Michigan Technology Tri-Corridor (Grant 085P1000817).

 

Core Navigator

For guidance on which cores may be most useful for your research and to coordinate use, please contact Core Navigator Sara Fernandez Dunne at s-fernandez@northwestern.edu or 847.491.5960.