8DFC

CryoEM structure of the 1:1 ADP-tetrafluoroaluminate stabilized nitrogenase complex from Azotobacter vinelandii

Summary for 8DFC

• Entry DOI: 10.2210/pdb8dfc/pdb
• EMDB information: 27404 27405
• Descriptor: Nitrogenase molybdenum-iron protein alpha chain, TETRAFLUOROALUMINATE ION, MAGNESIUM ION, ... (12 entities in total)
• Functional Keywords: nitrogenase, metalloenzyme, metal binding protein, oxidoreductase
• Biological source: Azotobacter vinelandii; More
• Total number of polymer chains: 6
• Total formula weight: 297796.25

Authors

Warmack, R.A.,Rees, D.C. (deposition date: 2022-06-21, release date: 2023-06-28, Last modification date: 2024-04-17)

Primary citation

Warmack, R.A.,Wenke, B.B.,Spatzal, T.,Rees, D.C.
Anaerobic cryoEM protocols for air-sensitive nitrogenase proteins.
Nat Protoc, 2024

PubMed Abstract: Single-particle cryo-electron microscopy (cryoEM) provides an attractive avenue for advancing our atomic resolution understanding of materials, molecules and living systems. However, the vast majority of published cryoEM methodologies focus on the characterization of aerobically purified samples. Air-sensitive enzymes and microorganisms represent important yet understudied systems in structural biology. We have recently demonstrated the success of an anaerobic single-particle cryoEM workflow applied to the air-sensitive nitrogenase enzymes. In this protocol, we detail the use of Schlenk lines and anaerobic chambers to prepare samples, including a protein tag for monitoring sample exposure to oxygen in air. We describe how to use a plunge freezing apparatus inside of a soft-sided vinyl chamber of the type we routinely use for anaerobic biochemistry and crystallography of oxygen-sensitive proteins. Manual control of the airlock allows for introduction of liquid cryogens into the tent. A custom vacuum port provides slow, continuous evacuation of the tent atmosphere to avoid accumulation of flammable vapors within the enclosed chamber. These methods allowed us to obtain high-resolution structures of both nitrogenase proteins using single-particle cryoEM. The procedures involved can be generally subdivided into a 4 d anaerobic sample generation procedure, and a 1 d anaerobic cryoEM sample preparation step, followed by conventional cryoEM imaging and processing steps. As nitrogen is a substrate for nitrogenase, the Schlenk lines and anaerobic chambers described in this procedure are operated under an argon atmosphere; however, the system and these procedures are compatible with other controlled gas environments.

PubMed: 38575747
DOI: 10.1038/s41596-024-00973-5

Experimental method

ELECTRON MICROSCOPY (2.48 Å)