9ENT

SSX structure of Autotaxin in cryogenic conditions

Summary for 9ENT

• Entry DOI: 10.2210/pdb9ent/pdb
• Descriptor: Ectonucleotide pyrophosphatase/phosphodiesterase family member 2, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 7alpha-hydroxycholesterol, ... (9 entities in total)
• Functional Keywords: autotaxin, lpa, ssx, hydrolase
• Biological source: Rattus norvegicus (Norway rat)
• Total number of polymer chains: 1
• Total formula weight: 102144.06

Authors

Eymery, M.C.,McCarthy, A.A.,Foos, N.,Basu, S. (deposition date: 2024-03-13, release date: 2024-07-31, Last modification date: 2024-11-20)

Primary citation

Foos, N.,Florial, J.B.,Eymery, M.,Sinoir, J.,Felisaz, F.,Oscarsson, M.,Beteva, A.,Bowler, M.W.,Nurizzo, D.,Papp, G.,Soler-Lopez, M.,Nanao, M.,Basu, S.,McCarthy, A.A.
In situ serial crystallography facilitates 96-well plate structural analysis at low symmetry.
Iucrj, 11:780-791, 2024

PubMed Abstract: The advent of serial crystallography has rejuvenated and popularized room-temperature X-ray crystal structure determination. Structures determined at physiological temperature reveal protein flexibility and dynamics. In addition, challenging samples (e.g. large complexes, membrane proteins and viruses) form fragile crystals that are often difficult to harvest for cryo-crystallography. Moreover, a typical serial crystallography experiment requires a large number of microcrystals, mainly achievable through batch crystallization. Many medically relevant samples are expressed in mammalian cell lines, producing a meager quantity of protein that is incompatible with batch crystallization. This can limit the scope of serial crystallography approaches. Direct in situ data collection from a 96-well crystallization plate enables not only the identification of the best diffracting crystallization condition but also the possibility for structure determination under ambient conditions. Here, we describe an in situ serial crystallography (iSX) approach, facilitating direct measurement from crystallization plates mounted on a rapidly exchangeable universal plate holder deployed at a microfocus beamline, ID23-2, at the European Synchrotron Radiation Facility. We applied our iSX approach on a challenging project, autotaxin, a therapeutic target expressed in a stable human cell line, to determine the structure in the lowest-symmetry P1 space group at 3.0 Å resolution. Our in situ data collection strategy provided a complete dataset for structure determination while screening various crystallization conditions. Our data analysis reveals that the iSX approach is highly efficient at a microfocus beamline, improving throughput and demonstrating how crystallization plates can be routinely used as an alternative method of presenting samples for serial crystallography experiments at synchrotrons.

PubMed: 39008358
DOI: 10.1107/S2052252524005785

Experimental method

X-RAY DIFFRACTION (2.2 Å)