Small-scale, semi-automated purification of eukaryotic proteins for structure determination.

TitleSmall-scale, semi-automated purification of eukaryotic proteins for structure determination.
Publication TypeJournal Article
Year of Publication2007
AuthorsFrederick RO, Bergeman L, Blommel PG, Bailey LJ, McCoy JG, Song J, Meske L, Bingman CA, Riters M, Dillon NA, Kunert J, Yoon JWhan, Lim A, Cassidy M, Bunge J, Aceti DJ, Primm JG, Markley JL, Phillips GN, Fox BG
JournalJ Struct Funct Genomics
Date Published2007 Dec
KeywordsAmino Acid Sequence, Animals, Automation, Base Sequence, Chromatography, Affinity, Crystallization, Electrophoresis, Agar Gel, Eukaryotic Cells, Green Fluorescent Proteins, Humans, Mice, Molecular Sequence Data, Nuclear Magnetic Resonance, Biomolecular, Plasmids, Protein Structure, Tertiary, Proteins, Proto-Oncogene Proteins, Sequence Homology, Nucleic Acid, Xenopus laevis

A simple approach that allows cost-effective automated purification of recombinant proteins in levels sufficient for functional characterization or structural studies is described. Studies with four human stem cell proteins, an engineered version of green fluorescent protein, and other proteins are included. The method combines an expression vector (pVP62K) that provides in vivo cleavage of an initial fusion protein, a factorial designed auto-induction medium that improves the performance of small-scale production, and rapid, automated metal affinity purification of His8-tagged proteins. For initial small-scale production screening, single colony transformants were grown overnight in 0.4 ml of auto-induction medium, produced proteins were purified using the Promega Maxwell 16, and purification results were analyzed by Caliper LC90 capillary electrophoresis. The yield of purified [U-15N]-His8-Tcl-1 was 7.5 microg/ml of culture medium, of purified [U-15N]-His8-GFP was 68 microg/ml, and of purified selenomethione-labeled AIA-GFP (His8 removed by treatment with TEV protease) was 172 microg/ml. The yield information obtained from a successful automated purification from 0.4 ml was used to inform the decision to scale-up for a second meso-scale (10-50 ml) cell growth and automated purification. 1H-15N NMR HSQC spectra of His8-Tcl-1 and of His8-GFP prepared from 50 ml cultures showed excellent chemical shift dispersion, consistent with well folded states in solution suitable for structure determination. Moreover, AIA-GFP obtained by proteolytic removal of the His8 tag was subjected to crystallization screening, and yielded crystals under several conditions. Single crystals were subsequently produced and optimized by the hanging drop method. The structure was solved by molecular replacement at a resolution of 1.7 A. This approach provides an efficient way to carry out several key target screening steps that are essential for successful operation of proteomics pipelines with eukaryotic proteins: examination of total expression, determination of proteolysis of fusion tags, quantification of the yield of purified protein, and suitability for structure determination.

Alternate JournalJ. Struct. Funct. Genomics
PubMed ID17985212
PubMed Central IDPMC2668602
Grant List(5T32HG002760 / HG / NHGRI NIH HHS / United States
GM50853 / GM / NIGMS NIH HHS / United States
U54 GM074901 / GM / NIGMS NIH HHS / United States