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12 protocols using blue sepharose 6 fast flow

1

Purification and Separation of Gt Protein

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The Gt protein was purified from bovine retina essentially as described previously [52] (link). Frozen dark adapted bovine retinas, purchased from W L Lawson Company (Omaha, NE), were exposed to the room light at 4°C for overnight to form rhodopsin/Gt in the rod photoreceptor cell outer segments (ROS). Following isotonic and hypotonic washes, 40 µM GTP was added to release Gt from the purified ROS membranes. Gt was then separated from ROS by centrifugation, filtered through a 0.22 µm membrane (Steriflip from Millipore Corp., Billerica, MA), concentrated, and dialyzed against 10 mM Tris, pH 7.4, containing 2 mM MgCl2, 1 mM DTT, and 50% glycerol for storage at −20°C. Gβγt was separated from Gt heterotrimer by Blue Sepharose 6 Fast Flow (GE Healthcare) as described previously [53] (link), flash frozen and stored at −20°C until use.
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2

Expression and Purification of Rhodopsin-Gi Complex

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The N2C/M257Y/D282C mutant of bovine rhodopsin was expressed as described (Deupi et al., 2012 (link)) in human embryonic kidney (HEK) 293 GnTI-deficient cells (gift from Philip Reeves), which retain all post-translational modifications of the native protein including palmitoylation of Cys residues at positions 322 and 323 (Standfuss et al., 2011 (link)). Cell lines were tested and confirmed to be mycoplasma-free. The human Gαi subunit (Gαi1) with an N-terminal TEV protease-cleavable deca-histidine tag was expressed in the E. coli BL21 (DE3) strain (Sigma: CMC0014) and purified as described (Sun et al., 2015 (link)). The transducin heterotrimer was isolated from the rod outer segment of bovine retina (W L Lawson Company) and Gβ1γ1 was separated from Gαt with Blue Sepharose 6 Fast Flow (GE Healthcare) as described (Maeda et al., 2014 (link)). The Gαi1β1γ1 heterotrimer (Gi) was prepared by mixing equimolar amounts of Gαi1 with or without 10xHis-tag and Gβ1γ1 and incubated at 4°C for 1 hr shortly before use for rhodopsin-Gi complex formation on the 1D4 immunoaffinity column.
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3

Plasmid Purification and Modification Techniques

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Plasmid purification kits (QIAGEN Plasmid Maxi Kit, QIAprep Spin Miniprep Kit) were purchased from QIAGEN (Venlo, The Netherlands). Restriction enzyme, T4 polynucleotide kinase, alkaline phosphatase (E. coli C75), DNA ligation kit (DNA Ligation Kit Ver.1), DNA polymerase (TAKARA Premix Taq, EX Taq version), and Site-Directed Mutagenesis kit (Mutan®- Super Express Km) were purchased from Takara Bio (Kusatsu, Japan). Heparin was purchased from Mochida Pharmaceuticals (Shinjuku City, Tokyo) and Block Ace from Sumitomo Dainippon Pharma (Osaka, Japan). Blue Sepharose 6-Fast Flow, 5 mL HiTrap Phenyl HP, and 5 mL HiTrap Q XL were purchased from GE Healthcare Japan (Tokyo, Japan). HE staining reagents were purchased from Muto Chemical (Tokyo, Japan). Mouse anti-α-SMA antibody (cat#:ab5694) was purchased from abcam (Cambridge, UK). All other reagents and solvents were commercially available special grade products, and the water used as the solvent was ion-exchanged water or Milli-Q water.
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4

Protein Purification Protocol via Chromatography

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When the fermentation process was completed, the culture medium was harvested and centrifuged at 4°C and 8000 rpm for 20 min. The supernatant was concentrated by ultrafiltration using Millipore Cogent M1 Tangential Flow Filtration System (molecular weight cutoff, 30kDa) and then loaded onto a SephadeG-25 column(2.6cm×60cm) to remove pigment. A weak cation exchanger (Capto™ MMC, GE Health, 2cm×25cm) pre-equilibrated with sodium acetate -acetic acid buffer (25mM, pH 4.6) was then applied. The bound protein fractions were eluted using Na2HPO4-NaH2PO4 buffer (50mM, pH7.2) containing 1.0 M NH4Cl. Fractions containing the target protein were pooled and further loaded on a Blue-Sepharose™ 6 Fast Flow (GE Health, 2cm×25cm) column pre-equilibrated with 0.05M citric acid-0.1M Na2HPO4 (pH 7.0). The column was washed with the same buffer to baseline and the bound protein was eluted with 0.05M KH2PO4 containing 1.5M KCl (pH 7.0). The collection of target protein was stored at 4°C for further analysis. SDS-PAGE was carried out to determine the homogeneity of purification and the molecular mass of the recombinant fusion protein as previously described [25 ]. Coomassie brilliant blue R-250 was used for staining.
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5

Purification of Warfarin-Binding Proteins

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Blue Sepharose 6 Fast Flow was from GE Healthcare (Tokyo, Japan). Potassium warfarin (Eisai Co., Tokyo, Japan), L-tryptophan (Wako Pure Chemical Industries, Ltd., Osaka, Japan) and diazepam (Nippon Roche K.K., Tokyo, Japan) were obtained. All other chemicals were of the highest grade commercially available, and all solutions were prepared using deionized and distilled water.
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6

Isolation and Characterization of Sea-ICR Mice

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Sea-ICR mice (5 weeks, male) were obtained from Kyudo Co., Ltd. (Saga, Japan). Blue Sepharose 6 Fast Flow, HiTrap Phenyl HP column and PD-10 desalting column were obtained from GE Healthcare (Tokyo, Japan). Chloral hydrate was obtained from Sigma (Tokyo, Japan). Diff-Quick reagents were purchased from Kokusai Shiyaku (Kobe, Japan). Coomassie Brilliant Blue solution and HistoVT One were obtained from Nacalai Tesque (Kyoto, Japan). Interferon-γ (IFN-γ) ELISA kit was purchased from Biolegend (San Diego, CA, USA). Mayer’s hematoxylin, a 1% eosin alcohol solution, mounting medium for histological examinations (malinol) were from Muto Pure Chemicals (Tokyo, Japan). 4′,6-Diamidino-2-phenylindole (DAPI) was obtained from Dojindo (Kumamoto, Japan). All other chemicals were of the highest analytical grades available.
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7

Purification and Characterization of FDH Variants

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The primers for active site variants were prepared by Integrated DNA Technologies. QuikChange II Site-Directed Mutagenesis Kits were purchased from Agilent Technologies. E. coli BL21 (DE3) pLysS cells were from Novagen. Blue sepharose 6 fast flow and Superdex 200 resin were from GE Healthcare Life Sciences. Bradford dye reagent, SDS gels and the protein standards were from Bio-Rad. [Ad-14C]-NAD+ was from PerkinElmer. [3H]- formic acid was from Moravek Biochemicals. All other materials were purchased from Sigma-Aldrich unless otherwise specified.
Site directed mutagenesis was performed on the gene for WT FDH, using standard procedures, and the primer design is listed in the SI. Plasmids were transformed into BL21 (DE3) pLysS cells and grown in 6 L Luria-Bertani medium with 100 mg/L ampicillin at 37°C and 250 rpm. Expression and purification of WT and variant FDHs were carried out using the procedure in Ref. 29 (link).
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8

Expression and Purification of rHA-Infestin-4

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Expression of rHA-Infestin-4 was performed as described previously [26 (link)], with the modification that the coding sequence had been recloned into expression vector pIRESneo3 and a stable Chinese hamster ovary (CHO) clone had been selected for high yield fermentation. Purification was started by concentrating the cell culture supernatant using the Centramate 500S Tangential Flow Filtration system with 30 kD membranes (Pall, Crailsheim, Germany). The concentrate was thereafter purified using Blue Sepharose 6 Fast Flow (GE Healthcare, Freiburg, Germany) and CaptureSelect Human Albumin (Life Technologies, Leiden, the Netherlands) chromatography, both according to protocols provided by the manufacturers. The eluate was finally dialysed and concentrated to around 50 mg/mL of protein.
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9

Formate Dehydrogenase Purification Protocol

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The pET-23a plasmid harboring the gene encoding for CbFDH was a generous gift from Dr. Nikolaos Labrou of the Agricultural University of Athens. E. coli BL21 (DE3) pLysS cells were from Novagen. Blue sepharose 6 fast flow and Superdex 200 resin were from GE Healthcare Life Sciences. Bradford dye reagent, immobilized pH gradient (IPG) strips for isoelectric focusing (IEF), SDS gels and the protein standards were from Bio-Rad. [Ad-14C]-NAD+ was from PerkinElmer. [3H]-formic acid was from Moravek Biochemicals. All other materials were purchased from Sigma-Aldrich unless otherwise specified.
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10

Analytical Validation of Protein Assays

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Limit of Blank (LoB), Limit of Detection (LoD), and Limit of Quantitation (LoQ) studies were performed in accordance with CLSI Guideline EP17‐A2. Five pooled serums (each pooled serum is prepared using different serums) were treated with resin (Blue Sepharose 6 Fast Flow; GE Healthcare) to remove albumin (ALB) analyte to prepare blank samples for the LoB study. A scalar dilution with saline was used to prepare samples for LoD and LoQ studies.
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