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5 protocols using udp n acetylglucosamine

1

Enzyme Activity Assay Protocol for Rhamnosyltransferase

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Enzyme activity was assayed as previously described [51 (link)], using 200 ng α-1,6-mannobiose (Dextra Laboratories, Reading, UK) as the rhamnose acceptor and 500 µM UDP-L-rhamnose (Chemily Glycoscience; Peachtree Corners, GA, USA). The reaction products were analyzed by High-Performance Anion-Exchange Chromatography with Pulsed Amperometric Detection (HPAEC-PAD) with a Dionex system (Thermo Fisher Scientific), using a CarboPac PA-100 column (4.6 × 250 mm) and a linear gradient of 10–100 mM sodium acetate in 100 mM NaOH at a flow rate of 0.8 mL min−1 for 30 min. [52 (link)]. For assays including treatment with α-L-rhamnosidase, the reaction product of rhamnosyltransferase activity was mixed with 1 U enzyme (Megazyme, Bre, Ireland) and incubated for 60 min at 50 °C. The reactions were stopped by boiling for 10 min and subjected to monosaccharide separation by HPAEC-PAD using the following conditions: a CarboPac PA-200 analytical column (3 × 250 mm) with a CarboPac PA-200 guard column (3 × 50 mm) and an isocratic gradient of 3.2 mM NaOH with a flux rate of 0.15 mL min−1 for 25 min [53 (link)]. Fluorescence-assisted carbohydrate analysis (FACE) was performed essentially as previously described [54 (link)]. UDP-glucose, GDP-mannose, UDP-N-acetylglucosamine, and UDP-galactose were from Sigma-Aldrich.
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2

Glycosyltransferase Activity Assay

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Reagent grade chloroform, methanol, and silica
gel 60 thin-layer chromatography (TLC) plates (layer thickness of
150–200
μm) were obtained from EMD Chemicals Inc. (Gibbstown,
NJ). [32P]Pi, UDP-[U-14C]glucose,
UDP-[U-14C]galactose, and GDP-[U-14C]mannose
were from
PerkinElmer Life and Analytical
Sciences, Inc. (Waltham, MA). Yeast extract, agar, and tryptone were
from BD Biosciences. Sodium chloride and 4-(2-hydroxyethyl)-1-piperazineethanesulfonic
acid (HEPES) were from VWR International (West Chester, PA). Triton
X-100 was from Thermo Fisher Scientific (Waltham, MA). Isopropyl 1-thio-β-d-galactopyranoside (IPTG) was from Invitrogen Corp. (Carlsbad,
CA). UDP-glucose, UDP-galactose, UDP-glucuronic acid, UDP-galacuronic
acid, ADP-glucose, GDP-glucose, UDP-N-acetylglucosamine,
and ADP-mannose were purchased from Sigma-Aldrich.
The P-10 desalting column was from GE. All other chemicals were reagent
grade and were purchased from either Sigma-Aldrich (St. Louis, MO)
or Mallinckrodt Baker, Inc. (Phillipsburg, NJ).
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3

Synthesis of Menthol Glycosides

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(−)-Menthol, UDP-glucose, UDP-galactose, UDP-N-acetylglucosamine, and UDP-glucuronic acid were purchased from Sigma-Aldrich (St. Louis, MO, USA). The chemical synthesis of (−)-Menthol β-glucoside and (−)-Menthol α-glucoside was conducted by MediGen Inc (Daejeon, Korea).
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4

Crystallization and Structural Characterization of BshA

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Crystallization conditions were surveyed by the hanging drop method of vapor diffusion using commercially-available crystallization screens (Hampton Research) along with various combinations of relevant ligands. Single crystals suitable for X-ray diffraction analysis were grown by mixing 2 µL dialyzed rTEV-cleaved BshA solution with 2 µL Hampton Research PEG-ion 2 #22 (0.2 M ammonium citrate pH 7.0, 20% (w/v) PEG 3,350) in the presence of 5 mM UDP-N-acetylglucosamine (Sigma) and 5 mM l-malate. Crystals grew to a maximum dimension of 0.1 × 0.2 × 0.3 mm within 1 week after microseeding from the screen. Crystals were transferred to a cryoprotectant solution consisting of 75% well solution and 25% ethylene glycol with 5 mM each of UDP-N-acetylglucosamine and l-malate and flash frozen in liquid nitrogen. The crystals belonged to the C2221 space group with unit cell dimensions of 89.1 × 163.3 × 97.2 Å.
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5

Synthesis of Nucleotide Sugars

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D-ribose, D-ribulose, and D-ribitol were purchased from Carbosynth. D-galactose was from Merck Millipore. Cytidine triphosphate, D-xylulose, D-xylose, L-arabinose, doxycycline, and 1 mol/L triethylammonium acetate were from Sigma. CMP-N-acetylneuraminic acid, UDPgalactose, UDP-glucose, UDP-N-acetylgalactosamine, UDP-N-acetylglucosamine, GDP-mannose, GDP-fucose, ADP-ribose, UDP-xylose, and UDP-glucuronic acid were from Sigma or Carbosynth.
Rbo5P was produced as previously described (5 ) . CDP-ribitol was synthesized in vitro from Rbo5P and Cytidine triphosphate with recombinantly produced human CRPPA enzyme from Escherichia coli (kind gift of Dr. W. Yue, Oxford) (5 ) . The internal standard, a 13 Cyeast extract containing [U- 13 C]-UDP-glucose, was a kind gift of Dr. G. Hermann, Vienna.
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