T. V. Mishanina and A. Kohen
(hydroxymethyl)aminomethane [Tris] base from Research Products
International Corp.
Expression and partial purification of FAD synthetase
C. ammoniagenes FAD synthetase was produced by E. coli following a
modified procedure of ref. 23. Bacteria were grown overnight at 30 °C
in 6-L Luria Broth medium containing 200 mg/L ampicillin. The cells
(34 g paste) were harvested and lysed by passing the cell suspension
through French press at 4 °C in Lysis Buffer [100 mL of 100 mM Tris,
pH 7.45, 10 mM EDTA, 1 mM DTT, 400 mM NaCl, 20 mM MgCl2,
3 mg/mL lysozyme, 0.1 mg/mL DNAase I, EDTA-free protease inhibitor
pellets (Roche)]. The cell debris was removed by centrifugation at
40 000 ×g, and the soluble fraction was treated with solid ammonium
sulfate to 50% saturation, i.e. 30.11 g solid ammonium sulfate added
per 100 mL solution at 4 °C. The precipitated proteins were pelleted
by centrifugation, and ammonium sulfate was added to the supernatant
to 80% saturation, i.e. an additional 19.98 g solid ammonium sulfate per
100 mL solution at 4 °C. After centrifugation, the pellet containing
partially purified FAD synthetase was dissolved in 36 mL of 100 mM Tris,
pH 7.45, 10 mM EDTA and 1 mM DTT, and then dialyzed against 1 L of
water for 1 h and finally against 1 L of 50 mM Tris, pH 7.45 overnight
at 4 °C. This crude preparation (total protein concentration of ca.
2.7 mg/mL as determined by Bradford assay)32 was used in the
synthesis of flavins.
Figure 1. Structure and atomic numbering of flavin adenine dinucleotide (FAD)
and shorter natural flavins.
labeled ATP or riboflavin, respectively. FMN labeled at isoalloxazine
can also be obtained via this route, by using stoichiometric
amounts of riboflavin and ATP in the synthetic mixture.
Following the description of the synthesis of FADs with four
different labeling patterns (Figure 2B), one application is
presented for the use of these labeled flavins in the mechanistic
studies of an enzyme, flavin-dependent thymidylate synthase
(FDTS). FDTS employs an FAD prosthetic group to reductively
methylate 2′-deoxyuridine-5′-monophosphate (dUMP) to 2′-
deoxythymidine-5′-monophosphate (dTMP), a DNA precursor,
in many human pathogens24–27 (Figure 3). FDTS presents an
Synthesis of labeled flavins
Reactions for the synthesis of labeled FAD contained the following:
50 μM riboflavin, 8 mM MgCl2, 1 mM ATP, 196 mM phosphocreatine,
800 units/mL of creatine phosphokinase in 50 mM Tris buffer, pH 7.6.
The reactions were initiated by addition of 100 μL partially purified
FAD synthetase (total protein concentration of ca. 2.7 mg/mL) per mL
exciting new target for antibiotics with low toxicity, considering of synthetic mixture and incubated at 25 °C until completion (typically
24 h), as determined by analytical HPLC. Radiolabeled FAD synthesis
was carried out in a final volume of 500 μL. For the synthesis of
compound 1, 50 μCi of tritiated ATP was used along with non-
radioactive ATP (final ATP concentration 1 mM, i.e. 20-fold excess over
riboflavin). Addition of unlabeled ATP was necessary to push the
reaction toward FAD production. As a result, the radioactive FAD yield
was quite low (~3%). However, unreacted 3H-ATP could be recovered
in the HPLC purification, lyophilized and re-used in additional cycles
of synthesis. In the synthesis of compound 3, 30 μCi of tritiated
riboflavin was employed in addition to non-radiolabeled riboflavin (final
that its mechanism of action differs drastically from ‘classical’
thymidylate synthase encoded by thyA gene in most organisms,
including humans.28,29 The details of FDTS chemical mechanism
are still under investigation, and our recent acid-trapping of an
intermediate in FDTS-catalyzed reaction has provided some
insight into the timing of chemical events in this enzyme.30
Surprisingly, a different derivative of an intermediate(s) is
trapped under basic conditions, which contains the pyrimidine
substrate plus an unknown adduct (Mishanina and Kohen,
unpublished data). The currently reported isotopically labeled total concentration 50 μΜ riboflavin). 13C,15N-labeled FAD was
synthesized in a final reaction volume of 10 mL with 13C,15N-labeled
FAD molecules are employed in efforts to identify this
mysterious adduct and add another piece to the mechanistic
puzzle of FDTS.
ATP (compound 2; no unlabeled ATP added to the synthesis mixture),
or 13C,15N-labeled riboflavin (compound 4; no unlabeled riboflavin
added to the synthesis mixture).
Analytical methods
Experimental
Separations were carried out on an Agilent 1100 series HPLC, with
UV/vis diode array detector, flow-scintillation analyzer (FSA, model
Materials
Chemicals were reagent grade and used as purchased unless specified RT505 from Packard, now PerkinElmer) for radioactive synthetic
otherwise. Unlabeled and [dioxopyrimidine-13C4,15N2]riboflavin, unlabeled
mixtures, or liquid scintillation counting (LSC, Tri-Carb model 2900 TR
and [13C4,15N2]ATP, phosphocreatine and creatine phosphokinase from
from PerkinElmer) for base-quenched FDTS reactions containing 3H-
rabbit muscle were obtained from Sigma-Aldrich. [2-14C]dUMP labeled FAD. An Ultima FloTM AP scintillation cocktail (PerkinElmer)
(53.2 mCi/mmol), [2,8-3H]ATP (32 Ci/mmol) and [7a,8a-3H]riboflavin was employed in flow-scintillation analyses and Ultima GoldTM in LSC.
(6.2 Ci/mmol) were purchased from Moravek Biochemicals. The FDTS from
An analytical reverse phase Supelco column (Discovery series
Thermatoga maritima (TM0449, GenBank accession number NP228259) 250 mm × 4.6 mm, 5 μm) was used at 0.8 mL/min for monitoring the
was expressed and purified as previously described.31 The E. coli progress of FAD synthetase reactions. The column was pre-equilibrated
expression system for C. ammoniagenes FAD synthetase was a gracious in 85:15 buffer:methanol mixture, and the following method was
gift from Prof. Dale E. Edmonson (Emory University). Magnesium chloride employed for separation of flavins (5 mM ammonium acetate buffer,
was purchased from BDH Chemicals, ammonium acetate, ammonium pH 6.5 as solvent A; methanol as solvent B): 0–5 min 15% B; 5–25 min
sulfate and sodium chloride from Fisher Scientific, and tris
15–75% B; 25–26 min 100% B. Elution of the flavins was followed by
J. Label Compd. Radiopharm 2015, 58 370–375
Copyright © 2015 John Wiley & Sons, Ltd.