The interaction of a number of first-row transition-metal ions with a 2,2'-bipyridyl alanine (bpyA) unit incorporated into the lactococcal multidrug resistance regulator (LmrR) scaffold is reported. The composition of the active site is shown to influence binding affinities. In the case of Fe(II), we demonstrate the need of additional ligating residues, in particular those containing carboxylate groups, in the vicinity of the binding site. Moreover, stabilization of di-tert-butylsemiquinone radical (DTB-SQ) in water was achieved by binding to the designed metalloproteins, which resulted in the radical being shielded from the aqueous environment. This allowed the first characterization of the radical semiquinone in water by resonance Raman spectroscopy.
The interaction of a number of first-row transition-metal ions with a 2,2'-bipyridyl alanine (bpyA) unit incorporated into the lactococcal multidrug resistance regulator (LmrR) scaffold is reported. The composition of the active site is shown to influence binding affinities. In the case of Fe(II), we demonstrate the need of additional ligating residues, in particular those containing carboxylate groups, in the vicinity of the binding site. Moreover, stabilization of di-tert-butylsemiquinone radical (DTB-SQ) in water was achieved by binding to the designed metalloproteins, which resulted in the radical being shielded from the aqueous environment. This allowed the first characterization of the radical semiquinone in water by resonance Raman spectroscopy.
Artificial metalloenzymes
have emerged as a promising strategy to emulate the catalytic efficiency
of natural metalloenzymes in new to nature reactions.[1−12] In addition to their potential for application in synthesis, they
are also valuable tools for the investigation of the role of the second
coordination sphere in enzyme catalysis.[3,13−18] Furthermore, designed metalloproteins may allow for the stabilization
of highly reactive compounds, giving rise to increased lifetimes of
these species. Some metal semiquinone intermediates have been identified
in natural enzymes and synthetic mimic complexes.[19,20] In one such example, DeGrado et al. recently reported the stabilization
of the radical 3,5-di-tert-butylsemiquinone (DTB-SQ), which results from the one-electron oxidation of
3,5-di-tert-butylcatechol (DTB-C) (Scheme ), in the interior
of a de novo designed metalloprotein [DFsc-ZnII2].[21]o-Semiquinones are
important radicals that natural metalloenzymes generate inside their
pocket during the catalytic oxidation of catechols to quinones or
in the oxidative cleavage of catechols.[22−24] Notably, DTB-SQ rapidly decomposes in an aqueous environment; however, the coordination
to zinc ions allows the radical to bind in the hydrophobic environment
provided by DFsc and it is thus shielded from bulk water.
Scheme 1
Redox Chemistry
and Formation of the Radical Anion DTB-SQ at pH 7: (a)
Comproportionation between Catechol DTB-C and Quinone DTB-Q; (b) Two-Electron Oxidation of DTB-C to DTB-Q, Where the One-Electron-Oxidized Product Is DTB-SQ
We have developed a class of
artificial metalloenzymes based on multidrug resistance regulators
such as the transcription factor lactococcal multidrug resistance
regulator (LmrR).[25−29] This homodimeric protein has a large hydrophobic pocket at the dimer
interface that has proven suitable for the creation of novel active
sites. Recently, we have reported the introduction of the metal-binding
unnatural amino acid 2,2′-bipyridyl alanine (bpyA) in LmrR
using stop codon suppression methodology (Figure ).[30] Upon binding
of Cu(II) ions, the resulting artificial metalloenzymes were then
employed successfully in Friedel–Crafts alkylation reactions.[25]
Figure 1
In vivo incorporation of bpyA (X) into LmrR protein and
metal binding, with a detailed picture of the modeled binding site
of LmrR_M89X.
In vivo incorporation of bpyA (X) into LmrR protein and
metal binding, with a detailed picture of the modeled binding site
of LmrR_M89X.Here we report on the
coordination chemistry of a variety of LmrR-based metalloproteins,
involving different metal ions, and the binding and stabilization
of o-semiquinone radicals.
Results and Discussion
On the basis of X-ray crystal structures and our earlier studies,[25,31,32] positions situated at the ends
of the protein pocket were selected for the introduction of bpyA within
the hydrophobic environment: positions V15, N19, and M89. LmrR is
homodimeric, and it is important to note that every protein contains
two bpyA residues in the hydrophobic pocket: one from each monomer.
In the case of the mutant LmrR_M89X, positions V15 and F93, which
are spatially close to the bpyA residue at position 89, were mutated
to introduce additional dative ligands for the metal ion: i.e., carboxylate
and imidazole moieties. These mutations were envisioned to result
in binding sites that mimic the 2His-1 Carboxylate triad often found
in nonheme iron proteins[33] and the 3His
motif observed in Zn(II) proteins.[34] The
different mutants were expressed, purified, and characterized as previously
reported (see the Supporting Information).[25]
Metal Ion Binding
In our earlier
report, Cu(II) binding to LmrR_M89X resulted in a 1:1 metal to LmrR
monomer ratio.[25] In the present study,
we expanded the investigation of the coordination chemistry of this
artificial metalloprotein to other first-row transition-metal ions:
Mn(II), Fe(II), Co(II), Ni(II), and Zn(II).The bpyA unnatural
amino acid itself showed binding of all the studied metal ions under
neutral aqueous conditions (Figure S3 in
the Supporting Information). Binding of the metal ions is manifested
in a shift of the ligand π–π* transition UV absorption
band (280–310 nm).[35,36] The Kd values and metal to bpyA ratios were determined from
a titration curve with fitting of absorbance at 305 nm (Table and Table S2 in the Supporting Information) and revealed the highest
affinities for Cu(II) and Fe(II) and the lowest for Zn(II). In the
case of Mn(II), a more complicated behavior was observed (vide infra).
Table 1
Dissociation Constants, Molar Absorptivities, and
Metal Ion to Binding Site Ratios for the Different Metal Ions Determined
with bpyA and LmrR Mutants
ligand/protein
metal ion
Kd (μM)
ratio
ε (cm–1 M–1)
bpyA
Fe(II)
0.18 ± 0.18
1:2
27100
Cu(II)
0.00 ± 0.00
1:1
11690
Zn(II)
5.85 ± 0.95
1:2
23930
Co(II)
1.45 ± 0.82
1:3
32960
Ni(II)
0.49 ± 0.21
1:3
32840
M89X
Cu(II)
0.04 ± 0.05
1:1
15770
Ni(II)
0.05 ± 0.06
1:1
16410
M89X_
Fe(II)
1.67 ± 0.93
1:1
13850
V15E_
Cu(II)
0.31 ± 0.08
1:1
14050
F93D
Zn(II)
0.84 ± 0.39
1:1
12480
Ni(II)
0.65 ± 0.07
1:2
26390
V15X
Zn(II)
1.35 ± 0.59
1:1
4120
N19X
Zn(II)
1.52 ± 0.33
1:1
10660
M89X_F93D
Zn(II)
0.28 ± 0.07
1:1
13290
M89X_F93H
Zn(II)
1.41 ± 0.51
1:1
14080
M89X_V15H_F93H
Zn(II)
1.75 ± 0.38
1:1
11670
With
LmrR_M89X, binding of Co(II), Ni(II), Cu(II), and Zn(II) was manifested
in the absorption band at 310 nm, assigned to the π–π*
transition from the bipyridyl (bpy) moiety in bpy-metal complexes
(Figure and Figure S4 in the Supporting Information). Cu(II)
and Ni(II) showed a 1:1 metal to protein monomer ratio and low Kd values (<0.1 μM, Table S3 in the Supporting Information) that are 1–2
orders of magnitude lower than those reported for bpyA-containing
peptides (8 μM for Cu(II) and 50 μM for Ni(II)),[37] showing the favorable contribution of the protein
environment to metal ion binding. In case of Co(II) and Zn(II) ions,
the protein precipitated upon addition of ≥1 equiv of metal
salt with respect to monomer. Finally, during titration of Fe(II)
and Mn(II), changes in the absorption spectra were not observed, indicating
that these metal ions are not binding.
Figure 2
(a) UV absorption spectra
of 30 μM monomer LmrR_M89X in the presence of 1 equiv of metal
ion. (b) Absorption at 310 nm with increasing amounts of metal ions
and curve fitting (fitting values in Table S3 in the Supporting Information).
(a) UV absorption spectra
of 30 μM monomer LmrR_M89X in the presence of 1 equiv of metal
ion. (b) Absorption at 310 nm with increasing amounts of metal ions
and curve fitting (fitting values in Table S3 in the Supporting Information).In an attempt to improve the binding of these metal ions,
mutations at positions V15 and F93, which are in the vicinity of the
bpyA residue, to carboxylate- or imidazole-containing residues were
evaluated. In the case of histidine mutation at position F93, the
absorption spectrum of LmrR_M89X_F93H was unaffected in the presence
of Fe(II); thus, its coordination was not observed. In contrast, mutation
of this position to aspartate, i.e. LmrR_M89X_F93D, did result in
coordination of Fe(II), as suggested by the appearance of the 310
nm band in the absorption spectrum (Figure S5 in the Supporting Information). However, the titration curve with
Fe(II) was not well-defined. Therefore, an additional carboxylate
moiety was added to the coordination sphere by mutation of position
V15 to glutamate: i.e., LmrR_M89X_V15E_F93D. With these additional
dative ligands present, Fe(II) binding was observed, as evidenced
by the appearance of the 310 nm absorption band and a well-defined
titration curve, analysis of which showed a 1:1 metal ion to protein
monomer binding ratio and a Kd value of
1.67 μM (Figure S6 in the Supporting
Information). Hence, it can be concluded that additional carboxylato
ligands are important for achieving Fe(II) binding to the bpy moiety,
likely by mimicking the 2 His-1Carboxylate triad in the active site of natural Fe(II)
enzymes. However, also with this mutant, Mn(II) coordination was still
not observed.The binding of the other metal ions to LmrR_M89X_V15E_F93D
was investigated (Figure S7 and Table S4 in the Supporting Information) and this indicated that the mutations
did not benefit Cu(II) and Ni(II) binding, with Kd values similar to those with LmrR_M89X: i.e., 0.3 and
0.65 μM, respectively (Table ). The metal to monomer ratios were estimated to be
1:1 for Fe(II), Cu(II), and Zn(II), which correspond to the ratios
established with LmrR_M89X. Interestingly, a 1:2 metal binding ratio
was determined for Ni(II), which indicates that the coordination is
different in LmrR_M89X in comparison to M89X_V15E_F93D. With Co(II),
again precipitation was observed after addition of more than 1 equiv.The influence of the position of bpyA on metal ion binding was
studied with Zn(II) and the mutants LmrR_V15X and N19X. In contrast
to LmrR_M89X, well-defined behavior was observed with 1:1 metal to
monomer ratios and low micromolar Kd values
(Figure and Figure S8 in the Supporting Information). Interestingly,
the molar absorptivities were almost twice as high for LmrR_N19X than
for LmrR_V15X. The Kd values were found
to be comparable to that measured for LmrR_M89X_V15E_F93D (Table and Table S5 in the Supporting Information). Thus, in contrast
to LmrR_M89X, the proteins with bpyA at positions V15 and N19 do provide
a good binding environment for Zn(II), which may be due to carboxylate
ligands from D100 and E104 that are present in the vicinity (Figure S9 in the Supporting Information).
Figure 3
(a) UV absorption
spectra of 30 μM monomer LmrR mutants in the presence of 1 equiv
of Zn(II). (b) Absorption at 312 nm with addition of Zn(II) and curve
fitting (fitting values in Table S5 in
the Supporting Information).
(a) UV absorption
spectra of 30 μM monomer LmrR mutants in the presence of 1 equiv
of Zn(II). (b) Absorption at 312 nm with addition of Zn(II) and curve
fitting (fitting values in Table S5 in
the Supporting Information).Finally, the influence of additional ligating residues in
the vicinity of the M89X residue on Zn(II) binding was investigated
for LmrR_M89X mutants. As previously mentioned, mutant M89X_V15E_F93D
improved the binding of Zn(II). M89X_F93D, M89X_F93H, and M89X_V15H_F93H
were prepared to provide carboxylate or imidazole groups, in order
to complete the zinc coordination sphere.[38] With all three mutants, formation of the band around 310 nm was
observed and 1:1 metal to monomer ratios were determined (Figure and Figure S8 in the Supporting Information). The
lowest Kd value was determined for M89X_F93D
(0.28 μM, Table and Table S5 in the Supporting Information),
which was 1 order of magnitude lower than those obtained for the histidine
mutants.
UV–Vis Absorption Spectroscopy of Binding of DTB-SQ
The semiquinone anion radicalDTB-SQ was generated
in aqueous medium by comproportionation between the catecholDTB-C and the quinoneDTB-Q (Scheme ). In aqueous media, only two-electron
oxidation/reduction is observed and the semiquinone radical has not
been detected;[39] a hydrophobic environment
is thus essential to isolate it from water and stabilize it.LmrR_M89X, without added metal ion, shows no ability to stabilize DTB-SQ: i.e., spectral features are not observed by UV–vis
absorption and electron paramagnetic spectroscopy, indicating that
no radical species was detected. In the presence of 0.9 equiv of metal
ion (Cu(II), Zn(II), Co(II), and Ni(II)) with respect to the concentration
in protein monomer, two absorption bands were observed in the near-IR
region of the spectra (Figure , Figure S10 in the Supporting
Information, and Table ), although they are only weak for Co(II). These bands are similar
to those observed with the designed metalloprotein [DFsc-ZnII2] and, hence, are assigned to the radical semiquinoneDTB-SQ (vide infra).[21] The differences
in absorbance are due to different yields in DTB-SQ,
as observed by resonance Raman spectroscopy (vide infra). In comparison
to Zn(II), about half the DTB-SQ is obtained with Cu(II)
and Ni(II) and only 20% with Co(II). Attempts to determine the kinetics
of semiquinone radical formation for the various metalloproteins were
unsuccessful, which might be due to other processes such as binding
being rate limiting.
Figure 4
Vis–NIR absorption spectra of LmrR_M89X 30 μM
+ 0.9 equiv of metal ion + 300 μM DTB-C:DTB-Q (1:1) after 24 h.
Table 2
Absorbance
Maxima of DTB-SQ Absorption Band Measured with LmrR_M89X
and LmrR_M89X_V15E_F93D, in the Presence of Transition-Metal Ions
M89X
M89X_V15E_F93D
λmax(1) (nm)
λmax(2) (nm)
λmax(1) (nm)
λmax(2) (nm)
Cu(II)
764
∼850
765
∼850
Zn(II)
739
789
733
801
Co(II)
733
780
732
788
Ni(II)
758
813
764
817
Fe(II)a
n.d.
n.d.
745
803
Protein incubated with an excess of
Fe(II) followed by dialysis to remove the excess of metal ions.
Vis–NIR absorption spectra of LmrR_M89X 30 μM
+ 0.9 equiv of metal ion + 300 μM DTB-C:DTB-Q (1:1) after 24 h.Protein incubated with an excess of
Fe(II) followed by dialysis to remove the excess of metal ions.In the presence of Fe(II), a different
behavior was observed. While in the absence of DTB-C binding
of Fe(II) was not observed (vide supra), two broad absorption bands
centered at 790 and 617 nm were observed when DTB-C was
present. However, this is characteristic for an Fe(III)-catecholate
species, reminiscent of the intermediate identified in catechol oxidases.[22] Such catecholate model complexes have been reported
based on aminopyridine ligands, with two bands in the visible (500–580
nm) and NIR (800–950 nm) regions of their absorption spectra
in organic solvent.[40−42] Moreover, the absorption spectrum of [FeIII(cat)3]3+ in water shows only one band at 570
nm.[19] The spectrum observed for LmrR_M89X
in the presence of Fe(II) and DTB-C suggests that a bpy-Fe(III)-catecholato
complex is generated under aerobic conditions, and catechol cleavage
does not occur.Similar behavior was observed with LmrR_ M89X_V15E_F93D
in the presence of 0.9 equiv of the different metal ions (Figure S11 in the Supporting Information). An
Fe(III)-catecholato species was predominantly formed with Fe(II),
while DTB-SQ was detected with similar yields for the
other metal ions. The absorbance maxima for the radical semiquinone
absorption band were mainly red shifted in comparison to those measured
with LmrR_M89X (Table ), most probably due to the different binding environment offered
by LmrR_ M89X_V15E_F93D.In an alternative approach, LmrR_M89X_V15D_F93D_Fe(II)
was prepared by incubation with excess Fe(II) followed by dialysis
to remove the excess of metal ion. Upon addition of DTB-C/DTB-Q, absorption bands centered at 745 and 803 nm
were observed, indicative of DTB-SQ (Figure S12 in the Supporting Information and Table ). In this case, a band at 614
nm was not observed, suggesting that the Fe(III)-catecholato species
was not generated under these conditions. Thus, removal of free Fe(II)
ions avoids the formation of Fe(III)-catecholate and only the radical
semiquinone is observed.The importance of the position of the
binding site was determined for the Zn(II)-containing proteins (Figure S13 in the Supporting Information). All
artificial zinc proteins showed absorption bands typical for DTB-SQ, although shifts in absorbance maxima of the DTB-SQ absorption band were observed (Table S6 in the Supporting Information), indicative of different
binding environments in the different zinc proteins. Differences in
absorbance were also observed, indicating that different yields in
radical semiquinone can be achieved depending on the nature of the
binding environment.The stability of the radical semiquinone
species was assessed for the LmrR_M89X metalloproteins after 24 h
incubation with DTB-C:DTB-Q by performing dialysis against
Tris buffer at pH 7. Interestingly, the intensities of the DTB-SQ absorption bands after dialysis were similar to those before dialysis
(Figure S14 in the Supporting Information).
In the case of Fe(II), the 617 nm band disappeared, indicating that
the Fe(III)-catecholato species was removed and only the semiquinone
species remained. Moreover, for each metal ion the band at ∼310
nm was still observed in the UV spectra after dialysis of the artificial
protein solution (Figure S14c), which shows
that the metal ions are still bound to the bpy moiety. Surprisingly,
the absorption spectra did not show changes even after storage of
the solution at 5 °C for 4 weeks (data no shown). These results
demonstrate the high stability of DTB-SQ in the hydrophobic
pore of artificial metalloproteins.
Spectroscopic Characterization
of the Radical Semiquinone
DTB-SQ stabilized
by the different designed LmrR mutants and in the presence of the
different transition-metal ions was further characterized by magnetic
(EPR) and vibrational (resonance Raman) spectroscopy. EPR spectra
at room temperature showed the presence of a broad signal at g = 2.003 for every semiquinone solution, which corresponds
to a radical species similar to reported by DeGrado et al. (Figure ).[21]
Figure 5
EPR spectra of DTB-SQ bound by LmrR_M89X with Cu(II),
Ni(II), and Zn(II), and by LmrR_M89X_V15E_F93D with Fe(II) and Co(II),
in comparison to the baseline. Absorption spectra of the corresponding
solutions are presented in Figure S15 in
the Supporting Information.
EPR spectra of DTB-SQ bound by LmrR_M89X with Cu(II),
Ni(II), and Zn(II), and by LmrR_M89X_V15E_F93D with Fe(II) and Co(II),
in comparison to the baseline. Absorption spectra of the corresponding
solutions are presented in Figure S15 in
the Supporting Information.Resonance Raman spectra were recorded after addition of DTB-C:DTB-Q 1:1 solution in DMSO to LmrR_V15X_Zn(II),
which showed higher yields in DTB-SQ in comparison to
LmrR_M89X_Zn(II) (Figure ). Over time, bands appeared at 1543, 1319, 1167, and 614
cm–1, which are assigned to C=C stretching
of the aromatic ring, C=O stretching, C–H bending in
plane, and ring breathing stretching, respectively. The observed Raman
bands are different from those reported for an Fe(III)-catecholato
complex, excluding that the species are metal catecholates.[22]
Figure 6
Resonance Raman spectra over time following addition of
30 μM monomer LmrR_V15X_ZnII solution (bottom spectrum)
of 20 equiv of DTB-C:DTB-Q 1:1, over 200
min (top spectrum). Excitation was at 785 nm, and spectra are baseline
corrected.
Resonance Raman spectra over time following addition of
30 μM monomer LmrR_V15X_ZnII solution (bottom spectrum)
of 20 equiv of DTB-C:DTB-Q 1:1, over 200
min (top spectrum). Excitation was at 785 nm, and spectra are baseline
corrected.Resonance Raman spectra on solutions
containing LmrR_M89X or LmrR_M89X_V15E_F93D in the presence of different
metal ions and after 24 h incubation with DTB-C:DTB-Q 1:1 were measured (Figure S16 in the Supporting Information). The same Raman shifts as with LmrR_V15X_Zn(II)
were observed for all solutions, albeit with differences in intensity.
This suggests that different conversions to the semiquinone were achieved
depending on the metal ion used. Moreover, the bands were still observed
after dialysis (Figure S17 in the Supporting
Information), corroborating the results obtained by absorption spectroscopy.
Conclusion
Here we have shown that by in vivo incorporation
of an unnatural amino acid (bpyA), a defined metal binding environment
can be created within a protein scaffold. A variety of divalent metal
ions can bind with good affinity. In those cases where initially no
binding was observed, e.g. with Fe(II), this could be achieved by
optimizing the binding site by introducing additional ligating residues
in proximity of the bpyA residue, such as aspartate, glutamate, or
histidine that are found in the binding sites of natural metalloproteins.
Further spectroscopic analyses are required to determine the binding
geometry of the different metals.Reminiscent of natural enzymes,
the artificial metalloproteins were shown to be capable of binding
and stabilizing the radical semiquinoneDTB-SQ. Binding
this normally unstable species in the hydrophobic pore of LmrR results
in shielding it from the aqueous environment, which normally has a
detrimental effect on stability. The metal plays a key role in the
binding of the radical semiquinone within the protein pocket and,
hence, in its stabilization. The stabilization of radical species
is the first step toward harnessing the chemistry of unstable radicals
in water, potentially allowing future application in catalysis of
radical reactions or one-electron-redox processes.
Experimental Section
Materials and Methods
E. coli strains NEB5-alpha and BL21(DE3) (New England
Biolabs) were used for cloning and expression. DNA sequencing was
carried out by GATC-Biotech (Berlin, Germany). Primers were synthesized
by Eurofins MWG Operon (Ebersberg, Germany). Restriction endonucleases
were purchased from New England Biolabs. Plasmid Purification Kit
was purchased from QIAGEN. Pfu Turbo polymerase was
purchased from Agilent. Strep-tactin columns were purchased from Iba-lifesciences.
Chemicals were purchased from Sigma-Aldrich and used without further
purification. The following metal salts were used: Cu(NO3)2·3H2O, Zn(NO3)2·6H2O, Ni(NO3)2·6H2O, Mn(NO3)2·4H2O, Co(NO3)2·6H2O, and (NH4)2Fe(SO4)2·6H2O.All experiments are performed in freshly prepared Tris buffer pH
7 (50 mM Tris, 500 mM NaCl) at room temperature, unless otherwise
specified. UPLC-MS spectra were measured on a Waters UPLC-MS instrument
with C8 reversed phase column (Acquity BEH C8 1.7 μm 2.1 ×
150 mm) in phosphate buffer pH 8 (50 mM NaH2PO4, 500 mM NaCl) with TQD detection. Exact masses of the proteins were
extracted from the spectra by deconvolution using MagTran software.
UV/vis absorption spectra were recorded at room temperature on a Jasco
V-660 spectrophotometer. The concentration of the protein and bpyA
was 30 μM in monomer in buffer pH 7 (50 mM phosphate buffer,
500 mM NaCl), unless otherwise specified. For kinetic experiments,
absorbance was measured every 1 min over 900 min. Absorption maxima
are ±2 nm. EPR spectra (X-band, 9.46 GHz) were recorded on a
Bruker ECS106 spectrometer at room temperature. Experimental conditions:
microwave frequency, 9.46 GHz; microwave power, 20 mW; 10 G field
modulation amplitude; time constant 81.92 ms; scan time 83.89 s; three
accumulations. Resonance Raman spectra were obtained with excitation
at 785 nm using a PerkinElmer Raman station. Data were recorded and
processed using Spectrum (PerkinElmer) and Spectrogryph. Samples were
held in 10 mm path length quartz cuvettes.
Molecular Biology
Site-directed mutagenesis was used for preparation of all LmrR mutants.
It was performed on the previously reported plasmids pET17b_LmrR_LM,
pET17b_LmrR_LM_M89X, pET17b_LmrR_LM_M89X_F93D,
and pET17b_LmrR_LM_M89X_F93H, according to
the needed mutation.[25,27] The primers required for the
mutagenesis are summarized in Table S1 in
the Supporting Information. The following PCR cycles were used: initial
denaturation at 95 °C for 1 min, denaturation at 95 °C for
30 s, annealing at 58–63 °C for 30 s (depending on the Tm of the particular mutant), and extension at
72 °C for 4 min 30 s. The thermal cycle was repeated 16 times.
The resulting PCR product was digested with restriction endonuclease DpnI for 1 h at 37 °C and transformed into the E. coli NEB5-alpha cells. Site-directed mutagenesis
for the other mutants has been previously reported.[25] In the text, the proteins have been named without the “LM”
label.
Protein Expression and Purification
The plasmids pEVOL-bpyA
and pET17b_LmrR_LM_X were cotransformed into E. coliBL21(DE3), and a single colony was used to inoculate an overnight
culture of 10 mL of fresh LB medium containing 100 μg/mL of
ampicillin and 34 μg/mL of chloramphenicol at 37 °C. A
2 mL portion (500× dilutions) of overnight culture was used to
inoculate at 37 °C 500 mL of fresh LB medium containing 100 μg/mL
of ampicillin and 34 μg/mL of chloramphenicol. When the culture
reached an optical density at 600 nm of 0.8–0.9, the expression
was induced with isopropyl β-d-1-thiogalactopyranoside
(IPTG) (final concentration 1 mM) and l-arabinose (final
concentration 0.02%), and 100 mg/L of bpyA (racemic mixture, for synthesis
see ref (2)) was added.
Expression was done overnight at 30 °C. Cells were harvested
by centrifugation (6000 rpm, JA10, 20 min, 4 °C, Beckman), resuspended
in washing buffer (50 mM NaH2PO4, 500 mM NaCl,
pH 8.0), and sonicated (70% (200 W) for 7 min (10 s on, 15 s off)).
The lysed cells were incubated with DNase I (final concentration 0.1
mg/mL with 10 mM MgCl2) and PMSF solution (final concentration
0.1 mM) for 30 min at 4 °C. After centrifugation (15000 rpm,
JA-17, 1 h, 4 °C, Beckman), the supernatant was loaded on a Strep-Tactin
column (Strep-Tactin Superflow high capacity) and incubated for 1
h at 4 °C. The column was washed with 3 × 1 CV (column volume)
of resuspension buffer (same as washing buffer used before) and eluted
with 6 × 0.5 CV of resuspension buffer containing 5 mM desthiobiotin.
The fractions were analyzed by SDS-PAGE electrophoresis on 12% polyacrylamide
SDS-Tris Tricine gel followed by Coomassie staining. The concentration
of the proteins was determined by using the calculated extinction
coefficient ε280 = 40240 M–1 cm–1 corrected for the absorbance of the bpyA. Expression
yields were 2–10 mg/L of bacteria culture. Protein solutions
were then dialyzed against Tris buffer (50 mM Tris, 500 mM NaCl, pH
7.0) overnight at 4 °C.
Radical Stabilization Experiments
All experiments were run at room temperature and under aerobic conditions.
To a solution of 30 μM of artificial protein in 250 μL
of 50 mM Tris buffer pH 7 was added 0.9 equiv of the metal salt solution
(2 μL from a 3.4 mM solution in Milli-Q water). After 1 h of
incubation, 5 μL of a freshly prepared 15 mM DTB-C:DTB-Q 1:1
solution in DMSO was added, and the absorption at 735 nm was recorded
over 15 h. The solutions were then dialyzed overnight against 50 mM
Tris buffer pH 7 at 4 °C. Absorption spectra were measured at
each step of the experiment. Resonance Raman and EPR spectra were
recorded at the end of the experiment.
Authors: Pieter C A Bruijnincx; Martin Lutz; Anthony L Spek; Wilfred R Hagen; Bert M Weckhuysen; Gerard van Koten; Robertus J M Klein Gebbink Journal: J Am Chem Soc Date: 2007-02-01 Impact factor: 15.419
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