Application of tunable quantum cascade lasers to monitor dynamics of bacteriorhodopsin in the mid-IR spectral range

Abbreviations

BR:

bacteriorhodopsin

1. Background

The light driven proton pump BR became one of the most investigated membrane proteins [3,5,14] since its discovery more than four decades ago [15]. BR consists of 7 transmembrane α-helices and the retinal chromophore linked by a protonated Schiff base to a lysine residue. After light excitation, a photocycle is initiated and BR passes through different intermediate steps. K, L, M, N, and O are photocycle intermediates [6,14] and describe the state of the protein and the chromphore, including individual steps of the proton translocation. Variations from this well characterized BR photocycle facilitate a deeper understanding of the interaction with specific membrane environments. BR was reconstituted into artificial membranes composed by lipids with specific physico-chemical properties and step-scan Fourier-transform infrared (FTIR) spectroscopy was applied. First insights were obtained to dissect the effect of the membrane composition on the proton transfer and conformational dynamics of membrane photoreceptors [9,10].

For further investigations of the interaction-induced dynamics of membrane proteins and lipid membranes, it is highly desirable that also minor changes in absorption are resolved. Since their introduction [2], the development of QCL proceeds and has become a suitable tool in various scientific branches [4,18,21]. The application in mid-IR spectroscopy succeeded with the opportunity of gapless tuning over broad spectral regions. This enables single wavenumber measurements at precisely selected IR bands or even scanning whole spectra. In comparison to thermal IR sources used in FTIR setups, QCLs offer a higher signal-to-noise ratio [1]. To observe membrane and protein dynamics [9,10], QCLs with appropriate spectral specifications are required. Application of a QCL setup for time-resolved spectroscopy of BR dynamics in the spectral region between ∼1700–1800 cm⁻¹ has been reported before [17]. Here, we present an extension of our home-built spectrometer with multiple implemented QCLs providing a nearly gapless tunability in a broad spectral region from ∼1150–2250 cm⁻¹. Successful application is shown by time-resolved measurements of BR at various single wavenumbers representing proton transfer as well as protein conformational dynamics.

2. Objective

Aim of this study is the implementation of multiple QCLs into a home-built IR spectrometer for time-resolved protein dynamics measurements at single wavenumbers using the photoreaction of BR as an example.

3. Methods

The isolation of purple membrane from Halobacterium salinarium was performed following to D. Oesterhelt and W. Stoeckenius [16]. In the sample preparation for IR measurements, BR in purple membrane was dried as film (∼150 μg) on a calcium fluoride cuvette with 10 μm optical path length. The film was rehydrated (∼1 μl water) and sealed with a calcium fluoride window to prevent dehydration.

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Fig. 1.

Home-built QCL-spectrometer containing four different laser heads. The QCL probe beam is power controlled by two polarizers (Pol₁/Pol₂). For controlling the focus spot size, a beam expander is implemented consisting of a convex (M₃) and concave (M₄) mirror pair and an iris diaphragm (ID₁). Focusing before (OAP1) and collimating behind (OAP2) the sample as well as focusing onto the mercury cadmium telluride (MCT) detector (OAP3) are accomplished with off-axis parabolic mirrors. In front of the detector there is a long pass filter for the mid-IR (LP_mir) and a band pass filter (BP_QCL) that is adapted to the respective wavenumber. The whole setup is constantly flushed with dry air for humidity control. The second harmonic Nd:YAG pump beam is widened by a convex (L_convex)–concave (L_concave) lens pair and homogenized with an iris diaphragm (ID₂). After excitation of the sample, the pump beam is blocked by a beam dump (BD). Deflected is the pump beam by silver coated mirrors (M₉/M₁₀), the QCL pathway by gold coating based mirrors (M₁–M₈).

The home-built QCL spectrometer setup is shown in Fig. 1. The laser source consists of four laser heads (QCL 1–4) allowing gapless tuning between 1475 cm⁻¹ and 2250 cm⁻¹ (QCL 1: 1950 cm⁻¹ to 2250 cm⁻¹; QCL 2: 1650 cm⁻¹ to 1950 cm⁻¹; QCL 3: 1475 cm⁻¹ to 1750 cm⁻¹) and, with a small gap, also from 1150 cm⁻¹ to 1350 cm⁻¹ (QCL 4). The beam power on the sample and at the detector is controlled by polarizers. The beam expander is built out of a convex-concave mirror pair [7], and the iris diaphragm defines the focused spot size at the sample. In front of the sample the probe beam is focused (f = 190.5 mm), and it is collimated (f = 101.6 mm) after the sample with off axis parabolic mirrors (OAP). An OAP of 76.2 mm focal length is used to focus the beam onto the mercury cadmium telluride (MCT) detector (Kolmar Technologies, Inc.). For reduction of interfering signals a long pass filter (cut-on wavelength = 3 μm) and a band pass filter corresponding to the probe wavenumber is installed in front of the detector. The sample is temperature controlled at 20°C and the laser setup is constantly flushed by dried air.

The photoexcitation was initiated by 5 ns laser pulses of the second harmonic (532 nm) of a Q-switched Nd:YAG laser (Minilite, Continuum Electro-Optics, Inc.). For a spatially more homogeneous excitation of the probed area, the pump beam is widened by a pair of concave (f = −50 mm) and convex (f = 200 mm) lenses and trimmed with an iris diaphragm. The excitation energy density is 2 mJ cm⁻¹.

The data were recorded with a 16 bit transient recorder board (M3i.4841, Spectrum Instrumentation) in the range of ±200 mV by 105 MS s⁻¹ in AC-mode. 2000 transients were averaged. A reference signal measured without the pump beam was subtracted in the analysis. Subsequently the absorbance difference was calculated by Δ A = − log 10 ( V ( t ) V ref ) , whereof V ( t ) is the time-dependent voltage recorded by the voltage at the detector, and V ref is the DC offset of the measured signal.

Two step-scan FTIR spectra of BR in two different states after photoexcitation are shown in Fig. 2, 10 μs (grey line) and 500 μs (dashed line). The spectra reveal the protein dynamics of the photoreaction, including conformational changes of the protein, differences in the isomerization state of the chromophore as well as protonation and deprotonation processes occurring inside the protein during the proton transfer reaction across the membrane. Amide I conformational changes of the protein are monitored between 1600 cm⁻¹ and 1700 cm⁻¹, the amide II conformational changes in the area of 1500 cm⁻¹ and 1600 cm⁻¹. The C–C single bond stretching of the retinal occurs between 1150 cm⁻¹ and 1280 cm⁻¹. Depending on the state of the photocycle, the stretching vibration of the retinal C=C double bonds is observed to shift between ∼1500 cm⁻¹ and 1560 cm⁻¹ [6]. Between 1700 cm⁻¹ and 1800 cm⁻¹ the protonation of carboxylic amino acid side chains can be monitored. In the lower part of Fig. 2, the regions of spectral tunability of the four QCL heads are displayed.

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Fig. 2.

Time-resolved FTIR difference spectra of BR in purple membrane at 10 μs (grey line) and 500 μs (dashed line) after photoexcitation. Marked by vertical lines are the four probe wavenumbers for the QCL measurements. Corresponding transients are shown in Fig. 3. The spectral ranges of the four QCL-heads are displayed by horizontal lines.

Four representative probe wavenumbers were selected from the emission spectra of QCL 2–4. Transients of these measurements are shown in Fig. 3. Horizontal lines mark the same states as in Fig. 2, 10 μs (grey line) and 500 μs (dashed line).

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Fig. 3.

Transients of absorption changes measured by the home-built QCL-spectrometer. Vertical lines mark 10 μs (grey line) and 500 μs (dashed line) corresponding to Fig. 2. (A) The strong absorbance change at ∼1527 cm⁻¹ is used as an IR marker for BR. (B) The absorbance change at 1562 cm⁻¹ contains several contributions as indicated in the text. (C) The protonation dynamics is monitored at 1760 cm⁻¹ for the primary proton acceptor Asp85 and (D) at 1188 cm⁻¹ for the corresponding deprotonation of the Schiff base.

The strong absorbance change at ∼1527 cm⁻¹ (Fig. 2) is caused by the C=C retinal stretching vibrations in the ground state [13]. Due to its signal strength it is often used as an IR marker of BR [8]. This huge change in absorbance after photoexcitation is also reflected in the transient measured with QCL 3, shown in Fig. 3A. The resulting negative band, which reaches its minimum shortly before 500 μs and then approaches zero again, is consistent with other measurements [8,12].

The C=C retinal stretching vibrations in the N intermediate occur at 1553 cm⁻¹ and contribute to the band probed at 1562 cm⁻¹ band together with the amide II conformational changes. The amide II band reaches a maximum in intensity in the N intermediate after ∼2 ms [6,8]. Additionally, it is suggested that the Arg82 protonation plays a critical role in the proton release and is also observed at 1562 cm⁻¹ [5,8,19,20]. Measuring this band by single wavenumber detection, Fig. 3B shows a consistent time trace towards the N intermediate.

The first proton transfer step can be observed at the wavenumber 1188 cm⁻¹ and 1760 cm⁻¹. After the initiation of the proton pump process by light excitation, the proton passes from the Schiff base to Asp85. This process is completed after ∼500 μs (M intermediate) [8]. The deprotonation dynamics of the Schiff base (1188 cm⁻¹) are described by a declining transient during this period. Correspondingly, a rising absorption change indicates the protonation dynamics of the primary proton acceptor Asp85 (1760 cm⁻¹). Figure 3D shows time-resolved QCL measurements of the Asp85 protonation at 1760 cm⁻¹, as was already reported before [17]. Complementarily, we selected the band of the Schiff base deprotonation at 1188 cm⁻¹ (Fig. 3C). Considering both transients in Fig. 3C and 3D, the simultaneous change in absorption up to ∼500 μs (dashed line) is striking. These kinetic traces are also consistent with previous FTIR measurements [10]. In the subsequent period starting at 500 μs, the curve in Fig. 3C first describes the reprotonation of the Schiff base and then converges towards zero due to the photocycle relaxation, in agreement with the literature [12]. During the same interval from 500 μs, the declining curve in Fig. 3D illustrates the deprotonation of Asp85 without further interference.

Comparing the relative signal strength of the absorbance difference between 10 μs and 500 μs, it matches the expected values measured by time-resolved FTIR shown in Fig. 2. The FTIR difference spectra reveal a decrease in intensity of the negative band at 1188 cm⁻¹ and of the positive band at 1527 cm⁻¹ with a similar absorbance change. This similar decrease in intensity between 10 and 500 μs is nicely reproduced in the QCL measurements (Fig. 3A and 3C). The bands at 1562 cm⁻¹ and 1760 cm⁻¹ show an increase in intensity in the FTIR spectra between 10 and 500 μs, with a stronger absorbance change for 1562 cm⁻¹ as for 1730 cm⁻¹. The same behavior was again reproduced in the QCL measurements (Fig. 3B and 3D).

The measurements of the M and N intermediates (Fig. 3B–D) demonstrated the consistency of our data with the literature. Furthermore, the comparison of the simultaneously occuring processes, the deprotonation of the Schiff base (Fig. 3B), and the protonation of the primary proton acceptor Asp85 (Fig. 3D) showed the coherence within the QCL single wavenumber measurements. The observed changes in absorption correspond to those obtained with our step-scan FTIR measurements.

Although the measurements at 1188 cm⁻¹ and 1527 cm⁻¹ are in a spectral region where the lasers provide the lowest power, lack of power at the detector presents no issue. The pointing stability depending on the wavenumber, especially within the individual laser heads, is considerably less than the 2 mrad given in the datasheet and is therefore in a manageable range. Here the signal-to-noise ratio (SNR) is calculated by SNR = A signal σ noise , whereof A signal is the amplitude of the signal and σ noise is the standard deviation of the noise. The best SNR is achieved at 1527 cm⁻¹ with a value of 578, the worst shows up at 1188 cm⁻¹ with a value of 39.

Our QCL spectrometer provides acceess to studying protein-membrane interaction. Lipid bands are located in the area of 3000–2800 cm⁻¹, but overlap with a strong water band. By deuterating the lipids, the bands get red-shifted into a spectral silent window between 2250 cm⁻¹ and 1950 cm⁻¹ [11]. This spectral region is covered by an additional QCL (QCL 1) which has already been implemented into the spectrometer. Thus, the home-built spectrometer is suited to analyze both lipid and protein dynamics.

The presented data show the application of a home-built QCL-spectrometer to monitor dynamics of BR with several QCLs tunable in a wide spectral region in the mid-IR. Different transient states of the BR photocycle were consistently resolved with nanosecond time-resolution and high signal-to-noise ratio. For future studies on lipid-induced dynamics, we will use deuterated lipids in biomimetic membranes. The associated bands shift into a spectral silent window accessible by our QCL spectrometer.