Name: protein film infrared electrochemistry demonstrated for study of h2 oxidation by a [nife] hydrogenase
Uploaded: 2017-12-04T12:30:00
Duration: 10 min 1 s
Description: Watch this Scientific Journal Video about Protein Film Infrared Electrochemistry Demonstrated for Study of H2 Oxidation by a [NiFe] Hydrogenase at JoVE.com

The work of K.A.V. and P.A.A. was supported by the European Research Council (EnergyBioCatalysis-ERC-2010-StG-258600), Engineering and Physical Sciences Research Council IB Catalyst award EP/N013514/1, and Biotechnology and Biological Sciences Research Council (BB/L009722/1 and BB/N006321/1). R.H. was supported by Ministerio de Ciencia y Tecnolog&#236;a, Universidad de Costa Rica, and Lincoln College, Oxford. The authors acknowledge Mr. Charlie Jones, Mr. Charlie Evans and staff of the Mechanical Workshop (Department of Chemistry) for assistance in the design and manufacture of spectroelectrochemical cells used in this work.

1. Recreating the Internal Sample Compartment of an FTIR Spectrometer Inside an Anaerobic, Dry Glovebox and General Experimental Requirements
<ol>
	<li>Use a commercial FTIR spectrometer equipped with an external mercury cadmium telluride (MCT) detector and ATR accessory. Purge the body of the spectrometer with dry air or dinitrogen, or alternatively use a spectrometer with an evacuated optical bench.</li>
	<li>Place the spectrometer onto a stable, vibration-free table at the same height as an anaerobic (&#60;1 ppm O2), dry (dew point &#60; -75 &#176;C) glovebox. Divert the IR beam of the spectrometer into the glovebox, through an IR transparent window that is large enough to accommodate the defocused beam. 
	NOTE: It is important that the space between the glovebox and spectrometer is also purged or evacuated, especially if a hygroscopic window material, such as NaCl or KBr for example, is used.</li>
	<li>Replicate the internal sample compartment of the spectrometer inside the glovebox.
	<ol>
		<li>Direct the beam inside the glovebox onto an off-axis ellipsoidal mirror, ideally with the same focal length as the internal focusing mirror of the spectrometer. 
		NOTE: It is useful to have two additional plane mirrors placed before this focusing mirror, in order to allow both the height and the direction of the IR beam to be adjusted inside the glovebox; this will offset any inaccuracy in initial placement of the spectrometer.</li>
		<li>Place an external MCT detector, complete with a suitable focusing optic (such as a short focal length ZnSe lens, or off-axis parabolic mirror, with a short focal length) inside the glovebox, positioned such as to replicate the dimensions of the internal sample compartment of the spectrometer.</li>
		<li>Adjust the &#39;focus&#39; of the IR beam to be approximately equidistant between the focusing mirror and the MCT detector.</li>
	</ol>
	</li>
	<li>Cool the dewar of the external MCT detector with liquid nitrogen.</li>
	<li>Mount the ATR accessory into the glovebox sample compartment. Align the input and output focusing optics and ATR accessory to achieve maximum throughput to the MCT detector. If necessary, use an aperture or other suitable attenuation (such as a wire grid) to prevent oversaturation of the detector signal. 
	NOTE: For the data presented here, a five-reflection ATR accessory with all reflective optics and a removable trapezoidal Si internal reflection element (IRE) is used (Crystal GmbH, dimensions ca 5 &#215; 8 &#215; 1 mm3, face angle 39.5&#176;). The IRE is mounted in a removable baseplate machined from polyether ether ketone (PEEK).</li>
	<li>Use a glovebox to house the recreated sample compartment with suitable feedthroughs to allow connection to an externally-housed potentiostat (gas tight BNC connections are useful for this purpose), gas access, and cable(s) to transfer the signal from the MCT detector. It is important to retain any shielding on the detector cable to avoid introducing noise or interference to the measurements.</li>
	<li>Place a peristaltic pump, capable of flow rates greater than 60 mL/min inside the glovebox. A schematic view of the spectrometer, ATR accessory, peristaltic pump and potentiostat setup is shown in Figure 1.</li>
	<li>Construct a spectroelectrochemical cell, such as that shown schematically in Figure 2, that seals onto the ATR accessory. The cell should contain a high surface area counter electrode (Pt wire or gauze), a connection for the working electrode (carbon rod) and a miniature reference electrode. The cell should contain at least two further ports as inlet and outlet for rapid flow of solutions through the cell. 
	NOTE: A miniature saturated calomel reference electrode is ideal for this purpose.36</li>
</ol>
2. Preparation of Carbon Black Particles Modified with E. coli Hydrogenase 1
<ol>
	<li>In a &#39;wet&#39; anaerobic glovebox, mix 20 mg of high surface area carbon black particles (&#62;1,000 m3/g) with 1 mL ultrahigh purity water (resistivity &#62;18 M&#937; cm) in a microcentrifuge tube. Disperse the particles by low-power sonication (&#60;100 W) for at least 15 min, or until the dispersion is uniform and does not sediment within 1 h, to give a carbon black dispersion with a loading of approximately 20 mg/mL.</li>
	<li>Take an aliquot of E. coli hydrogenase 1 (Hyd1, approximately 50 &#181;L, prepared according to a published procedure55) at a concentration of ~7 mg protein/mL and exchange it into a low ionic strength buffer at a pH close to the isoelectric point (for example potassium phosphate, 15 mM, pH 5.8, no additional salt). To achieve best results, use an enzyme preparation that is as active as possible. Perform the buffer exchange by concentration and dilution, in a centrifugal filter device with an appropriate molecular weight cutoff (50 kDa works well for for Hyd1).
	<ol>
		<li>Add the Hyd1 to the filter device.</li>
		<li>Dilute with approximately 450 &#181;L of exchange buffer.</li>
		<li>Reconcentrate to a volume of 50 &#181;L using mild centrifugation (&#60; ~2700 &#215; g) to prevent irreversible precipitation.</li>
		<li>Repeat steps 2.2.2 and 2.2.3 until buffer exchange is complete (typically within ~5 cycles).</li>
	</ol>
	</li>
	<li>Mix a 5 &#181;L volume of 20 mg/mL carbon black dispersion (prepared in 2.1) with the 50 &#181;L aliquot of buffer-exchanged Hyd1. Store the enzyme-particle mixture in a refrigerator (at 0 &#176;C) overnight to allow the enzyme to adsorb. It may be necessary to shake the mixture occasionally to ensure the particles remain dispersed.</li>
	<li>Wash the Hyd1-modified particles with low ionic strength buffer (potassium phosphate, 15 mM, pH 5.8, no additional salt) by successive sedimentation and re-dispersion cycles in a microcentrifuge (~2,700 &#215; g). Repeat this process 3-5 times to remove non-adsorbed enzyme. 
	NOTE: Before the first wash the supernatant should be virtually colorless, indicating good adsorption of enzyme.</li>
	<li>Concentrate the particles to a final volume of ~5 &#181;L, to give a final loading of ~20 mg/mL of enzyme-modified particles. 
	NOTE: The Hyd1-modified particles can be stored at 4 &#176;C for up to two weeks if they remain hydrated; this is best achieved by storing particles diluted with ~50 &#181;L of ultrahigh purity water.</li>
</ol>
3. Preparation for PFIRE Measurements on E. coli Hydrogenase 1
<ol>
	<li>Clean the Si IRE by low-powered sonication (&#60; 100 W), first in H2SO4 (&#60; 90 % w/w) for ~15 min, and then in HNO3 (70 % w/w) for up to 1 hr. This cleaning procedure should lead to a hydrophilic IRE surface. If further cleaning is required the IRE can be placed in piranha solution (a 1:3 ratio of H2O2:H2SO4) to oxidize any remaining organic material. 
	NOTE: Harsh acidic cleaning methods may not be suitable for use with all IRE materials. Piranha solution is highly corrosive and a strong oxidant, surfaces should be reasonably clean before use of piranha solution and care should be taken during preparation and use of piranha solution due to the exothermic nature of the process - always add H2O2 slowly to H2SO4 and refer to the appropriate safety procedures for preparation, use and disposal.</li>
	<li>Rinse the clean IRE in ultrahigh purity water, and dry under a stream of dry nitrogen gas. Carry out all prism handling using clean tweezers to avoid contamination.</li>
	<li>Seal the IRE into the ATR accessory baseplate using a thin strip of electrical-grade silicone sealant. Take care to restrict the sealant to the edges of the IRE. Allow the sealant to dry fully.</li>
	<li>Transfer the ATR accessory baseplate to the spectrometer glovebox and mount it onto the ATR accessory. Measure a reference (background) spectrum between 4000 - 1,000 cm-1 at 4 cm-1 resolution, using the standard rapid scan mode of the spectrometer and 1024 averaged interferograms (measurement time ~3 - 5 min). Use this spectrum as an input to allow computation of absorbance spectra later in the experiment. 
	NOTE: Due to the small absorbance expected for the Hyd1 active site it is necessary to collect spectra with high signal to noise ratios.</li>
	<li>Transfer the ATR accessory baseplate to the &#39;wet&#39; glovebox which contains the pre-prepared Hyd1-modified particle dispersion (section 2). Drop-cast a 1 &#181;L aliquot of the particle dispersion onto the large face of the IRE, and spread them evenly across the surface. Note: Do not allow the particles to become completely dry on the IRE.</li>
	<li>Cut a piece of carbon paper, such as that used as gas diffusion layer material in fuel cells, to a size ~0.1 mm smaller than the surface dimensions of the IRE (i.e. ca. 8.2 &#215; 4.9 mm2). The surface area of the carbon paper should be large enough to cover the drop-cast Hyd1-modified particles, but not so large as to overlap the silicone sealant used to secure the IRE. Soak the carbon paper in water, and gently place it over the top of the particle film. The carbon paper will provide a good electrical connection across the whole particle film. 
	NOTE: It is beneficial to prepare several pieces of carbon paper in advance, and store them pre-soaked in ultrahigh purity water inside the &#39;wet&#39; anaerobic glovebox.</li>
	<li>Mount the spectroelectrochemical cell (described in 1.7 and shown schematically in Figure 2) over the IRE, secure it into the baseplate with screws. Add ~200 &#181;L of the experimental buffer to keep the enzyme hydrated. A mixed buffer system, capable of buffering over a wide pH range, is useful for studies on NiFe hydrogenases:56 sodium acetate, 2-[N&#39;-morpholino]ethane-sulfonic acid (MES), N&#39;-[2-hydroxyethyl]piperazine-N&#39;-[2-ethane-sulfonic acid] (HEPES), N&#39;-tris[hydroxymethyl]methyl-3-amino-propane-sulfonic acid (TAPS), and 2-[N&#39;-cyclohexylamino]ethane-sulfonic acid (CHES), with each component at a final concentration of 15 mM and containing 0.1 M NaCl as supporting electrolyte, with pH adjusted to pH 6 using concentrated NaOH and HCl. 
	NOTE: The working electrode connection should protrude slightly below the plane of the spectroelectrochemical cell top (~0.1 mm) to ensure good electronic connection to the carbon paper (Figure 2).</li>
	<li>Connect the solution inlet and outlet of the spectroelectrochemical cell to a flow system containing peristaltic pump tubing and a vial of the experimental buffer. Transfer the assembled cell to the &#39;dry&#39; glovebox containing the spectrometer.</li>
	<li>Mount the spectroelectrochemical cell assembly onto the ATR accessory. Connect the working, counter and reference electrodes to the potentiostat. Connect the peristaltic pump tubing to the pump.</li>
	<li>Record an absorbance spectrum with 1024 averaged interferograms at 4 cm-1 resolution over a spectral range of 4,000 - 1,000 cm-1, using the spectrum collected in 3.4 as a reference/background. At this point the spectrum should contain significant (&#62;100 mO.D.) amide II bands at ~1,540 cm-1 and active site bands of Hyd1 should be evident in the spectral region 1,850 - 2,150 cm-1, largely in oxidized, inactive states (Figure 3).</li>
</ol>
4. Activation of E. coli Hydrogenase 1 and Testing the Spectroelectrochemical Cell
<ol>
	<li>Apply a reducing potential (&#8722;0.8 V vs SCE) to the Hyd1-modified particle film. Saturate the experimental buffer with H2 and flow buffer slowly through the spectroelectrochemical cell. Leave the sample overnight to fully activate the Hyd1. 
	NOTE: It is important to use anaerobic H2, N2 etc., and so all anaerobic gases should be passed through an O2 filter.</li>
	<li>Record an absorbance spectrum of the sample after activation. The &#957;CO and vCN bands of the active site should now show a distribution of reduced, &#39;active&#39; states. This is most easily observed through the use of a difference spectrum, relative to the spectrum recorded in 3.10 (Figure 4).</li>
	<li>Test the electrical connection of the spectroelectrochemical cell. To do this, saturate the experimental buffer with N2 gas. Apply a sequence of oxidizing (0 V vs SCE) and reducing (&#8722;0.8 V vs SCE) potentials (of ca 30 min duration) to the Hyd1-modified particle film, and record an absorbance spectrum at each. The Hyd1 should become rapidly oxidized and reduced, and if the particle film is well connected 100 % of the sample should respond to the applied potential.</li>
	<li>Set an appropriate flow rate of the experimental buffer. To do this, apply a reducing potential (&#8722;0.8 V vs SCE) to the sample, and saturate the experimental buffer with H2. Record a series of cyclic voltammograms between -0.707 - 0.039 V vs SCE at a scan rate of 10 mV/s. Gradually increase the flow rate of H2-saturated buffer between voltammograms until the catalytic waveshape resembles that at a planar rotating disc electrode55 and the maximum current is independent of flow rate (Figure 5). 
	NOTE: The solubility limit of H2 in water is ~0.8 mM at 293 K and 1 bar.</li>
	<li>As the sample is now ready for PFIRE measurements, collect spectra at a range of potentials, under a range of solution conditions (pH, temperature, H2 concentration etc.). Record all electrochemical data using the potentiostat software as it is important to be able to correlate spectroscopic and electrochemical data, especially when studying electrocatalytic processes such as H2 oxidation by Hyd1.</li>
</ol>
5. Spectroscopic Data Handling
<ol>
	<li>Confirm that the active site has not been permanently altered during the course of the measurements by recording spectra at 0 V and &#8722;0.8 V vs SCE at the end of the experiment. These should be identical to the spectra recorded in 4.3, and no loss of active site should be observed during the measurement (Figure 6).</li>
	<li>Export absolute absorbance spectra from the spectrometer software in a suitable format (.csv, ASCII, &#39;matlab&#39;, Jcamp etc.) for processing using software such as Origin or Matlab.</li>
	<li>Baseline correct the data, using the process illustrated in Figure 7.
	<ol>
		<li>Take the second derivative of each absorbance spectrum in the range 1,800 - 2,150 cm-1, in order to identify small (&#60;1 mO.D.) active site bands against the highly-curved water background.</li>
		<li>Place baseline marker points on the original absorbance spectrum, and set the points to &#39;snap&#39; to the experimental spectrum.</li>
		<li>Fit a baseline through the points using an interpolated cubic spline function or a polynomial function. Subtract this baseline function from the experimental data.</li>
	</ol>
	</li>
</ol>

The authors declare no competing financial interest.

PFIRE is a broadly applicable IR spectroscopic technique for addressing electrode-immobilized redox proteins. In particular, electrocatalytic reactions of redox enzymes can be probed under fast turnover conditions. The PFIRE method builds upon the direct electrochemical control provided by the technique of PFE, which provides no direct structural information, and couples it to IR spectroscopy at a carbon electrode. The PFIRE approach thus adds chemical insight to the information available from electrochemistry alone and is highly suited to study of redox proteins and enzymes involved in small molecule binding and activation. In addition, PFIRE can provide information about potential-dependent structural changes in proteins in the absence of catalytic turnover. Such non-turnover electron transfer events are often difficult to detect using &#39;standard&#39; applications of PFE, although the extension of PFE to Fourier-transformed AC voltammetry has been used with great success.45,46
The PFIRE method is, in principle, suitable for the study of any redox protein that can be studied using PFE. Therefore, as with PFE, protein adsorption is a critical step for a successful PFIRE experiment. In this protocol we describe an application of the PFIRE technique using E. coli Hyd1 as a case study.36,43 However, we have also applied the PFIRE technique to the cytoplasmic regulatory hydrogenase from R. eutropha,44 and to flavin mononucleotide adsorbed on carbon black.40 In all these cases, simple physical adsorption to unmodified high surface area carbon black (as described in this Protocol) provides a surface coverage of protein that is high enough to record good quality IR spectra with a high signal-to-noise ratio. In cases where such high levels of adsorption cannot be achieved it may be necessary to modify the surface of the carbon particles, for example to allow covalent attachment of protein to the electrode surface.60,61,62 The use of a glovebox for PFIRE measurements is only strictly necessary when studying samples that must be handled anaerobically. However in practice the extremely constant and low (&#60; 80 &#176;C dew point) levels of water vapor provided by the glovebox atmosphere give high signal-to-noise levels that allow the extraction of very small absorbances.44 In many cases an anaerobic environment, such as that provided by the glovebox, is also desirable for the electrochemical measurement (integral to the PFIRE technique) in order to avoid current due to O2 reduction at the working electrode.
IR absorbances due to bulk water, experimental buffers and the carbon particles on which the sample is adsorbed all contribute significantly to the experimental spectra and could overlap bands of interest, particularly in the amide I, II and III regions of the spectrum.63 The amide region also contains information from organic species such as flavins or nicotinamide cofactors, as well as the substrates and products of many oxidation and reduction reactions. In the case of NiFe hydrogenases, &#957;CO and &#957;CN bands of the active site fall in a relatively clear region of the spectrum and so the PFIRE technique is very well suited to the study of these enzymes. In other cases, however, difference spectra coupled with isotopic labelling approaches may be needed to isolate changes due to the immobilized protein. Similar approaches have been used to identify, for example, protonation changes, structural rearrangements and to study Michaelis-Menten complexes using IR spectroscopy.64,65,66 PFIRE is not, therefore, limited to the study of hydrogenases but can be applied to any redox protein that contains (or whose substrates, products or inhibitors contain) groups with diagnostic IR-active vibrations; carbon monoxide dehydrogeanses,67 nitrogenases,68,14 flavoproteins,40 and formate dehydrogenases, for example.
The related technique, SEIRA, is very well suited to the study of membrane-associated proteins in a biomimetic environment.32 SEIRA is an adaptation of IR spectroscopy that also uses an ATR-IR configuration, and makes use of a surface enhancement effect that amplifies the IR absorbance of molecules located close to (within a few nm) the surface of the ATR prism (IRE). SEIRA is therefore exquisitely sensitive to spectral changes that occur within the adsorbed protein and membrane architecture and is relatively free from competing signals from solvent and substrates/inhibitors present in solution. This is somewhat in contrast to the PFIRE technique described here which relies on a significantly greater penetration depth above the surface of the IRE (~1 &#181;m), meaning that PFIRE is more sensitive to substrates, products or inhibitors present in solution. This increased sensitivity to &#39;bulk&#39; solvent can be advantageous; if the substrate or product can be observed directly by IR, PFIRE spectra report on both steady state kinetics of long-lived active species and associated product formation during electrocatalysis.69 The ability to observe steady state concentrations of substrate and product will be particularly valuable for enzymes such as carbon monoxide dehydrogenase (which catalyzes the reversible oxidation of CO to CO2, a strong IR absorber) or formate dehydrogenase (which catalyzes the reversible oxidation of formate to CO2).
At present, PFIRE is limited to steady-state kinetic studies of enzyme electrocatalysis due to the macroscopic carbon electrodes used to &#39;concentrate&#39; the enzyme onto the surface of an IRE for data collection in and ATR-IR geometry. In this respect PFIRE studies of NiFe hydrogenases are complementary to the work of Dyer and co-workers,49,50 who use light-triggered transient absorption IR spectroscopy to study sub-turnover kinetics. Work is underway to miniaturize the spectroelectrochemical cell,40 and with the use of microelectrodes time resolution on the order of microseconds should be achievable. This will enable study of sub-turnover kinetics for enzymes with turnover frequencies up to ca 100 - 500 s-1, and will enable the study of both reductive and oxidative processes.
Overall, PFIRE is a spectroscopic technique that allows chemical characterization of electrocatalytic reactions of redox enzymes under steady state conditions. The PFIRE approach allows multiple chemical and electrochemical titrations to be carried out on the same enzyme sample, as the high surface area electrodes used provide a robust adsorption of protein and the ATR-IR geometry allows facile solution exchange. The ability to collect such structural information in situ during enzyme function is an invaluable tool for the wider bioelectrochemistry community.

A key challenge in the study of protein function involves development of in situ methods that allow direct observation of proteins carrying out their physiological roles, either in vivo or using isolated protein samples. This requires the integration of control or triggering processes into experimental procedures and use of combined techniques that allow both the reactivity to be assessed, and individual chemical steps during protein function to be measured, simultaneously. In the case of redox proteins this often equates to combining electrochemical techniques, which precisely control the applied potential but provide no direct chemical information, with spectroscopic techniques that are sensitive to chemically-specific changes associated with protein function.1,2,3 Spectroelectrochemistry is a general term for a range of coupled electrochemical and spectroscopic methods that encompass a variety of spectroscopic techniques and levels of electrochemical control. Many proteins can exchange electrons with artificial, soluble electron donors and acceptors and this has been exploited in studies which use small molecules to mediate electron transfer, including coupling with UV-visible,4,5,6,7 magnetic circular dichroism8 and infrared5,9,10,11,12,13,14 (IR) spectroscopies. In a limited number of cases it has proved possible to exploit unmediated, diffusion-controlled electron exchange between proteins and electrodes.15,16
For catalytic reactions carried out by redox enzymes, solution electrochemistry approaches present a clear disadvantage. Diffusion-controlled electron transfer via redox mediators in solution is likely to become rate limiting. Kinetic and mechanistic information about the enzyme may be lost, or at least become difficult to deconvolute from diffusion artefacts resulting from the experimental method. Direct, unmediated electrochemical control is therefore an important tool for the study of redox proteins and enzymes. The technique of protein film electrochemistry (PFE) employs electrode-immobilized redox proteins, in such a way that electrons are transferred directly to or from the redox cofactors within the protein as the electrode is polarized at a series of potentials.17,18,19 PFE is of particular value for the study of oxidation or reduction reactions catalyzed by redox enzymes, as interfacial electron transfer can be achieved at a very high rate. For example, the electrocatalytic turnover rate of the nickel-iron ([NiFe]) hydrogenase from Allochromatium vinosum was measured by PFE as ca 1,000 - 10,000 s&#8722;1 for H2 oxidation.20&#160;The electrode potential acts as a trigger to turn catalysis &#39;on&#39; or &#39;off&#39;, and the electrocatalytic current reports on enzyme activity. PFE is therefore a valuable method for analyzing the reactivity of complex enzymes that depend intimately on potential, such as reactions of the di-iron active site of [FeFe]-hydrogenases with CO and O2,21 or potential-induced inactivation reactions of hydrogenases,22 carbon monoxide dehydrogenase,23 and other complex redox enzymes.24
The principal barrier to combining spectroscopic techniques with the direct electrochemical control afforded by PFE arises from the low surface coverage of redox enzymes, on the order of 1-2 pmol cm-2 for the [NiFe] hydrogenase from A. vinosum,20 relative to in situ surface science studies of small molecule adsorbates on bulk metal electrodes. This presents a challenge for the sensitivity of the spectroscopic measurement. Several spectroelectrochemical methods have been reported for studying immobilized redox proteins at a range of different electrodes: UV-visible spectroscopy at transparent metal oxide electrodes;25,26,27 fluorescence spectroscopy at gold electrodes;28,29 surface enhanced infrared absorption (SEIRA) spectroscopy at gold electrodes;30,31,32,33 and surface enhanced Raman spectroscopic techniques, principally at silver electrodes.34,35
Here we describe a method for coupling PFE with IR spectroscopy, in a technique known as protein film infrared electrochemistry (PFIRE).36 The PFIRE method studies redox enzymes immobilized on a high surface area carbon working electrode in conjunction with an attenuated total reflectance IR (ATR-IR) geometry, exploiting the ease of adsorption of a range of proteins onto carbon surfaces. IR spectroscopy is useful in studies of redox enzymes and proteins as many small molecules, ligands and cofactors have diagnostic absorbances that can be used to assess reactivity, binding, inhibition and redox state. Examples include binding of NO to iron-sulfur centers,37 study of flavoproteins,38,39,40 small molecule binding to heme centers etc.41 The ATR-IR geometry allows construction of an optimized three-electrode (spectro)electrochemical cell42 and therefore provides excellent electrochemical control. Solution resistance and potential drift are minimized by placing a reference electrode close to the working electrode. High surface area counter electrodes are used that are compatible with high electrocatalytic currents produced by fast enzyme turnover at the working electrode. Flow of solution through the spectroelectrochemical cell allows facile control over the concentration of substrates, inhibitors and pH.36,43,44 The PFIRE method therefore allows IR spectra to be recorded in situ during sustained enzyme electrocatalysis.36,44 PFIRE is also capable of providing chemical information in the absence of catalytic current,43 in contrast to PFE where it can be difficult to extract information from non-catalytic processes in redox enzymes.45,46
We have demonstrated the PFIRE method for study of electrocatalytic H2 oxidation by [NiFe] hydrogenases, which contain intrinsic CO and CN ligands coordinated to Fe at a bimetallic active site.36,43,44 [NiFe] hydrogenases are therefore particularly well suited to study by PFIRE. The PFIRE method provides information about the species that are present during steady-state turnover, and therefore provides crucial mechanistic insight in addition to the wealth of literature on IR spectroscopy of hydrogenases without experimental control over turnover.47,48 Dyer and co-workers have employed time-resolved IR methods to study of NiFe hydrogenases,49,50,51 using a light trigger to either apply a small negative potential step (via use of solution mediators and a &#39;caged&#39; electron source) or photolyse a bound hydride. Although the PFIRE method cannot, at present, provide time resolution to match these measurements,40 it does allow study of both reductive and oxidative catalytic processes, accessed at a range of well-defined potentials and free from mass transport limitations.
The PFIRE method is distinct from SEIRA studies of redox proteins, which also use an ATR-IR geometry and employ a nanoscale-roughened metal electrode to enhance the IR absorbance of molecules adsorbed on the electrode surface.30 SEIRA is an extremely valuable technique for studying membrane proteins, in particular adsorbed on or within mimetic membrane architectures,32 but the need for a metal electrode can limit the substrate and inhibitor scope due to reactivity of the electrode support towards small molecules such as CO, CN-, CO2 etc. Proton reduction and self-assembled monolayer desorption can be problematic on metal surfaces at very negative potentials,1,52 although enzyme electrocatalysis on unprotected metal electrodes has been reported.53,54 A disadvantage of PFIRE relative to SEIRA is the relative difficulty of incorporating membrane proteins in native or mimetic membrane architectures. However, the relative chemical inertness of the carbon electrodes to competing small molecule activation reactions makes PFIRE an excellent technique for studying enzyme electrocatalysis, particularly in the low-potential domain relevant to biological redox processes such as proton reduction by hydrogenases.1,43
The aim of this article is to introduce the PFIRE method as a technique for studying electrode-immobilized redox proteins, using NiFe hydrogenase 1 (Hyd1) from Escherichia coli as an example. Considerations of sample preparation, the requirement for good substrate flow, and data handling are discussed. PFIRE is a broadly applicable technique, well-suited to studying any redox protein (with characteristic IR absorbances) that can be adsorbed onto carbon electrodes, either directly or using surface modification, such that it can exchange electrons with the electrode.

<table border="0" cellpadding="0" cellspacing="0" width="573">
	<colgroup>
		<col />
		<col />
		<col />
		<col />
	</colgroup>
	<tbody>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Spectrometer</td>
			<td style="width:71px;">Agilent</td>
			<td style="width:119px;">680-IR</td>
			<td style="width:167px;">with an external MCT detector</td>
		</tr>
		<tr height="63">
			<td height="63" style="height:63px;width:216px;">ATR accessory</td>
			<td style="width:71px;">Pike Technologies</td>
			<td style="width:119px;">GladiATR</td>
			<td>Customised for use with a 5-reflection Si IRE</td>
		</tr>
		<tr height="84">
			<td height="84" style="height:84px;width:216px;">Glovebox</td>
			<td style="width:71px;">Glove Box Technology Ltd.</td>
			<td style="width:119px;">N/A</td>
			<td>Custom designed &#39;wet&#39; and &#39;dry&#39; box for anaerobic sample handling and measurement</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">KBr window</td>
			<td style="width:71px;">Crystran</td>
			<td style="width:119px;">Custom</td>
			<td>To allow coupling of the glovebox with the external beam of the FTIR spectrometer</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Additional optics</td>
			<td style="width:71px;">Agilent</td>
			<td style="width:119px;">N/A</td>
			<td>Components from a PM-IRRAS accessory</td>
		</tr>
		<tr height="42">
			<td height="42" style="height:42px;width:216px;">Silicon IRE</td>
			<td style="width:71px;">Crystal GmbH</td>
			<td style="width:119px;">Custom</td>
			<td>Trapezoidal: 8.4 mm x 5 mm (large face), 1 mm thickness, ca 39 degree face angle</td>
		</tr>
		<tr height="42">
			<td height="42" style="height:42px;width:216px;">Potentiostat</td>
			<td style="width:71px;">Metrohm</td>
			<td style="width:119px;">Autolab PGSTAT 128N</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Nova 10.1</td>
			<td style="width:71px;">Metrohm</td>
			<td style="width:119px;"></td>
			<td>Software for controlling the potentiostat</td>
		</tr>
		<tr height="126">
			<td height="126" style="height:126px;width:216px;">Peristaltic pump</td>
			<td style="width:71px;">Williamson Manufacturing Company Ltd</td>
			<td>QL-1000-024-300</td>
			<td></td>
		</tr>
		<tr height="63">
			<td height="63" style="height:63px;width:216px;">Pt wire</td>
			<td style="width:71px;">Surepure Chemetals</td>
			<td align="right" style="width:119px;">3272</td>
			<td>99.95% Pure Platinum Wire, 0.014 inch Diameter</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Carbon rod</td>
			<td style="width:71px;">WH Smith</td>
			<td align="right">30729209</td>
			<td>0.7 mm HB pencil lead</td>
		</tr>
		<tr height="63">
			<td height="63" style="height:63px;width:216px;">Carbon black</td>
			<td style="width:71px;">Cabot Corporation</td>
			<td style="width:119px;">Black Pearls 2000</td>
			<td></td>
		</tr>
		<tr height="42">
			<td height="42" style="height:42px;width:216px;">Ultrasonic bath</td>
			<td style="width:71px;">Ultrawave</td>
			<td style="width:119px;">U100</td>
			<td>35 W</td>
		</tr>
		<tr height="42">
			<td height="42" style="height:42px;width:216px;">Centrifugal filter</td>
			<td style="width:71px;">Merck Millipore</td>
			<td style="width:119px;">UFC5050BK</td>
			<td>Amicon Ultra, 50 KDa MW cutoff</td>
		</tr>
		<tr height="42">
			<td height="42" style="height:42px;width:216px;">Microcentrifuge</td>
			<td style="width:71px;">Eppendorf</td>
			<td align="right" style="width:119px;">5452000018</td>
			<td>MiniSpin</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">NaCl</td>
			<td style="width:71px;">Sigma</td>
			<td align="right" style="width:119px;">71376</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">H2SO4</td>
			<td style="width:71px;">Fisher</td>
			<td style="width:119px;">S/9240/PB17</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">HNO3</td>
			<td style="width:71px;">Fisher</td>
			<td style="width:119px;">N/2300/PB17</td>
			<td></td>
		</tr>
		<tr height="84">
			<td height="84" style="height:84px;width:216px;">silicone sealant</td>
			<td style="width:71px;">Cow Corning Toray Co., Ltd.</td>
			<td style="width:119px;">SE 4486</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Carbon paper</td>
			<td style="width:71px;">Toray</td>
			<td style="width:119px;">TGP-H-030</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">H2 gas</td>
			<td style="width:71px;">BOC</td>
			<td style="width:119px;"></td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">N2 gas</td>
			<td style="width:71px;">BOC</td>
			<td style="width:119px;"></td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">OriginPro 2015</td>
			<td style="width:71px;">OriginLab</td>
			<td style="width:119px;"></td>
			<td>Data analysis/graphing software</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:216px;">Resolutions Pro 4.0</td>
			<td style="width:71px;">Varian</td>
			<td style="width:119px;"></td>
			<td>Software for controlling FTIR spectrometer</td>
		</tr>
	</tbody>
</table>

protein film infrared electrochemistry demonstrated for study of h2 oxidation by a [nife] hydrogenase

Understanding the chemistry of redox proteins demands methods that provide precise control over redox centers within the protein. The technique of protein film electrochemistry, in which a protein is immobilized on an electrode surface such that the electrode replaces physiological electron donors or acceptors, has provided functional insight into the redox reactions of a range of different proteins. Full chemical understanding requires electrochemical control to be combined with other techniques that can add additional structural and mechanistic insight. Here we demonstrate a technique, protein film infrared electrochemistry, which combines protein film electrochemistry with infrared spectroscopic sampling of redox proteins. The technique uses a multiple-reflection attenuated total reflectance geometry to probe a redox protein immobilized on a high surface area carbon black electrode. Incorporation of this electrode into a flow cell allows solution pH or solute concentrations to be changed during measurements. This is particularly powerful in addressing redox enzymes, where rapid catalytic turnover can be sustained and controlled at the electrode allowing spectroscopic observation of long-lived intermediate species in the catalytic mechanism. We demonstrate the technique with experiments on E. coli hydrogenase 1 under turnover (H2 oxidation) and non-turnover conditions.

Watch this Scientific Journal Video about Protein Film Infrared Electrochemistry Demonstrated for Study of H2 Oxidation by a [NiFe] Hydrogenase at JoVE.com

Protein Film Infrared Electrochemistry Demonstrated for Study of H2 Oxidation by a [NiFe] Hydrogenase

Here, we describe a technique, protein film infrared electrochemistry, which allows immobilized redox proteins to be studied spectroscopically under direct electrochemical control at a carbon electrode. Infrared spectra of a single protein sample can be recorded at a range of applied potentials and under a variety of solution conditions.

Protein Film Infrared Electrochemistry Demonstrated for Study of H2 Oxidation by a [NiFe] Hydrogenase

Understanding the chemistry of redox proteins demands methods that provide precise control over redox centers within the protein. The technique of protein ...

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