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Charge motions during the photocycle of pharaonis halorhodopsin.

Oriented gel samples were prepared from halorhodopsin-containing membranes from Natronobacterium pharaonis, and their photoelectric responses to laser flash excitation were measured at different chloride concentrations. The fast component of the current signal displayed a characteristic dependency on chloride concentration, and could be interpreted as a sum of two signals that correspond to the responses at high-chloride and no-chloride, but high-sulfate, concentration. The chloride concentration-dependent transition between the two signals followed the titration curve determined earlier from spectroscopic titration. The voltage signal was very similar to that reported by another group (Kalaidzidis, I. V., Y. L. Kalaidzidis, and A. D. Kaulen. 1998. FEBS Lett. 427:59-63). The absorption kinetics, measured at four wavelengths, fit the kinetic model we had proposed earlier. The calculated time-dependent concentrations of the intermediates were used to fit the voltage signal. Although no negative electric signal was observed at high chloride concentration, the calculated electrogenicity of the K intermediate was negative, and very similar to that of bacteriorhodopsin. The late photocycle intermediates (O, HR', and HR) had almost equal electrogenicities, explaining why no chloride-dependent time constant was identified earlier by Kalaidzidis et al. The calculated electrogenicities, and the spectroscopic information for the chloride release and uptake steps of the photocycle, suggest a mechanism for the chloride-translocation process in this pump.

Archaeal Proteins↗

Static and time-resolved step-scan Fourier transform infrared investigations of the photoreaction of halorhodopsin from Natronobacterium pharaonis: consequences for models of the anion translocation mechanism.

The molecular changes during the photoreaction of halorhodopsin from Natronobacterium pharaonis have been monitored by low-temperature static and by time-resolved step-scan Fourier transform infrared difference spectroscopy. In the low-temperature L spectrum anions only influence a band around 1650 cm(-1), tentatively assigned to the C=N stretch of the protonated Schiff base of L. The analysis of the time-resolved spectra allows to identify the four states: K, L(1), L(2), and O. Between L(1) and L(2), only the apoprotein undergoes alterations. The O state is characterized by an all-trans chromophore and by rather large amide I spectral changes. Because in our analysis the intermediate containing O is in equilibrium with a state indistinguishable from L(2), we are unable to identify an N-like state. At very high chloride concentrations (>5 M), we observe a branching of the photocycle from L(2) directly back to the dark state, and we provide evidence for direct back-isomerization from L(2). This branching leads to the reported reduction of transport activity at such high chloride concentrations. We interpret the L(1) to L(2) transition as an accessibility change of the anion from the extracellular to the cytosolic side, and the large amide I bands in O as an indication for opening of the cytosolic channel from the Schiff base toward the cytosolic surface and/or as indication for changes of the binding constant of the release site.

Bacteriorhodopsins↗

Temperature and halide dependence of the photocycle of halorhodopsin from Natronobacterium pharaonis.

The photocycle kinetics of halorhodopsin from Natronobacterium pharaonis (pHR(575)) was analyzed at different temperatures and chloride concentrations as well as various halides. Over the whole range of modified parameters the kinetics can be adequately modeled with six apparent rate constants. Assuming a model in which the observed rates are assigned to irreversible transitions of a single relaxation chain, six kinetically distinguishable states (P(1-6)) are discernible that are formed from four chromophore states (spectral archetypes S(j): K(570), L(N)(520), O(600), pHR'(575)). Whereas P(1) coincides with K(570) (S(1)), both P(2) and P(3) have identical spectra resembling L(520) (S(2)), thus representing a true spectral silent transition between them. P(4) constitutes a fast temperature-dependent equilibrium between the chromophore states S(2) and S(3) (L(520) and O(600), respectively). The subsequent equilibrium (P(5)) of the same spectral archetypes is only moderately temperature dependent but shows sensitivity toward the type of anion and the chloride concentration. Therefore, S(2) and S(3) occurring in P(4) as well as in P(5) have to be distinguished and are assigned to L(520)<--> O(1)(600) and O(2)(600)<--> N(520) equilibrium, respectively. It is proposed that P(4) and P(5) represent the anion release and uptake steps. Based on the experimental data affinities of the halide binding sites are estimated.

Anions↗

Cl(-) concentration dependence of photovoltage generation by halorhodopsin from Halobacterium salinarum.

The photovoltage generation by halorhodopsin from Halobacterium salinarum (shR) was examined by adsorbing shR-containing membranes onto a thin polymer film. The photovoltage consisted of two major components: one with a sub-millisecond range time constant and the other with a millisecond range time constant with different amplitudes, as previously reported. These components exhibited different Cl(-) concentration dependencies (0.1-9 M). We found that the time constant for the fast component was relatively independent of the Cl(-) concentration, whereas the time constant for the slow component increased sigmoidally at higher Cl(-) concentrations. The fast and the slow processes were attributed to charge (Cl(-)) movements within the protein and related to Cl(-) ejection, respectively. The laser photolysis studies of shR-membrane suspensions revealed that they corresponded to the formation and the decay of the N intermediate. The photovoltage amplitude of the slow component exhibited a distorted bell-shaped Cl(-) concentration dependence, and the Cl(-) concentration dependence of its time constant suggested a weak and highly cooperative Cl(-)-binding site(s) on the cytoplasmic side (apparent K(D) of approximately 5 M and Hill coefficient > or =5). The Cl(-) concentration dependence of the photovoltage amplitude and the time constant for the slow process suggested a competition between spontaneous relaxation and ion translocation. The time constant for the relaxation was estimated to be >100 ms.

Biophysical Phenomena↗

The nitrate transporting photochemical reaction cycle of the pharaonis halorhodopsin.

Time-resolved spectroscopy, absorption kinetic and electric signal measurement techniques were used to study the nitrate transporting photocycle of the pharaonis halorhodopsin. The spectral titration reveals two nitrate-binding constants, assigned to two independent binding sites. The high-affinity binding site (K(a) = 11 mM) contributes to the appearance of the nitrate transporting photocycle, whereas the low-affinity constant (having a K(a) of approximately 7 M) slows the last decay process in the photocycle. Although the spectra of the intermediates are not the same as those found in the chloride transporting photocycle, the sequence of the intermediates and the energy diagrams are similar. The differences in spectra and energy levels can be attributed to the difference in the size of the transported chloride or nitrate. Electric signal measurements show that a charge is transferred across the membrane during the photocycle, as expected. A new observation is an apparent release and rebinding of a small fraction of the retinal, inside the retinal pocket, during the photocycle. The release occurs during the N-to-O transition, whereas the rebinding happens in several seconds, well after the other steps of the photocycle are over.

Biological Transport, Active↗

Effect of salt on photocycle and ion-pumping of halorhodopsin and third rhodopsinlike pigment of Halobacterium halobium.

The cytoplasmic membranes of Halobacterium halobium contain at least three retinal pigments: bacteriorhodopsin (bR), halorhodopsin (hR), and a third rhodopsinlike pigment (tR). The amplitudes of the phototransient in the photolysis of hR and tR were measured in various salt solutions. Halogen ion (except fluoride) was required to retain the photocycle of hR. Parallels between the amplitude of the phototransient of hR and the magnitude of the photo-induced tetraphenylphosphonium (TPP+) uptake suggests that hR is a light-driven halogen pump, which supports the hypothesis by Schobert and Lanyi (J. Biol. Chem., 1982, 257:10306-10313). The order of effectiveness of halogen was Br- greater than Cl- greater than I-. On the other hand, no specific ion was required to retain the photocycle of tR, and tR was concluded to be nonelectrogenic.

Anions↗

Chromophore/protein and chromophore/anion interactions in halorhodopsin.

Halorhodopsin (HR), the light-driven chloride transport pigment of Halobacterium halobium, was bleached and reconstituted with retinal analogues with the pi electron system interrupted at different locations (dihydroretinals). The absorption maxima of the artificial pigments formed with the dihydroretinals are found to be very similar to those of the corresponding pigments formed by reconstitution of bacteriorhodopsin (BR) and sensory rhodopsin (SR). This strongly suggests that the distribution of charges around the retinal is similar in all three bacterial rhodopsins. Comparison of the primary, and proposed secondary, structures for HR and BR reveal conserved asparagine (asp) and arginine (arg) residues, which are likely candidates for the ionizable amino acids that interact with the retinal. In a second set of experiments absorption shifts due to the binding of anions to Sites I and II in HR, reconstituted with different retinal analogues, were used to estimate the locations of these binding sites relative to the retinal. Site I is localized near the Schiff base, and Site II near the ionone ring. On the basis of these results a structural model for HR is proposed, which accounts for the spectroscopic properties of HR in terms of the three buried arg residues and two of the buried asp residues in the protein.

Bacteriorhodopsins↗

Halorhodopsin and sensory rhodopsin contain a C6-C7 s-trans retinal chromophore.

Halorhodopsin (HR) and sensory rhodopsin (SR) have been regenerated with retinal analogues that are covalently locked in the 6-s-cis or 6-s-trans conformations. Both pigments regenerate more completely with the locked 6-s-trans retinal and produce analogue pigments with absorption maxima (577 nm for HR and 592 nm for SR) nearly identical to those of the native pigments (577 and 587 nm). This indicates that HR and SR bind retinal in the 6-s-trans conformation. The opsin shift for the locked 6-s-trans analogue in HR is 1,200 cm-1 less than that for the native chromophore (5,400 cm-1). The opsin shift for the 6-s-trans analogue in SR is 1,100 cm-1 less than that for the native retinal (5,700 cm-1). This demonstrates that approximately 20% of the opsin shift in these pigments arises from a protein-induced change in the chromophore conformation from twisted 6-s-cis in solution to planar 6-s-trans in the protein. The reduced opsin shift observed for the locked 6-s-cis analogue pigments compared with the locked 6-s-trans pigments may be due to a positive electrostatic perturbation near C7.

Bacteriorhodopsins↗

Purification of histidine tagged bacteriorhodopsin, pharaonis halorhodopsin and pharaonis sensory rhodopsin II functionally expressed in Escherichia coli.

Bacteriorhodopsin (BR) from Halobacterium salinarum as well as halorhodopsin (pHR) and sensory rhodopsin II (pSRII) from Natronobacterium pharaonis were functionally expressed in E. coli using the method of Shimono et al. IFEBS Lett. (1997) 420, 54-56]. The histidine tagged proteins were purified with yields up to 1.0 mg/l cell culture and characterized by ESI mass spectrometry and their photocycle. The pSRII and pHR photocycles were indistinguishable from the wild type proteins. The BR photocycle was considerably prolonged. pSOII is located in the cytoplasmic membrane and the C-terminus is oriented towards the cytoplasm as determined by immunogold labelling.

Amino Acid Sequence↗

Light-driven chloride ion transport by halorhodopsin from Natronobacterium pharaonis. 1. The photochemical cycle.

The photochemical cycle of the light-driven chloride pump, halorhodopsin from N. pharaonis, is described by transient optical multichannel and single-wavelength spectroscopy in the visible, and in the infrared. Titration of a blue-shift of the absorption maximum upon addition of chloride describes a binding site with a KD of 1 mM. The reaction sequence after the all-trans to 13-cis photoisomerization of the retinal in this chloride binding form is itself dependent on chloride. At 2 M chloride it is described by the scheme: HR-->K<==>L<==>N-->HR that relaxes in a few milliseconds, and is very similar to the photocycle of bacteriorhodopsin under conditions where the retinal Schiff base cannot deprotonate. At lower chloride concentrations, e.g., 0.1 M, however, a red-shifted state termed O appears between N and HR, in equilibrium with N. The absorption spectra of K, L, N, and O are very similar to their counterparts in the bacteriorhodopsin photocycle. As in their equivalents in bacteriorhodopsin, in the N state the retinal is still 13-cis, but it is reisomerized in the O state to all-trans.

Archaea↗

Light-driven chloride ion transport by halorhodopsin from Natronobacterium pharaonis. 2. Chloride release and uptake, protein conformation change, and thermodynamics.

The photocycle of the light-driven chloride pump, N. pharaonis halorhodopsin, is described by the scheme HR-->K--><==>L<==>N<==>O<==>HR'-->HR. From the chloride dependencies of the rate constants in this model we identify the N-->O and O-->HR' reactions as the steps where chloride release and uptake occur, respectively, during the transport. The dependencies of the rate constants on temperature describe a thermodynamic cycle in which enthalpy-entropy conversion occurs in the O-->HR' reaction. The dependencies of the rate constants on hydrostatic pressure indicate that a substantial volume decrease occurs at the L-->N reaction, a result of a large-scale conformational change. This is the opposite of the volume increase in the photocycle of the proton pump, bacteriorhodopsin, that is implicated in the access change of the active site during the transport and the passage of a proton from the cytoplasmic surface to the active site. The results together suggest a chloride transport mechanism, in which the equivalents of all the ion transfer steps in bacteriorhodopsin occur but in the reverse sense, so as to cause the extracellular-to-cytoplasmic translocation of a chloride ion instead of the cytoplasmic-to-extracellular transport of a proton.

Archaea↗

Artificial pigments of halorhodopsin and their chloride pumping activities.

Halorhodopsin (HR), the light-driven chloride pump of Halobacterium halobium, was bleached with hydroxylamine and regenerated with all-trans-retinal under several different conditions. The largest recovery of the pigment was found with apoprotein obtained from detergent-free HR [HR(BB)]. To compare the chloride-pumping mechanism of HR with that of bacteriorhodopsin (BR; the light-driven proton pump of the same bacteria), HR pigment analogues were reconstituted with the bleached HR (BB) and retinal analogues. The corresponding BR pigment analogues have previously been shown to have little or no proton-pumping activity, except for retinal2 (3,4-dehydroretinal). Pigment analogues with 13-demethylretinal or retinal2 showed an "opsin shift" similar to that of the all-trans-retinal pigment of both HR and BR. Opsin shifts of the pigments of 9-12-phenylretinal and 3,7-dimethyl-2,4,6,8-decatetraenal and haloopsin are slightly different from those of the corresponding BR pigment analogues, presumably reflecting differences of the chromophoric structures in HR and BR. In addition to the spectral properties, the effect of chloride ion on deprotonation of the Schiff base was measured. These pigment analogues showed the "chloride effect" (a shift of the pK value for deprotonation of the Schiff base), but a smaller one than that seen in HR. For a measurement of the chloride-pumping activity, each retinal analogue was added to a culture of L07 cells (BOP-, HOP+, Ret-), and the activity was measured with the cell suspension. Only cultures with retinal or retinal2 showed chloride-pumping activity, as is true for proton pumping by BR. This suggests that a similar retinal-protein interaction is necessary for both ion pumps.

Bacteriorhodopsins↗

Resonance Raman study of halorhodopsin photocycle kinetics, chromophore structure, and chloride-pumping mechanism.

Kinetic resonance Raman spectra of the HR520, HR640, and HR578 species in the halorhodopsin photocycle are obtained using time delays ranging from 5 microseconds to 10 ms in 0.3 M NO3-, 0.3 M Cl-, and 3 M Cl-. The Raman intensities are converted to absolute concentrations by using a conservation of molecules constraint. The simplest kinetic scheme that satisfactorily models the data is HR578-->HR520 in equilibrium with HR640-->HR578. The rate constant for the HR640-->HR578 transition increases with Cl- concentration, suggesting that Cl- is taken up between HR640 and HR578. The ratio of the forward to the reverse rate constants connecting HR520 and HR640 increases as the inverse of the Cl- concentration, suggesting that Cl- is released during the HR520-->HR640 step. The configuration about the C13 = C14 bond of the retinal chromophore in HR640 is examined by regenerating the protein with [12,14-2H2]retinal. The C12-2H + C14-2H rocking vibration for HR640 is observed at 943 cm-1, demonstrating that the chromophore is 13-cis. The changes in the resonance Raman spectrum of HR640 in response to 2H2O suspension indicates that the Schiff base linkage to the protein is protonated. None of the HR640 fingerprint vibrations shift significantly in 2H2O, suggesting that the Schiff base adopts a C = N anti configuration; this assignment is supported by the frequency of the C15-2H rocking mode (1002 cm-1). The 13-cis structure for the chromophore in HR640 requires that thermal isomerization back to all-trans occurs in the HR640-->HR578 transition. These structural and kinetic results are incorporated into a two-state C-T model for Cl- pumping.

Bacteriorhodopsins↗

Infrared spectroscopic detection of light-induced change in chloride-arginine interaction in halorhodopsin.

A light-induced transient change in the ionic interaction between chloride and arginine in the transmembrane anion pump halorhodopsin (hR) is detected with infrared absorption spectroscopy. In the IR difference spectrum of hR and one of its photoproducts (hL), only a few bands have frequencies that depend on the particular halide ion (Cl-, Br-, or I-) present. Three of the halide-sensitive negative difference bands (at 1695, 1610, and 1170 cm-1) correspond in frequency to arginine C-N vibrations and undergo anion-dependent shifts that match those seen in ethylguanidinium halide model compounds. These shifts reflect the different strengths of the ionic interactions formed with the various halides. We conclude that a halide-arginine ion pair is present in the hR state; this interaction appears to be disrupted by photoconversion to hL.

Anions↗

Anion-protein interactions during halorhodopsin pumping: halide binding at the protonated Schiff base.

Halorhodopsin (hR), the light-driven chloride pump of Halobacterium halobium, has been studied by Fourier transform infrared (FTIR) spectroscopy. Direct hydrogen bonding of halide ions with the protonated Schiff base (PSB) group was detected by means of halide-dependent perturbations on this group's vibrational frequencies. FTIR difference spectra were obtained of the hR-->hL photoreaction in reconstituted membrane vesicles. Nearly identical results were obtained using either low-temperature static difference spectroscopy at 1-cm-1 resolution or a stroboscopic time-resolved technique with 5-ms temporal and 2-cm-1 spectral resolution. The frequency of the negative difference band due to the PSB C = N stretch mode in the hR state shows a dependence on the type of halide counteranion that is present, 1632 cm-1 in the presence of Cl-, 1631 cm-1 in Br-, and 1629 cm-1 in I-. The C = NH+ stretch frequency thus correlates with the strength of the hydrogen bond formed by the halide. Analogous halide-dependent shifts of the C = NH+ frequency were observed in IR spectra of model compound retinylidene PSB salts. We also observed a significant halide dependence of the visible absorption maximum of hR solubilized in lauryl maltoside detergent. From such halide perturbation effects, we conclude that there is a direct hydrogen-bonded interaction between the Schiff base group and an externally supplied halide ion in the hR state. Halide perturbation effects are also observed for PSB-group vibrations in the hL state. Thus, despite an apparent overall weakening of hydrogen-bonding interactions of the PSB with its environment after chromophore photoisomerization to form hL, the PSB remains hydrogen-bonded to the halide. The results are best explained in terms of a "one-site, two-state" model for anion binding near the chromophore in the hR state, as opposed to a previously proposed two-site model.

Anions↗

Conformational changes in sensory rhodopsin I: similarities and differences with bacteriorhodopsin, halorhodopsin, and rhodopsin.

FTIR difference spectra have been obtained for the sR587----S373 phototransition of sensory rhodopsin I (sR-I), a signal-transducing protein of Halobacterium halobium. The vibrational modes of the sR587 chromophore have frequencies close to those of the bacteriorhodopsin bR568 chromophore, confirming that the two chromophores have very similar structures and environments. However, the sR-I Schiff base C = N stretch frequency is downshifted relative to bR, consistent with weaker hydrogen bonding with its counterion(s). The carboxyl (COOH) stretch modes of sR-I and halorhodopsin (hR) are at the same frequencies. On the basis of sequence homologies, these bands can be assigned to Asp-106 in helix D and/or Asp-201 in helix G. In contrast, no band was found that could be assigned to the protonation of Asp-76. In bR, the homologous residue Asp-85 serves as the acceptor group for the Schiff base proton. Bands appear in the amide I and II regions at similar frequencies in sR-I, hR, and bR, indicating that despite their different functions they all undergo closely related structural changes. Bands are also detected in the C-H stretch region, possibly due to alterations in the membrane lipids. Similar spectral features are also observed in the lipids of rhodopsin-containing photoreceptor membrane upon light activation.

Amino Acid Sequence↗

Electrostatic interaction between anions bound to site I and the retinal Schiff base of halorhodopsin.

The influence of different anions on the deprotonation of the retinal Schiff base of halorhodopsin in the dark was investigated. We find that a large number of anions cause a significant increase of the pKa of the Schiff base, an effect attributed to binding to "site I" on the protein. The concentration dependencies of the spectroscopic shifts associated with the changes of the pKa yielded dissociation constants (and thus binding energies) for the anions, which were related to the Stokes radii. The data fit the predictions of electrostatic interaction between the anions and the positive charge associated with site I, if the latter is located within a few angstroms from the surface of the protein. The specificity of site I toward various anions is quantitatively explained by the differences in the change of Born energy upon transfer of the anions from water to the binding site. The changes in the deprotonation energy of the Schiff base upon the binding of anions, delta delta Gdeprot, could be calculated from the delta pKa at infinite anion concentration. Unexpectedly, the delta delta Gdeprot values were remarkably close to the energies of binding to site I. Thus, site I and the Schiff base are strongly electrostatically coupled, either because of close proximity or because of the possibility of allosteric energy transfer between them.

Anions↗