Kenji Hiraki

Crystal Structure of Squid Rhodopsin with Intracellularly Extended Cytoplasmic Region

G-protein-coupled receptors play a key step in cellular signal transduction cascades by transducing various extracellular signals via G-proteins. Rhodopsin is a prototypical G-protein-coupled receptor involved in the retinal visual signaling cascade. We determined the structure of squid rhodopsin at 3.7Å resolution, which transduces signals through the Gq protein to the phosphoinositol cascade. The structure showed seven transmembrane helices and an amphipathic helix H8 has similar geometry to structures from bovine rhodopsin, coupling to Gt, and humanβ2-adrenergic receptor, coupling to Gs. Notably, squid rhodopsin contains a well structured cytoplasmic region involved in the interaction with G-proteins, and this region is flexible or disordered in bovine rhodopsin and humanβ2-adrenergic receptor. The transmembrane helices 5 and 6 are longer and extrude into the cytoplasm. The distal C-terminal tail contains a short hydrophilic α-helix CH after the palmitoylated cysteine residues. The residues in the distal C-terminal tail interact with the neighboring residues in the second cytoplasmic loop, the extruded transmembrane helices 5 and 6, and the short helix H8. Additionally, the Tyr-111, Asn-87, and Asn-185 residues are located within hydrogen-bonding distances from the nitrogen atom of the Schiff base.

Phase transitions of the purple membrane and the brown holo-membrane X-ray diffraction, circular dichroism spectrum and absorption spectrum studies

Abstract The phase transition of the purple membrane observed by differential scanning calorimetry (Jackson, M.B. and Sturtevant, J.M. (1978) Biochemistry 17, 911–915) has been investigated by X-ray diffraction, circular dichroism and absorption spectrum, in comparison with the phase transition in the brown holo-membrane. The two-dimensional crystal of bacteriorhodopsin transformed into two-dimensional liquid around 74–78°C in the purple membrane and around 50–60°C in the brown holo-membrane. The X-ray diffraction patterns obtained at 78°C for the purple membrane and at 60°C for the brown holo-membrane exhibit several broad peaks. Analysis of the pattern suggests that bacteriorhodopsin molecules aggregate in trimers even above the phase transition temperature. The negative circular dichroism band in the visible region is still present at 80°C in the purple membrane and at 60°C in the brown holo-membrane, but becomes negligibly small at 70°C in the brown holo-membrane. The 560 nm absorption peak due to bacteriorhodopsin changes its position and height drastically around 80°C in the brown holo-membrane as in the purple membrane. X-ray diffraction studies have been made on membranes of total lipids extracted from the purple membrane. No indication of the phase transition has been found between −81°C and 77°C.

On the three visual pigments in the retina of the firefly squid, Watasenia scintillans

SummaryThe deep-sea bioluminescent squid, Watasenia scintillans, has three visual pigments: The major one (A1 pigment) is based on retinal and has λmax = 484 nm, the second one (A2 pigment) is based on 3-dehydroretinal and has λmax = 500 nm, and the third one (A4 pigment) is based on 4-hydroxyretinal and has λmax = 470 nm. The distribution of these 3 visual pigments in the retina was studied by HPLC analysis of the retinals in retina slices obtained by microdissection. It was found that A1 pigment was not located in the specific region of the ventral retina receiving the down-welling light which contains very long photoreceptor cells, forming two strata. A2 and A4 pigment were found exclusively in the proximal pinkish stratum and in the distal yellowish stratum. The role of these pigments in the retina is hypothesized to involve spectral discrimination. The extraction and analysis of retinoids to determine the origin of 3-dehydroretinal and 4-hydroxyretinal in the mature squid showed only a trace amount of 4-hydroxyretinol in the eggs. Similar analysis of other cephalopods collected near Japan showed the absence of A2 or A4 pigment in their eyes.

4-Hydroxyretinal, a new visual pigment chromophore found in the bioluminescent squid, Watasenia scintillans

The bioluminescent squid, Watasenia scintillans has three visual pigments. The major pigment, based on retinal (lambda max 484 nm), is distributed over the whole retina. Another pigment based on 3-dehydroretinal (lambda max approximately 500 nm) and the third pigment (lambda max approximately 470 nm) are localized in the specific area of the ventral retina just receiving the downwelling light. Visual pigment was extracted and purified from the dissected retina. The chromophores were then extracted and analyzed with HPLC, NMR, infrared and mass spectroscopy, being compared with the synthetic 4-hydroxyretinal. A new retinal derivative, 11-cis-4-hydroxyretinal, is identified as the chromophore of the third visual pigment of the squid.

Volatile anesthetics cause conformational changes of bacteriorhodopsin in purple membrane

We examined the effects of volatile anesthetics on the structure of the bacteriorhodopsin in the purple membrane by measurements of the absorption spectrum and the visible circular dichroism (CD) spectrum and assay of the retinal composition. As the concentrations of halothane, enflurane and methoxyflurane were increased, the absorption at 560 nm decreased but that at 480 nm increased with an isosbestic point around 510 nm. These anesthetic-induced spectroscopic changes were reversible. The CD spectrum showed the biphasic pattern with a positive and a negative band. As the concentration of halothane was increased from 4 mM to 8mM, the negative band reversibly diminished more drastically than the positive band, and at 8 mM of halothane the positive band shifted to around 480 nm. These results show that halothane disturbed the exciton coupling among bacteriorhodopsin molecules. The retinal isomer composition was analyzed using high performance liquid chromatography. The ratio of 13-cis- to all-trans-retinal was 47:53, 34:66 and 19:81 at control, 7.4 mM and 14.9 mM enflurane, respectively. After elimination of enflurane, the ratio returned to the control value. These findings indicate that volatile anesthetic directly affect a bacteriorhodopsin in the purple membrane and induce conformational changes in it.

Formation of the two-dimensional hexagonal lattice of bacteriorhodopsin in reconstituted brown membrane

The aggregation state of reconstituted bacteriorhodopsin molecules in the brown membrane has been investigated by X-ray diffraction and CD spectra. It has been confirmed that reconstituted bacteriorhodopsin molecules form the hexagonal lattice spontaneously whereas bacterioopsin molecules do not.

On some physicochemical properties of sucrose esters and the stability they confer to membrane proteins

Abstract A homologous series of fatty acid monoesters of sucrose whose chain length varies from 8 to 22 carbon atoms has been examined with respect to some physicochemical properties. In this series, the critical micelle concentration is comparable to that of lysophospholipids having similar hydrophobic moiety. The behavior of a spin probe dispersed in micelles of sucrose esters and their surface pressure-area isotherms at the air/water interface indicate that, despite a relatively large hydrophilic head, they form increasingly compact structures as their chain length increases. Finally, when used as dispersing medium for the purified intrinsic protein rhodopsin, long-chain esters confer to the pigment a thermal stability which is close to that of its membrane-bound state. We conclude that these detergents may be among those best suited to purified intrinsic membrane protein studies.

Bacteriorhodopsin analog regenerated with 13-desmethyl-13-iodoretinal.

The retinal analog 13-desmethyl-13-iodoretinal (13-iodoretinal) was newly synthesized and incorporated into apomembranes to reconstitute bacteriorhodopsin analog 13-I-bR. The absorption maximum was 598 nm and 97% of the chromophore was an all-trans isomer in the dark- and light-adapted state. Upon flash illumination, 13-I-bR underwent a transient spectral change in which a shorter wavelength intermediate (lambda(max) = 426 nm) similar to the M species of the native bR developed. Also, 13-I-bR showed light-induced proton pumping with rates and extents comparable to those seen in the native bR. The ultraviolet circular dichroism (CD) spectrum originating from the aromatic groups was different from that of the native bR, indicating that the substituted bulky iodine atom strongly interacts with neighboring amino acids. A projection difference Fourier map showed the labeled iodine was in the vicinity of helix C. 13-I-bR is an advantageous specimen for kinetic investigations of light-induced structural changes associated with the proton pumping cycle by x-ray diffraction.

Retinal-protein interactions in bacteriorhodopsin monomers, dispersed in the detergent L-1690

Abstract Bacteriorhodopsin monomer dispersed in a solution of the detergent L-1690 could maintain the specific interaction between retinal and protein in the pH range 9.0-0.0 at 25°C. λmax of the absorbance spectrum was 550 nm at pH 9.0, 556 nm at pH 5.5, 609 nm at pH 2.1 and 570 nm at pH 0.0. Increasing the NaCl concentration in the solution promoted formation of the 609 nm product at pH 5.0-3.0 and also its transition to the 570 nm product at pH 2.5-1.0. Retinal isomer analysis gave a ratio of 13-cis- to all-trans-retinal of 53 : 47 at pH 5.5. When the pH of the solution was reduced, the relative content of all-trans-retinal increased and the ratio of 13-cis- to all-trans-retinal was 14 : 86 at pH 0.0. Illumination of the solution at pH 7.2 yielded a product containing 9-cis-retinal or 9-cis, 13-cis-retinal, which may be due to a reaction other than the photoreaction cycle.

Bacteriorhodopsin analogues regenerated with enantiomers of 5,6-epoxyretinal

Two enantiomers of 5,6-epoxyretinal, (5S, 6R) and (5R, 6S), were optically resolved using a chiral column. Each enantiomer showing the positive circular dichroism (CD) peak at 245 nm ((+)-epoxyretinal) and the negative at 245 nm ((+)-epoxyretinal) was respectively added to apomembranes to regenerate the pigments. The absorption maximum of bacteriorhodopsin analogue complexed with (+)-epoxyretinal was 485 nm and the molecular arrangement in the membrane was the hexagonal lattice as observed in the native purple membrane. Corresponding to the crystalline arrangement of the pigments, the coupling CD peaks, the positive at 460 nm and the negative at 520 nm, were observed. On the other hand, the absorption maximum of bacteriorhodopsin analogue regenerated by addition of (−)-epoxyretinal was at 445 nm and the arrangement of pigments was paracrystalline as observed in the apomembrane. Then, the positive CD peak at 435 nm was observed. The half-time of pigment regeneration was 400 s for (+)-epoxyretinal and 48 s for (−)-epoxyretinal addition at 10 °C. Both pigments were incorporated into lipid vesicles and the light-induced H+-pumping activity was compared. These bacteriorhodopsin analogues showed a proton-pumping activity with a rather low yield. When a racemic mixture of epoxyretinal was added to apomembranes, the chiral discrimination of chromophores was observed through the pigment formation. The optical purity of extracted chromophores for (+)-/(−)-epoxyretinal was approx. 73.