J. Mol. Biol. (1997) 265, 107–111 COMMUNICATION Two-dimensional Crystallization of the Light-harvesting I–Reaction Centre Photounit from Rhodospirillum rubrum Thomas Walz1 and Robin Ghosh2* 1 Maurice-Müller Institute for Microscopic Structural Biology, Biozentrum der Universität Basel Klingelbergstr. 70, CH-4056 Basel, Switzerland 2 Laboratory for Bioenergetics University of Geneva Chemin des Embrouchis 10 CH-1254 Jussy-Lullier/GE Switzerland A stoichiometric unit of the light-harvesting complex I and the reaction centre (LHI-RC complex) has been isolated from a carotenoid-less mutant of the purple non-sulphur bacterium Rhodospirillum rubrum by mild solubilization of photosynthetic membranes with the phospholipid detergent diheptylphosphatidylcholine. Dialysis of the isolated LHI-RC complexes in the presence of added dioleoyl-sn-phosphatidylcholine produced ordered two-dimensional crystals. Digital image processing revealed that the LHI-RC are packed together in a square lattice (a = b = 16.3 nm). The dimensions of the LHI ring are essentially identical with those determined from two-dimensional (2D) crystals of purified carotenoid-containing light-harvesting I complexes after analysis by cryo-electron microscopic techniques or from negatively stained 2D crystals of purified LHI complexes from a carotenoid-less mutant. Each LHI ring of the LHI-RC complex contains a central diffuse stain-excluding region, which is assigned to the reaction centre. The analysis of the LHI-RC 2D crystals strongly suggests that the geometry and subunit stoichiometry of the LHI ring is unaffected by the presence of a reaction centre that can probably assume various orientations within the ring. 7 1997 Academic Press Limited *Corresponding author Keywords: light-harvesting complex; 2D crystallization; reaction centre; Rhodospirillum rubrum; image processing, electron microscopy Light-induced cyclic electron transport is the central process for the utilization of light energy by purple sulphur and non-sulphur bacteria. In this process, light is captured by the reaction centre and used to reduce a membrane-embedded quinone molecule, which diffuses to the cytochrome bc1 complex to be oxidized. The capture of light is mediated exclusively by the reaction centre and its associated light-harvesting (LH) complexes, which together form the minimal photounit. In general, these minimal photounits are organized in large arrays in the photosynthetic membrane (Miller, Present addresses: T. Walz, Krebs Institute, Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield S10 2HU, U.K. R. Ghosh, Department of Bioenergetics, Biologisches Institut, Universität Stuttgart, D-70550 Stuttgart, Germany. Abbreviations used: 2D, two-dimensional; LH, light-harvesting; RC, reaction centre; DHPC, diheptyl-sn-phosphatidylcholine; DOPC, dioleoyl-sn-phosphatidylcholine. 0022–2836/97/020107–05 $25.00/0/mb960714 1982; Ueki et al., 1976). However, although the functional relationships between photounits and the cytochrome bc1 complex are well established, the molecular details of the supermolecular organization of the membrane are still controversial. Three classes of LH complexes are found, LHI (B875, B880), LHII (B800-850), and LHIII (B800-820: see Zuber, 1985). LHIII is a spectral variant of LHII. In all cases the complex consists of two non-identical polypeptides, a and b, approximately 50 amino acid residues in length. Functionally, kinetic studies have shown that light energy proceeds from LHII to LHI and from thence to the reaction centre (van Grondelle, 1985). Recently, the structure of the LHII complex from Rhodopseudomonas acidophila has been solved at atomic resolution of 0.28 nm by X-ray crystallography (McDermott et al., 1995). The crystal structure revealed that the LHII complex is comprised of nine ab heterodimers arranged in a ring. The nine helical b-apoproteins form an inner circle of radius 1.8 nm, while the nine a-apoprotein helices are located on an outer circle of radius 3.4 nm. The three bacteriochlorophyll molecules 7 1997 Academic Press Limited 108 per ab dimer are sandwiched between these two rings of membrane-spanning a-helices. A similar arrangement of polypeptides and pigments has been determined from the negative stain projection map at 1.8 nm of 2D crystals of the LHII complex from Rhodovulum sulfidophilum (Montoya et al., 1995; Savage et al., 1996). However, the LHII from Rhodospirillum molischianum is an octamer (Koepke et al., 1996). A high-resolution projection map of the LHI complex from Rhodospirillum rubrum, which contains only a single LHI complex, has been obtained at a resolution of 0.85 nm by cryo-electron microscopic techniques and shows a ring of 16 subunits arranged in a ring-like structure, with an overall diameter of 11.6 nm and an inner diameter of 6.8 nm (Karrasch et al., 1995). The 11.6 nm LHI particle analysed by cryo-electron microscopy has been suggested to be the fundamental building block of the photosynthetic membrane of R. rubrum (Ghosh et al., 1993). An important question is: how do the LHI complexes interact with the RC in purple bacterial photosynthetic membranes? For Rhodobacter sphaeroides, a number of kinetic studies have indicated that the LHI complexes probably form a ring around the RC (Aargard & Sistrom, 1972; Monger & Parson, 1977). However, although the 6.8 nm inner diameter observed from the 0.85 nm projection of the R. rubrum LHI complex (Karrasch et al., 1995) is sufficient to incorporate an RC molecule (Allen et al., 1987; Deisenhofer et al., 1985), the physical and stoichiometric association of the two components has been largely based upon electron microscopy and digital image processing of natural 2D crystals obtained from Rhodopseudomonas viridis (Miller, 1982; Stark et al., 1984) and Ectothiorhodospira halochloris (Engelhardt et al., 1986). However, both structures were obtained only at a relatively low resolution (approximately 2 nm). In addition, the high level of organization of photounits within these membranes is exceptional. Single-particle analyses of LHI-RC particles suggests that the reaction centre is located within a ring of LHI, although these data were obtained at an even lower resolution than above (Boonstra et al., 1994). Here, we have employed a new purification procedure (Kessi et al., 1996) to obtain highly purified LHI-RC complexes lacking other components, and have crystallized these complexes in two dimensions in the presence of the unsaturated dioleolyl-sn-phosphatidylcholine (DOPC). Briefly, the isolated chromatophore membranes obtained from the carotenoid-less mutant R. rubrum ST2 (Wiggli et al., 1996) were suspended in 10 mM sodium phosphate buffer (pH 7.5) containing 150 mM NaCl to A880 (1 cm) = 10 (calculated from a diluted sample), and then solubilized with the phospholipid detergent, diheptyl-sn-phosphatidylcholine (DHPC) to give a final concentration of 20 mM. After ultracentrifugation of the solubilisate at 100,000 g for one hour, the crude LHI-RC complexes were in the supernatant. The LHI-RC LHI-RC 2D Crystallization complexes were purified by DEAE-Sepharose chromatography as described (Kessi et al., 1996) and then used directly for 2D crystallization as described for the wild-type LHI complexes (Ghosh et al., 1993; Karrasch et al., 1995). At least 90% of the protein in the LHI-RC preparations comprised reaction centres and light-harvesting polypeptides when analysed by SDS-PAGE. Photobleaching experiments of the Qx band of the bacteriochlorophyll a comprising the ‘‘special pair’’ of the reaction centre showed that the DHPC-solubilized LHI-RC preparations retained high RC activity for weeks when stored at 6°C. Preparations containing 2D crystals were adsorbed to a carbon-coated collodion film that was mounted on a 400-mesh copper grid. The grid was washed twice with double-distilled water and stained over two drops of 0.75 % (w/v) uranyl formate (pH 4.2). Electron micrographs were taken on Kodak SO-163 film with a Hitachi H-7000 transmission electron microscope operated at 100 kV and a nominal magnification of 50,000×. The micrographs were screened with an optical diffractometer (Aebi et al., 1973) and suitable areas were digitized using an Eikonix 850 CCD imaging camera equipped with a Zeiss S planar objective lens. The pixel size corresponded to 00.64 nm in the specimen plane. Digital image processing was carried out as described previously (Walz et al., 1994) using the SEMPER image processing system for the calculation of correlation averages. Electron micrographs of reconstituted membranes revealed large arrays of well-ordered LHI-RC complexes packed within a square lattice (a = b = 16.3 (20.2) nm; n = 16: Figure 1A). The best 2D crystals were obtained at a DOPC/LHI ab molar ratio of 1.0. Calculated power spectra (see Figure 1A, inset) show sharp diffraction spots up to the reciprocal lattice order (5,1), suggesting that the crystals are well ordered. Figure 1C shows the optically filtered image from the area shown in Figure 1B. A contrast difference in the projection structures of neighbouring LHI-RC complexes is distinct. This is due to slightly different staining of the adjacent complexes, which originates from the opposite orientations of the complexes within the membrane. Upon closer inspection of the optically filtered image, the LHI ring contains a central body that may be assigned to the reaction centre. This stain-excluding domain has often an elongated shape and is located slightly off-centre in the LHI ring. However, upon correlation averaging of the crystalline areas (Figure 1D and E), the reaction centre is visualized as a diffuse, circular object in the centre of the LHI ring whose inner and outer radii are approximately 6 nm and 12 nm, respectively. The loss of fine structure and a defined shape is probably due to the averaging of many unit cells, which are defined by the regularly arranged LHI rings, but in which the reaction centres are oriented differently, as suggested by Stark et al. (1984). However, in the unsymmetrized correlation average, there are four faint stain-excluding domains LHI-RC 2D Crystallization Figure 1. A, An electron micrograph of negatively stained 2D arrays of the LHI-RC complex crystallized in the presence of DOPC (the scale bar represents 150 nm). The inset shows the power spectrum calculated from the marked area. Strong diffraction spots are visible up to the reciprocal lattice order (5,1), indicating a resolution of 3.2 nm (the scale bar represents (5 nm)−1 ). The raw data (B) are very noisy due to the low recording dose employed. However, after Fourier peak filtration (C) most of the noise is eliminated and the single LHI-RC complexes forming the 2D lattice become distinct (the scale bar represents 50 nm). The unsymmetrized correlation average in continuous (D) and contour (E) representations are shown, with stain-excluding mass regions appearing bright, and the surrounding stainfilled areas appearing dark. The square unit cell (a = b = 16.3 nm) is outlined, and is comprised of two LHI-RC complexes that are incorporated into the membrane in opposite orientations. While the LHI rings reveal some fine structure, the RCs appear as featureless round areas. The three ‘‘empty’’ LHI rings shown within the V-shaped bracket have been superimposed from a correlation average obtained from 2D crystals from the purified carotenoid-less LHI complex (unpublished results) in the presence of added DOPC, to illustrate the identical packing of the two types of crystals. that connect the RC to the LHI ring. This conclusion is supported by time-resolved phosphorescence anisotropy data of reaction centres in native chromatophore membranes, which showed the reaction centre to be immobilized on the millisecond time-scale (Mar et al., 1981). In addition, 109 LHI-RC complexes are extracted quantitatively by DHPC under optimal conditions and empty rings are rarely, if ever, observed. The latter implies a strong protein-protein interaction and not merely a protein-phospholipid interaction, as DHPC has been shown to be very efficient in extracting phospholipids and thus solubilizing proteins (Kessi et al., 1994). At present, we cannot definitively ascertain whether the RC has a single locus of interaction within the LHI ring or whether it can take up a variety of fixed orientations (radial disorder) within the ring. Further studies to answer this question are in progress. The packing of the LHI rings was identical with that observed for highly purified carotenoid-less LHI complexes crystallized in two dimensions in the presence of DOPC (see the V-shaped brackets in Figure 1D and E; and unpublished results). The latter 2D crystals show that despite the fact that LHI rings lacking carotenoid crystallize in a different lattice (square) from those preferentially formed from the wild-type containing carotenoid (tetragonal lattice; Karrasch et al., 1995), the dimensions of the rings are identical. The organization of the LHI complexes around the RC of purple photosynthetic bacteria is controversial at present. On the one hand, ultrastructural data from electron microscopy have indicated for membranes from R. viridis or E. thiorhodospira containing natural 2D crystals of LHI-RC complexes that a single RC is completely surrounded by a continuous ring of LHI complexes (Engelhardt et al., 1986; Miller, 1982). These data have been supported by negatively stained images of purified LHI-RC complexes from R. viridis (Jay et al., 1984), and R. molischianum (Boonstra et al., 1994). For the LHI-RC complex of R. molischianum, a single-particle analysis was performed, which also indicated a closed ring of LHI units around the RC (Boonstra et al., 1994). A difficulty of the single-particle analyses of these complexes so far is that the resolution of the images obtained is quite low (4 to 5 nm) necessitating symmetrization according to a preconceived model. Recently, a high-resolution 0.85 nm projection map of a highly purified LHI complex from R. rubrum assembled in 2D arrays has indicated that the LHI complex consists of a closed ring of 16 ab units containing sufficient space to accommodate the reaction centre. A criticism of this work has been that the LHI complexes were dissociated to ab dimers prior to crystallization and that the closed ring structure might be an artifact of the crystallization process. Here, however, we have isolated the LHI-RC complex using a mild phospholipid detergent that, under optimal solubilization conditions, does not cause dissociation of the LHI complex. This is indicated by the absence of the characteristic absorption maxima of the dissociated forms at 820 nm and 775 nm, the different elution behaviour on DEAE-Sepharose, and the different migration in sucrose gradients. Nevertheless, the resulting 2D crystals reveal that 110 the dimensions of the LHI rings are essentially identical in the presence or absence of reaction centres. We conclude, therefore, that in R. rubrum the RC is surrounded by the closed ring-like LHI structure with the same subunit composition as determined by Karrasch et al. (1995). The closed ring structure of the LHI complex around the RC is at variance with the well established dogma that electron transfer between the RC and the cytochrome bc1 complex is mediated by free diffusion of a membrane-bound quinone molecule between them. This apparent contradiction might be resolved by several possibilities. (1) The LHI structure might allow the close approach of quinone molecules from both sides of the ring structure to allow electron transfer between them. (2) ‘‘Breathing motions’’ of the a-helices might allow direct diffusion of the planar quinone molecules across the ring structure. (3) An additional gene product may be present that participates in the 16-fold symmetric ring structure of the LHI complex, thereby forming a ‘‘quinone channel’’. In the case of R. sphaeroides and Rhodobacter capsulatus, an additional protein PufX is coexpressed with the RC (Bauer et al., 1988; Farchaus & Oesterhelt, 1989; Lee et al., 1989) and recent evidence suggests that PufX may be involved in the supramolecular organization of the LHI-RC complexes, perhaps by interrupting the ring of LHI subunits and thus providing a channel to the cytochrome bc1 complex (Barz et al., 1995a,b). For R. sphaeroides, kinetic evidence indicates that two RCs may form a supercomplex with the cytochrome bc1 complex (Joliot et al., 1990), although this has been disputed (FernàndezVelasco & Crofts, 1991). Yet, the characteristics of a supercomplex could not be found for R. rubrum, and no gene (or gene product) homologous to pufX has been found in this organism (Bélanger et al., 1988; unpublished results). However, one candidate for this function is the V-polypeptide, a small 4 kDa hydrophobic polypeptide that copurifies with the LHI ab dimer in a stoichiometry of about 1 to 10 (Ghosh et al., 1994). As neither the amino acid sequence nor the corresponding gene have yet been determined, it is still not known whether the V-polypeptide functionally interacts with the LHI complex. The introduction of a local asymmetry by an additional protein component, to yield a pseudo16-fold symmetric LHI ring is an attractive possibility, as it may help to explain the still unresolved question of how excitons are persuaded to leave the LHI complex and be transferred to either its unoccupied RC or to an adjacent LHI ring for long-range energy transfer. Unfortunately, this possibility must remain speculative, as the resolution of 0.85 nm obtained by Karrasch et al. (1995) is not sufficient to differentiate between a real or pseudo-16-fold symmetry. In summary, the ultrastructural data presented here suggest that: (1) the packing of the LHI-RC complexes is determined exclusively by interaction LHI-RC 2D Crystallization between neighbouring LHI rings; (2) a single reaction centre is surrounded by a single LHI ring; (3) the dimensions of the LHI ring in the LHI-RC complex are identical with those obtained from the high-resolution projection map of purified LHI complexes crystallized in the presence of DOPC; (4) no indication of a ‘‘quinone channel’’ in the LHI ring can be detected at the present resolution. Acknowledgements We thank Professors A. Engel, J. P. Rosenbusch and R. J. Strasser for encouragement and support, and Marlis Zoller for the photographic work. R.G. also acknowledges the Swiss Priority Program for Biotechnology (grant nos 5002-41801 and 5002-39816) for generous financial support. T.W. acknowledges the Swiss National Science Foundation for the receipt of a post-doctoral fellowship. 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