The genes of N. pharaonis SRII and the carboxy terminal truncated transducer (1-114) were cloned into a pET27bmod expression vector 24 with a C-terminal £ 7 His tag, respectively. Proteins were expressed in Escherichia coli strain BL21 (DE3), and purified as described 25,26. After removal of imidazol by diethyl-aminoethyl chromatography, SRII-His and HtrII 114-His were mixed in a 1:1 ratio, followed by reconstitution into purple membrane (the bacteriorhodopsin containing membrane patches of H. salinarum) lipids 7 (protein to lipid ratio 1:35). After filtration, the reconstituted proteins were pelleted by centrifugation at 100,000g. For resolubilization, the samples were resuspended in a buffer containing 2% n-octyl-b-D-glucopyranoside and shaken for 16 h at 4 8C in the dark. The resolubilized complex was isolated by centrifugation at 100,000g. Crystallization, structure determination and refinement We added the solubilized complex in crystallization buffer (150 mM NaCl, 25 mM Na/KPi, pH 5.1, 0.8% n-octyl-b-D-glucopyranoside) to the lipidic phase, formed from monovaccenin (Nu-Chek Prep). Precipitant was 1 M salt Na/KPi, pH 5.6. Crystals were grown at 22 8C. X-ray diffraction data were collected at beamline ID14-1 of the European Synchrotron Radiation Facility (ESRF), Grenoble, France, using a Quantum ADSC Q4R CCD (charge-coupled device) detector. Data were integrated using MOSFILM 27 and SCALA 28. Molecular replacement using MOLREP 28 to phase a polyalanine model (from Protein Data Bank accession number 1JGJ (ref. 12)) gave a unique solution (R ¼ 0.568, correlation coefficient C ¼ 0.357) at 2.9 A ˚. After inserting side chains for SRII, the helices of HtrII were found (R ¼ 0.329, C ¼ 0.711). Simulated annealing, positional refinement and temperature factor refinement were performed in CNS 29 ; model rebuilding was carried out in O 30 (Table 1).

The discovery of the light-gated ion channel channelrhodopsin (ChR) set the stage for the novel field of optogenetics, where cellular processes are controlled by light. However, the underlying molecular mechanism of light-induced cation permeation in ChR2 remains unknown. Here, we have traced the structural changes of ChR2 by time-resolved FTIR spectroscopy, complemented by functional electrophysiological measurements. We have resolved the vibrational changes associated with the open states of the channel (P 2 390 and P 3 520 ) and characterized several proton transfer events. Analysis of the amide I vibrations suggests a transient increase in hydration of transmembrane α-helices with a t 1/2 = 60 μs, which tallies with the onset of cation permeation. Aspartate 253 accepts the proton released by the Schiff base (t 1/2 = 10 μs), with the latter being reprotonated by aspartic acid 156 (t 1/2 = 2 ms). The internal proton acceptor and donor groups, corresponding to D212 and D115 in bacteriorhodopsin, are clearly different from other microbial rhodopsins, indicating that their spatial position in the protein was relocated during evolution. Previous conclusions on the involvement of glutamic acid 90 in channel opening are ruled out by demonstrating that E90 deprotonates exclusively in the nonconductive P 4 480 state. Our results merge into a mechanistic proposal that relates the observed proton transfer reactions and the protein conformational changes to the gating of the cation channel.O ptogenetics provides new tools to neurophysiologists to steer cellular responses with unprecedented temporal and spatial resolution. The former takes advantage of light as an ultrashort trigger, whereas the latter is achieved by genetically encoding and directing photosensitive proteins to specific cell types. The most prominent among the optogenetics tools is channelrhodopsin (ChR), which was found to be the first light-gated ion channel of its kind (1, 2). This discovery paved the way for an exponentially growing number of neurophysiological applications, ranging from single cells to living animals (3). Light-gated ion permeation by ChR expands the various modes of action of the large family of microbial rhodopsins already comprising light-driven ion pumps and sensors (4). Among the various ChRs, which differ mostly in cation selectivity (3), ChR2 is used in the majority of optogenetic applications because of the higher expression yield in mammalian cells.A projection structure of the heptahelical ChR2 showed a dimer with the contact interface between helices C and D suggested to form the cation channel (5). More recently, a chimeric ChR (C1C2) was constructed by linking the last two helices (F and G) of ChR2 to the first five (A to E) of ChR1 and resolved by X-ray crystallography to 2.3 Å (6). The high-resolution structure confirmed the dimeric arrangement and identified an electronegative extracellular pore in each monomer framed by helices A, B, C, and G. Accompanying electrophysiological experiments on point mutants indicated r...

The transport of protons across membranes is an important process in cellular bioenergetics. The light-driven proton pump bacteriorhodopsin is the best-characterized protein providing this function. Photon energy is absorbed by the chromophore retinal, covalently bound to Lys 216 via a protonated Schiff base. The light-induced all-trans to 13-cis isomerization of the retinal results in deprotonation of the Schiff base followed by alterations in protonatable groups within bacteriorhodopsin. The changed force field induces changes, even in the tertiary structure, which are necessary for proton pumping. The recent report of a high-resolution X-ray crystal structure for the late M intermediate of a mutant bacteriorhopsin (with Asp 96-->Asn) displays the structure of a proton pathway highly disturbed by the mutation. To observe an unperturbed proton pathway, we determined the structure of the late M intermediate of wild-type bacteriorhodopsin (2.25 A resolution). The cytoplasmic side of our M2 structure shows a water net that allows proton transfer from the proton donor group Asp 96 towards the Schiff base. An enlarged cavity system above Asp 96 is observed, which facilitates the de- and reprotonation of this group by fluctuating water molecules in the last part of the cycle.

U. maydis is a fungal pathogen of corn with two forms: one is yeast-like and nonpathogenic; the other is filamentous and pathogenic. The b locus, with 25 different alleles, regulates this dimorphism: any combination of two different alleles triggers pathogenic development, whereas the presence of identical alleles results in the yeast-like form. We have cloned four b alleles (b1, b2, b3, and b4) and show that the b locus contains a single open reading frame (ORF) of 410 amino acids with a variable N-terminal region and a highly conserved C-terminal region (60% and 93% identity, respectively). Mutational analysis confirms that this ORF is responsible for b activity. The b polypeptides appear to be DNA binding proteins because they contain a motif related to the homeodomain in their constant region. We propose that combinatorial interactions between b polypeptides generate regulatory proteins that determine the developmental program of the fungus.

Active proton transfer through membrane proteins is accomplished by shifts in the acidity of internal amino acids, prosthetic groups, and water molecules.