Bacteriorhodopsins
Jervell-Lange Nielsen Syndrome
Ellis-Van Creveld Syndrome
Biotechnology
Body of knowledge related to the use of organisms, cells or cell-derived constituents for the purpose of developing products which are technically, scientifically and clinically useful. Alteration of biologic function at the molecular level (i.e., GENETIC ENGINEERING) is a central focus; laboratory methods used include TRANSFECTION and CLONING technologies, sequence and structure analysis algorithms, computer databases, and gene and protein structure function analysis and prediction.
Location of a cation-binding site in the loop between helices F and G of bacteriorhodopsin as studied by 13C NMR. (1/1144)
The high-affinity cation-binding sites of bacteriorhodopsin (bR) were examined by solid-state 13C NMR of samples labeled with [3-13C]Ala and [1-13C]Val. We found that the 13C NMR spectra of two kinds of blue membranes, deionized (pH 4) and acid blue at pH 1.2, were very similar and different from that of the native purple membrane. This suggested that when the surface pH is lowered, either by removal of cations or by lowering the bulk pH, substantial change is induced in the secondary structure of the protein. Partial replacement of the bound cations with Na+, Ca2+, or Mn2+ produced additional spectral changes in the 13C NMR spectra. The following conclusions were made. First, there are high-affinity cation-binding sites in both the extracellular and the cytoplasmic regions, presumably near the surface, and one of the preferred cation-binding sites is located at the loop between the helix F and G (F-G loop) near Ala196, consistent with the 3D structure of bR from x-ray diffraction and cryoelectron microscopy. Second, the bound cations undergo rather rapid exchange (with a lifetime shorter than 3 ms) among various types of cation-binding sites. As expected from the location of one of the binding sites, cation binding induced conformational alteration of the F-G interhelical loop. (+info)Distortion of the L-->M transition in the photocycle of the bacteriorhodopsin mutant D96N: a time-resolved step-scan FTIR investigation. (2/1144)
The D96N mutant of bacteriorhodopsin has often been taken as a model system to study the M intermediate of the wild type photocycle due to the long life time of the corresponding intermediate of the mutant. Using time-resolved step-scan FTIR spectroscopy in combination with a sample changing wheel we investigated the photocycle of the mutant with microsecond time resolution. Already after several microseconds an intermediate similar to the MN state is observed, which contrasts with the M state of the wild type protein. At reduced hydration M and N intermediates similar to those of wild type BR can be detected. These results have a bearing on the interpretation of the photocycle of this mutant. A mechanism is suggested for the fast rise of MN which provides some insight into the molecular events involved in triggering the opening of the cytosolic channel also of the wild type protein. (+info)Molecular modeling of mu opioid receptor and receptor-ligand interaction. (3/1144)
AIM: To construct the 3D structural model of mu opioid receptor (mu OR) and study the interaction between mu OR and fentanyl derivatives. METHODS: The 3D structure of mu OR was modeled using the bacteriorhodopsin (bRh) as a template, in which the alignments of transmembrane (TM) of bRh and mu OR were achieved by scoring the alignment between the amino acid sequence of mu OR and the structure of bRh. The fentanyl derivatives were docked into the 7 helices of mu OR and the binding energies were calculated. RESULTS: (1) The receptor-ligand interaction models were obtained for fentanyl derivatives. (2) In these models, the fundamental binding sites were possibly Asp147 and His297. The negatively charged oxygen of Asp147 and the positively charged ammonium group of ligand formed the potent electrostatic and hydrogen-binding interactions. Whereas the interactions between the positively charged nitrogen of His297 and the carbonyl oxygen of ligand were weak. In addition, there were some pi-pi interactions between the receptor and the ligand. (3) The binding energies of the receptor-ligand complexes had a good correlation with the analgesic activities (-lg ED50) of the fentanyl derivatives. CONCLUSION: This model is helpful for understanding the receptor-ligand interaction and for designing novel mu OR selective ligands. (+info)Molecular modeling of interaction between delta opioid receptor and 3-methylfentanylisothiocyanate. (4/1144)
AIM: To construct a 3D structural model of delta opioid receptor (delta OR) and study its interaction with 3-methylfentanylisothiocyanate (SuperFIT). METHODS: Using the bacteriohodopsin as a template, the 3D structure of delta OR was modeled; SuperFIT was docked into its inside. RESULTS: The interaction model between delta OR and (3R, 4S)-SuperFIT was achieved, in which the important binding sites possibly were Asp128, Ser106, Phe104, Tyr308, and Pro315. Asp128 formed the electrostatic and hydrogen-binding interactions with the protonated nitrogen on piperidine of the ligand. Ser106 formed the electrostatic interaction with the N atom of isothiocyano group of the ligand; whereas Phe104, Tyr308, and Pro315 formed the hydrophobic interactions with the S atom of isothiocyano group. In addition, there were some other interactions between delta OR and the ligand. CONCLUSION: The residues Phe104, Tyr308, Pro315, and Ser106 of delta OR are crucial to the delta selectivity of the ligand, which is beneficial for designing novel delta-selective ligand. (+info)Interpretation of the spatial charge displacements in bacteriorhodopsin in terms of structural changes during the photocycle. (5/1144)
We have recently introduced a method, made possible by an improved orienting technique using a combination of electric and magnetic fields, that allows the three-dimensional detection of the intramolecular charge displacements during the photocycle of bacteriorhodopsin. This method generates electric asymmetry, a prerequisite for the detection of electric signal on the macroscopic sample, in all three spatial dimensions. Purple membrane fragments containing bacteriorhodopsin were oriented so that their permanent electric dipole moment vectors were perpendicular to the membrane plane and pointed in the same direction. The resulting cylindrical symmetry was broken by photoselection, i. e., by flash excitation with low intensity linearly polarized light. From the measured electric signals, the three-dimensional motion of the electric charge center in the bacteriorhodopsin molecules was calculated for the first 400 microseconds. Simultaneous absorption kinetic recording provided the time-dependent concentrations of the intermediates. Combining the two sets of data, we determined the discrete dipole moments of intermediates up to M. When compared with the results of current molecular dynamics calculations, the data provided a decisive experimental test for selecting the optimal theoretical model for the proton transport and should eventually lead to a full description of the mechanism of the bacteriorhodopsin proton pump. (+info)Simulation analysis of the retinal conformational equilibrium in dark-adapted bacteriorhodopsin. (6/1144)
In dark-adapted bacteriorhodopsin (bR) the retinal moiety populates two conformers: all-trans and (13,15)cis. Here we examine factors influencing the thermodynamic equilibrium and conformational transition between the two forms, using molecular mechanics and dynamics calculations. Adiabatic potential energy mapping indicates that whereas the twofold intrinsic torsional potentials of the C13==C14 and C15==N16 double bonds favor a sequential torsional pathway, the protein environment favors a concerted, bicycle-pedal mechanism. Which of these two pathways will actually occur in bR depends on the as yet unknown relative weight of the intrinsic and environmental effects. The free energy difference between the conformers was computed for wild-type and modified bR, using molecular dynamics simulation. In the wild-type protein the free energy of the (13,15)cis retinal form is calculated to be 1.1 kcal/mol lower than the all-trans retinal form, a value within approximately kBT of experiment. In contrast, in isolated retinal the free energy of the all-trans state is calculated to be 2.1 kcal/mol lower than (13,15)cis. The free energy differences are similar to the adiabatic potential energy differences in the various systems examined, consistent with an essentially enthalpic origin. The stabilization of the (13,15)cis form in bR relative to the isolated retinal molecule is found to originate from improved protein-protein interactions. Removing internal water molecules near the Schiff base strongly stabilizes the (13,15)cis form, whereas a double mutation that removes negative charges in the retinal pocket (Asp85 to Ala; Asp212 to Ala) has the opposite effect. (+info)Chloride ion binding to bacteriorhodopsin at low pH: an infrared spectroscopic study. (7/1144)
Bacteriorhodopsin (bR) and halorhodopsin (hR) are light-induced ion pumps in the cell membrane of Halobacterium salinarium. Under normal conditions bR is an outward proton transporter, whereas hR is an inward Cl- transporter. There is strong evidence that at very low pH and in the presence of Cl-, bR transports Cl- ions into the cell, similarly to hR. The chloride pumping activity of bR is connected to the so-called acid purple state. To account for the observed effects in bR a tentative complex counterion was suggested for the protonated Schiff base of the retinal chromophore. It would consist of three charged residues: Asp-85, Asp-212, and Arg-82. This quadruplet (including the Schiff base) would also serve as a Cl- binding site at low pH. We used Fourier transform infrared difference spectroscopy to study the structural changes during the transitions between the normal, acid blue, and acid purple states. Asp-85 and Asp-212 were shown to participate in the transitions. During the normal-to-acid blue transition, Asp-85 protonates. When the pH is further lowered in the presence of Cl-, Cl- binds and Asp-212 also protonates. The binding of Cl- and the protonation of Asp-212 occur simultaneously, but take place only when Asp-85 is already protonated. It is suggested that HCl is taken up in undissociated form in exchange for a neutral water molecule. (+info)Time-resolved absorption and photothermal measurements with sensory rhodopsin I from Halobacterium salinarum. (8/1144)
An expansion accompanying the formation of the first intermediate in the photocycle of transducer-free sensory rhodopsin I (SRI) was determined by means of time-resolved laser-induced optoacoustic spectroscopy. For the native protein (SRI-WT), the absolute value of the expansion is approximately 5.5 mL and for the mutant SRI-D76N, approximately 1.5 mL per mol of phototransformed species (in 0.5 M NaCl), calculated by using the formation quantum yield for the first intermediate (S610) of Phi610 = 0.4 +/- 0.05 for SRI-WT and 0.5 +/- 0.05 for SRI-D76N, measured by laser-induced optoacoustic spectroscopy and by laser flash photolysis. The similarity in Phi610 and in the determined value of the energy level of S610, E610 = (142 +/- 12) kJ/mol for SRI-WT and SRI-D76N indicates that Asp76 is not directly involved in the first step of the phototransformation. The increase with pH of the magnitude of the structural volume change for the formation of S610 in SRI-WT and in SRI-D76N upon excitation with 580 nm indicates also that amino acids other than Asp76, and other than those related to the Schiff base, are involved in the process. The difference in structural volume changes as well as differences in the activation parameters for the S610 decay should be attributed to differences in the rigidity of the cavity surrounding the chromophore. Except for the decay of the first intermediate, which is faster than in the SRI-transducer complex, the rate constants of the photocycle for transducer-free SRI in detergent suspension are strongly retarded with respect to wild-type membranes (this comparison should be done with great care because the preparation of both samples is very different). (+info)Effect of Asp85 replacement by Thr on the conformation, surface electric properties and stability of bacteriorhodopsin<...
Early picosecond events in the photo cycle of Bacteriorhodopsin
Femtosecond Infrared Spectroscopy of Bacteriorhodopsin Chromophore Isomerization | Science
SFB Publication in Communications Biology • Sonderforschungsbereich 1078
Chapter 7: Molecular Computation
Structure of bacteriorhodopsin at 1.55 A resolution
Molecular Mechanism of Long-range Proton Translocation by Bacteriorhodopsin
RCSB PDB
- 1DZE: Structure of the M Intermediate of Bacteriorhodopsin trapped at 100K Macromolecule Annotations Page
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Crystal structure of Escherichia coli-expressed Haloarcula marismortui bacteriorhodopsin I in the trimeric form.
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Specific arginine and threonine residues control anion binding and transport in the light‐driven chloride pump halorhodopsin |...
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Bacteriorhodopsin
... is a protein used by Archaea, most notably by haloarchaea, a class of the Euryarchaeota. It acts as a proton ... Bacteriorhodopsin is a light-driven proton pump. It is the retinal molecule that changes its isomerization state from all-trans ... Both rhodopsin and bacteriorhodopsin belong to the 7TM receptor family of proteins, but rhodopsin is a G protein-coupled ... Bacteriorhodopsin has a broad excitation spectrum. For a detection wavelength between 700 and 800 nm, it has an appreciable ...
Archaea
Lanyi JK (2004). "Bacteriorhodopsin". Annual Review of Physiology. 66: 665-88. doi:10.1146/annurev.physiol.66.032102.150049. ... In the Halobacteria, light-activated ion pumps like bacteriorhodopsin and halorhodopsin generate ion gradients by pumping ions ... "Molecular mechanism of vectorial proton translocation by bacteriorhodopsin". Nature. 406 (6796): 653-57. Bibcode:2000Natur.406 ...
Proton pump
Bacteriorhodopsin is a light-driven proton pump used by Archaea, most notably in Haloarchaea. Light is absorbed by a retinal ... The energy required for the proton pumping reaction may come from light (light energy; bacteriorhodopsins), electron transfer ( ...
Model lipid bilayer
"Unfolding pathways of individual bacteriorhodopsins". Science. 288 (5463): 143-6. Bibcode:2000Sci...288..143O. doi:10.1126/ ...
Lysosomal cystine transporter family
Alignment of bacteriorhodopsins with the yeast sequence YRO2". Pharm. Res. 14 (11): 1533-41. doi:10.1023/a:1012166015402. PMID ...
Retinal
All-trans-retinal is also an essential component of microbial opsins such as bacteriorhodopsin, channelrhodopsin, and ... Waschuk, Stephen A.; Bezerra, Arandi G.; Shi, Lichi; Brown, Leonid S. (2005). "Leptosphaeria rhodopsin: Bacteriorhodopsin-like ... Ovchinnikov, Yu.A. (8 November 1982). "Rhodopsin and bacteriorhodopsin: structure-function relationships". FEBS Letters. 148 (2 ... "All-trans to 13-cis retinal isomerization in light-adapted bacteriorhodopsin at acidic pH". Journal of Photochemistry and ...
Rhodopsin
See also bacteriorhodopsin, used in some halobacteria as a light-driven proton pump. Humphries P, Kenna P, Farrar GJ (May 1992 ... Ovchinnikov, Yu.A. (November 1982). "Rhodopsin and bacteriorhodopsin: structure-function relationships". FEBS Letters. 148 (2 ... "Characterization of the primary photochemical events in bacteriorhodopsin and rhodopsin". In Lee AG (ed.). Rhodopsin and G- ...
Har Gobind Khorana
After the middle of the 1970s, his lab studied the biochemistry of bacteriorhodopsin, a membrane protein that converts light ... Wildenauer, D.; Khorana, H. G. (1977). "The preparation of lipid-depleted bacteriorhodopsin". Biochimica et Biophysica Acta ( ...
Opsin
Among the many kinds of microbial opsins are the proton pumps bacteriorhodopsin (BR) and xanthorhodopsin (xR), the chloride ... Waschuk SA, Bezerra AG, Shi L, Brown LS (May 2005). "Leptosphaeria rhodopsin: bacteriorhodopsin-like proton pump from a ... doi:10.1016/S1043-9471(05)80049-7. Ovchinnikov, Yu.A. (November 1982). "Rhodopsin and bacteriorhodopsin: structure-function ... and bacteriorhodopsin, are used by various bacterial groups to harvest energy from light to carry out metabolic processes using ...
Coherent control
Prokhorenko, V. I. (2006-09-01). "Coherent Control of Retinal Isomerization in Bacteriorhodopsin". Science. 313 (5791): 1257- ...
Dieter Oesterhelt
After returned to Germany, Oesterhelt showed that physiological function of bacteriorhodopsin is to pump protons out of the ... This protein was isolated and called bacteriorhodopsin. ...
Microbial rhodopsin
... known today as bacteriorhodopsin. The first bacteriorhodopsin turned out to be of archaeal origin, from Halobacterium salinarum ... Bacteriorhodopsin also lacks the omega loop structure that has been observed at the N-terminus of the structures of several ... Bacteriorhodopsin pumps one Cl− ion, from the extracellular medium into the cytosol, per photon absorbed. Although the ions ... They differ from bacteriorhodopsin in that the claret membrane, in which they are expressed, includes bacterioruberin, a second ...
Proteorhodopsin
... by a mechanism similar to that of bacteriorhodopsin. As in bacteriorhodopsin, the retinal chromophore of proteorhodopsin is ... Bacteriorhodopsin was discovered in 1971 and named in 1973 and is currently only known to exist in the archea domain, not ... Bacteriorhodopsin and Halorhodopsin both only exist in the Archea domain whereas proteorhodopsin spans bacteria, archea, and ... In comparison with its better-known archaeal homolog bacteriorhodopsin, most of the active site residues of known importance to ...
R. J. Dwayne Miller
"Coherent Control of Retinal Isomerization in Bacteriorhodopsin". Science. 313 (5791): 1257-1261. Bibcode:2006Sci...313.1257P. ...
Pyroglutamic acid
Pyroglutamate is found in many proteins including bacteriorhodopsin. N-terminal glutamic acid and glutamine residues can ...
Site-directed spin labeling
2. Spin labeling of bacteriorhodopsin mutants at unique cysteines". Biochemistry. 28 (19): 7806-7812. doi:10.1021/bi00445a042. ... Spin Labeling of Bacteriorhodopsin Mutants". Science. 248 (4959): 1088-192. Bibcode:1990Sci...248.1088A. doi:10.1126/science. ...
Halobacteriaceae
Large blooms appear reddish, from the pigment bacteriorhodopsin. This pigment is used to absorb light, which provides energy to ...
Halobacteriales
Large blooms appear reddish, from the pigment bacteriorhodopsin. This pigment is used to absorb light, which provides energy to ...
Spizellomyces punctatus
Waschuk SA, Bezerra AG, Shi L, Brown LS (May 2005). "Leptosphaeria rhodopsin: bacteriorhodopsin-like proton pump from a ...
Photoacoustic effect
Another case for this mechanism is Bacteriorhodopsin proton pump. Here the light induced change in the molecular volume is ... "Photoinduced volume changes associated with the early transformations of bacteriorhodopsin: A laser-induced optoacoustic ...
Phototaxis
Some examples are bacteriorhodopsin and bacteriophytochromes in some bacteria. See also: phytochrome and phototropism. Most ...
Bis-tris propane
Tóth-Boconádi R, Dér A, Keszthelyi L (June 2000). "Buffer effects on electric signals of light-excited bacteriorhodopsin". ...
Electrochemical gradient
The way bacteriorhodopsin generates a proton gradient in Archaea is through a proton pump. The proton pump relies on proton ... Finally, bacteriorhodopsin returns to its resting state when Asp85 releases its proton to Glu204. PSII also relies on light to ... In bacteriorhodopsin, the proton pump is activated by absorption of photons of 568 nm wavelength which leads to isomerization ... This section will focus on three processes that help establish proton gradients in their respective cells: bacteriorhodopsin ...
Baruch Fischer
He also worked on wave mixing in Bacterio-Rhodopsin, fiber-optics and fiber-optic communications, pulse optics, a new tunable ... "Strong self-defocusing effect and four-wave mixing in bacteriorhodopsin films". Optics Letters. 17 (4): 241-243. Bibcode: ... and phase conjugation with bacteriorhodopsin". Optics Letters. 15 (20): 1117-1119. Bibcode:1990OptL...15.1117W. doi:10.1364/OL. ...
Laura Eisenstein
Váró, G.; Eisenstein, L. (1987). "Infrared studies of water induced conformational changes in bacteriorhodopsin". European ... bacteriorhodopsin and rhodopsin. This effort would engage and foster collaborations with scientists including Tom Ebrey, Koiji ...
Bacterial motility
Some examples are bacteriorhodopsin and bacteriophytochromes in some bacteria. See also: phytochrome and phototropism. Most ... At least some aspects of this response are likely mediated by changes in membrane potential by bacteriorhodopsin, a light- ... "Delta psi-mediated signalling in the bacteriorhodopsin-dependent photoresponse". Journal of Bacteriology. 178 (11): 3008-3014. ...
George W. Rayfield
Herrmann, T. R.; Rayfield, G. W. (1978-02-01). "The electrical response to light of bacteriorhodopsin in planar membranes". ... Simmeth, R.; Rayfield, G. W. (1990-05-01). "Evidence that the photoelectric response of bacteriorhodopsin occurs in less than 5 ... for extensive studies on the optical and electrical properties of bacteriorhodopsin, and ensuing device applications." "George ...
Adaptation (eye)
Stuart JA, Brige RR (1996). "Characterization of the primary photochemical events in bacteriorhodopsin and rhodopsin". In Lee ...
Halobacterium
Their photosynthetic pigment, bacteriorhodopsin, is actually opaque to the longer-wavelength ultraviolet (its red color). In ... Bacteriorhodopsins isolated from Halobacterium salinarum have been especially studied for their applications in electronics and ... Particularly, bacteriorhodopsins have been used in holographic storage, optical switching, motion detection, and nanotechnology ... Halobacterium can be identified in bodies of water by the light-detecting pigment bacteriorhodopsin, which not only provides ...
Shiladitya DasSarma
"A transposable element from Halobacterium halobium which inactivates the bacteriorhodopsin gene". Proceedings of the National ...
RCSB PDB - 6GA1: Bacteriorhodopsin, dark state, cell 1
Bacteriorhodopsin. A. 249. Halobacterium salinarum NRC-1. Mutation(s): 0 Gene Names: bop, VNG_1467G. Membrane Entity: Yes ... Bacteriorhodopsin (bR) is a light-driven proton pump. The primary photochemical event upon light absorption is isomerization of ... Bacteriorhodopsin (bR) is a light-driven proton pump. The primary photochemical event upon light absorption is isomerization of ... Three-dimensional view of ultrafast dynamics in photoexcited bacteriorhodopsin.. Nass Kovacs, G., Colletier, J.P., Grunbein, M. ...
PRIMARY INTERMEDIATES IN THE PHOTOCHEMICAL CYCLE OF BACTERIORHODOPSIN. - Nokia Bell Labs
Pages that link to "Template:Bacteriorhodopsin/Metadata" - Citizendium
High-yield production of bacteriorhodopsin via expression of a synthetic gene in Escherichia coli
Structure-function studies on bacteriorhodopsin. III. Total synthesis of a gene for bacterio-opsin and its expression in ... Structure-function studies on bacteriorhodopsin. Total synthesis of a gene for bacterio-opsin and its expression in Escherichia ... Structure-function studies on bacteriorhodopsin. I. Expression of the bacterio-opsin gene in Escherichia coli. Journal of ... Structure-function studies on bacteriorhodopsin. II. Improved expression of the bacterio-opsin gene in Escherichia coli. ...
Bacteriorhodopsin mutants D85N, D85T and D85,96N as proton pumps :: MPG.PuRe
Immobilization of bacteriorhodopsin on synthetic membrane
An all-optical time-delay relay based on a bacteriorhodopsin film<...
An all-optical time-delay relay based on a bacteriorhodopsin film. Gui Ying Chen, Xu Xu Xu, Chun Ping Zhang, Shen Wen Qi, Qi ... Chen, GY, Xu, XX, Zhang, CP, Qi, SW & Song, QW 2008, An all-optical time-delay relay based on a bacteriorhodopsin film, ... An all-optical time-delay relay based on a bacteriorhodopsin film. / Chen, Gui Ying; Xu, Xu Xu; Zhang, Chun Ping et al. ... An all-optical time-delay relay based on a bacteriorhodopsin film. In: Chinese Physics B. 2008 ; Vol. 17, No. 11. pp. 4218-4225 ...
Direct and label-free determination of human glycated hemoglobin levels using bacteriorhodopsin as the biosensor transducer -...
Pages that link to "Bacteriorhodopsin/Definition" - Citizendium
Reversible photobleaching of bacteriorhodopsin molecules exposed to 570 mn laser light [email protected]
Ultrafast spectroscopy of heme protein and bacteriorhodopsin - National Yang Ming Chiao Tung University Academic Hub
DeCS 2016 - June 12, 2016 version
PDB 3HAO | Chain CRYSTAL STRUCTURE OF BACTERIORHODOPSIN MUTANT L94A CRYSTALLIZED FROM BICELLES | 3HAO A | 3D Structure | canSARS
The site of attachment of retinal in bacteriorhodopsin. The epsilon-amino group in Lys-41 is not required for proton...
... of bacteriorhodopsin have been shown previously to reassociate so as to regenerate the native bacteriorhodopsin chromophore in ... The site of attachment of retinal in bacteriorhodopsin. The epsilon-amino group in Lys-41 is not required for proton ... The site of attachment of retinal in bacteriorhodopsin. The epsilon-amino group in Lys-41 is not required for proton ... C-2 fragments were identical in their ability to reassociate with fragment C-1 and retinal to regenerate the bacteriorhodopsin ...
Femtosecond-to-millisecond structural changes in a light-driven sodium pump | Nature
Bacteriorhodopsin: structural insights revealed using X-ray lasers and synchrotron radiation. Annu. Rev. Biochem. 88, 59-83 ( ... Retinal isomerization in bacteriorhodopsin captured by a femtosecond X-ray laser. Science 361, eaat0094 (2018). ... Three-dimensional view of ultrafast dynamics in photoexcited bacteriorhodopsin. Nat. Commun. 10, 3177 (2019). ... Proton uptake mechanism in bacteriorhodopsin captured by serial synchrotron crystallography. Science 365, 61-65 (2019). ...
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Injector-based room-temperature serial crystallography of a membrane protein using synchrotron radiation
The bacteriorhodopsin microcrystals with sizes ranging from 5 to 40 µm traversed the beam at a speed of around 100 µm/s while ... Starting from 13000 hits (~ 1% hit rate) containing bacteriorhodopsin diffraction patterns, about 5700 frames could be indexed ... Crystals of the membrane protein bacteriorhodopsin, grown in lipidic cubic phase (LCP) to be delivered by a LCP-injector [1], ... diffraction pattern of bacteriorhodopsin with visible diffraction spots at up to 2.2 Å resolution. ...
Channelrhodopsins of Volvox carteri are photochromic proteins that are specifically expressed in somatic cells under control of...
Structure of bacteriorhodopsin at 1.55 A resolution.. Luecke H, Schobert B, Richter HT, Cartailler JP, Lanyi JK., J. Mol. Biol. ... A pharaonis phoborhodopsin mutant with the same retinal binding site residues as in bacteriorhodopsin.. Shimono K, Furutani Y, ... Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy.. Henderson R, Baldwin JM, Ceska ... Two possible roles of bacteriorhodopsin; a comparative study of strains of Halobacterium halobium differing in pigmentation.. ...
Three-dimensional electron crystallography of protein microcrystals | eLife
1990) Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy J Mol Biol 213:899-929. ... 1996) Electron-crystallographic refinement of the structure of bacteriorhodopsin J Mol Biol 259:393-421. ... 1997) Surface of bacteriorhodopsin revealed by high-resolution electron crystallography Nature 389:206-211. ...
SpectroscopyProton pumpMutantsMembraneRetinalProteinFunctionalLightPurpleDynamicLaserStructureRhodopsinPhotocycleProteinsMembrane proteinChromophoreDynamicsKineticsPhotosynthesisVectorial proton translocationCytochrome oxidaseFourierSpectraPhospholipidProton releaseMutantPigmentsSimilarityRhodopsinsMoleculesLight-drivenStudiesCrystalsHigh-resolutionStructuresStructureWaterModelTransportEnergySingleSwitch
Spectroscopy2
- Structural and orientational constraints of bacteriorhodopsin in purple membranes determined by oriented-sample solid-state NMR spectroscopy. (ox.ac.uk)
- Le Coutre holds a Ph.D. in Biophysics for studying the reaction mechanism of the light-driven proton pump bacteriorhodopsin using time resolved Fourier Transform Infrared (FTIR) spectroscopy at the Max-Planck-Institute for Nutritional Physiology. (allamericanspeakers.com)
Proton pump2
Mutants1
- By replacing the corresponding residue to the primary proton acceptor in bacteriorhodopsin, fast-cycling ChR2 mutants (Cheta) have been created [16]. (hu-berlin.de)
Membrane3
- Crystals of the membrane protein bacteriorhodopsin, grown in lipidic cubic phase (LCP) to be delivered by a LCP-injector [1] , were chosen as a test case for realistic applications. (esrf.fr)
- The membrane develops under anaerobic conditions and is made almost entirely of the purple pigment BACTERIORHODOPSINS. (umassmed.edu)
- Studying the dynamics of individual protein binding behavior, motor proteins and membrane trafficking in real-time, or visualizing the disruption of cellular junctions following antibody binding or structural changes as they occur in the native membrane protein bacteriorhodopsin is now possible with intuitive, easy-to-use techniques. (bruker.com)
Retinal2
- The site of attachment of retinal in bacteriorhodopsin. (ias.ac.in)
- The methylated and unmethylated C-2 fragments were identical in their ability to reassociate with fragment C-1 and retinal to regenerate the bacteriorhodopsin chromophore and to form functional proton-translocating vesicles. (ias.ac.in)
Protein1
- Some of these concepts will be illustrated using the oxidative labeling of bacteriorhodopsin as an example, but numerous other labeling agents and protein systems are being highlighted as well. (uwo.ca)
Functional2
- This material could be used for reconstitution of fully functional bacteriorhodopsin. (eurekamag.com)
- Chymotryptic fragments C-1 (amino acids 72-248) and C-2 (amino acids 1-71) of bacteriorhodopsin have been shown previously to reassociate so as to regenerate the native bacteriorhodopsin chromophore in lipid/detergent mixtures and to form functional proton-translocating vesicles. (ias.ac.in)
Light3
- Light-sensitive bacteriorhodopsin is combined with electronics to make the world's first bio-phototransceiver. (optics.org)
- Bacteriorhodopsins function as an energy transducers, converting light energy into electrochemical energy via PROTON PUMPS . (bvsalud.org)
- Reaction coupling, acceptor pK, and diffusion control in light induced proton release of bacteriorhodopsin. (mpg.de)
Purple1
- Functionally relevant coupled dynamic profile of bacteriorhodopsin and lipids in purple membranes. (ox.ac.uk)
Dynamic1
- Using a special property of dynamic complementary-suppression-modulated transmission (DCSMT) in the bacteriorhodopsin (bR) film, we have demonstrated an all-optical time-delay relay. (syr.edu)
Laser1
- The phenomenon of reversible photobleaching in bacteriorhodopsin (BR) molecules exposed to 570 nm laser is presented. (iisc.ac.in)
Structure1
- Starting from 13000 hits (~ 1% hit rate) containing bacteriorhodopsin diffraction patterns, about 5700 frames could be indexed, producing a data set which was subsequently used for structure solution to a resolution of 2.4 Å. (esrf.fr)
Rhodopsin10
- How does bacteriorhodopsin differ from the rhodopsin present in mammalian eyes? (standardtoday.co.uk)
- The key difference between them is that rhodopsin is a G-protein-coupled receptor, and this is not the case with bacteriorhodopsin. (standardtoday.co.uk)
- however, the functions of rhodopsin and bacteriorhodopsin are different, and there is limited similarity in their amino acid sequences. (standardtoday.co.uk)
- Both rhodopsin and bacteriorhodopsin belong to the 7TM receptor family of proteins, but rhodopsin is a G protein-coupled receptor and bacteriorhodopsin is not . (standardtoday.co.uk)
- Microbial rhodopsins function as phototaxis receptors (sensory rhodopsin), light-driven proton or chloride ion transporters (bacteriorhodopsin and halorhodopsin) [2, 3, 5, 6, 8]. (standardtoday.co.uk)
- Current models of GPCR structure are mainly derived from analogies with high-resolution structures of bacteriorhodopsin ( 7 ) and relatively low-resolution structures of rhodopsin ( 8 ). (aspetjournals.org)
- Bacteriorhodopsin (bR) is a protein that realizes the simplest known form of biological photosynthetic energy storage, absorbing light and converting its energy into a proton gradient across the cellular membrane of archaebacteria through vectorial proton translocation [1] As its name indicates, bacteriorhodopsin is closely related to rhodopsin, the protein which acts as the primary light detector in the visual pathway of higher life forms [2-6]. (uiuc.edu)
- Using high-resolution FTIR, we will study the conformational characteristics of bacteriorhodopsin and of rhodopsin in general and of the retinal environment in particular (including the photocycle intermediates L550 and M412 in bacteriorhodopsin and metarhodopsinII). (uab.cat)
- The results suggest that seven and 12 transmembrane helix bundles resembling those observed experimentally (e.g., bacteriorhodopsin, rhodopsin and cytochrome c oxidase subunit I) may be generated by simulations using simple potentials. (ox.ac.uk)
- Bacteriorhodopsin chimeras containing the third cytoplasmic loop of bovine rhodopsin activate transducin for GTP/GDP exchange. (wisc.edu)
Photocycle2
- Pressure dependence of the photocycle kinetics of bacteriorhodopsin. (mpg.de)
- In a collaborative study, Hendler and Levin have shown that lipids of the purple membrane of Halobacterium halobium directly influence the conformational structure of bacteriorhodopsin and control the kinetics, relaxation pathways, and regulation by actinic light of the photocycle intermediates of this integral membrane-protein proton pump. (nih.gov)
Proteins3
- Although they are similar in both bacteriorhodopsins and rhodopsins being retinal-binding proteins , the similarity in their amino acid sequence is very limited. (standardtoday.co.uk)
- In 1971 Walther Stoeckenius and Dieter Oesterhelt, both then at the University of California, San Francisco, discovered that one of these proteins, bacteriorhodopsin, acts as a single-component ion pump that can be briefly activated by photons of green light-a remarkable all-in-one molecular machine. (scientificamerican.com)
- Proton-binding motifs of membrane-bound proteins: From bacteriorhodopsin to spike protein S. Front Chem, 9, 685761. (sfb1078.de)
Membrane protein4
- The membrane protein bacteriorhodopsin (BR) can be kept soluble in its native state for months in the absence of detergent by amphipol (APol) A8-35, an amphiphilic polymer. (nih.gov)
- Bacteriorhodopsin is a large membrane protein and a model for G-protein coupled receptors (GPCRs). (bl.uk)
- Three differently labelled samples of bacteriorhodopsin were prepared to test the applicability of the various assignment strategies and the effects of deuteration on quality of solid state NMR spectra of a large, crystalline membrane protein. (bl.uk)
- As a physicist by training, my professional life began with biophysical studies of an archaic form of photosynthesis as practiced by halophilic bacteria using the proton-pumping membrane protein bacteriorhodopsin. (mariobirkholz.de)
Chromophore1
- Location and orientation of the chromophore in bacteriorhodopsin. (elsevier.com)
Dynamics3
- This article demonstrates how molecular dynamics simulations can elucidate structure-function relationships in bacteriorhodopsin (bR) involving water molecules. (inria.fr)
- In the present case, molecular dynamics (MD) studies are carried out on helix F model of bacteriorhodopsin (BR) Ace-(Ala)7-Trp-(Ala)2-Tyr-Pro-(Ala)2-Trp- (Ala)8-NHMe and compared with Ace-(Ala)7-Trp-(Ala)2-Tyr-(Ala)3-Trp-(Ala)8-NHMe in which the proline is replaced by alanine. (nih.gov)
- Three-dimensional view of ultrafast dynamics in photoexcited bacteriorhodopsin. (mpg.de)
Kinetics2
- To understand the specific, atomic-level, details of the electrogenic transport of protons across the membrane, our NHLBI collaborator uses spectrophotometry to study the rapid kinetics of the simple, photon-driven, proton pump bacteriorhodopsin (BR). (nih.gov)
- Single molecule kinetics of bacteriorhodopsin by HS-AFM. (cornell.edu)
Photosynthesis2
- According to NASA, the periodic color change is caused by micro algae producing carotenoids that help with photosynthesis and act as antioxidants and Halobacteriaceae , a bacteria in very salty water that releases "a red pigment called bacteriorhodopsin that absorbs light and converts it into energy for the bacteria. (boingboing.net)
- Bacteriorhodopsin photosynthesis. (jku.at)
Vectorial proton translocation1
- Finally, the charged groups of the salt bridge, repositioned by photoisomerization, provide a simple mechanism for vectorial proton translocation in bacteriorhodopsin. (elsevier.com)
Cytochrome oxidase2
- Semenov, V. P. Skulachev Direct measurement of electric current generation by cytochrome oxidase, H+-ATPase and bacteriorhodopsin. (scholar.ru)
- Primary attention has been on integral membrane, energy-transducing, proton pumps, namely cytochrome oxidase and bacteriorhodopsin (BR). (nih.gov)
Fourier1
- Bacteriorhodopsin: fourier transform infrared methods for studies of protonation of carboxyl groups. (sigmaaldrich.com)
Spectra1
- However, in applications of DNP to MAS spectra of biological systems, including studies of lysozyme, and bacteriorhodopsin, the enhancements have been smaller, e=40-50. (bridge12.com)
Phospholipid1
- When reconstituted into phospholipid vesicles, bacteriorhodopsin from E. coli shows the expected proton pumping activity in response to illumination. (syr.edu)
Proton release1
- Reaction coupling, acceptor pK, and diffusion control in light induced proton release of bacteriorhodopsin. (mpg.de)
Mutant1
- R. Henderson (MRC) used electron microscopy, photolysis and freeze trapping to look at the structures of reaction intermediates in 2D crystals of wildtype and a mutant bacteriorhodopsin. (iucr.org)
Pigments1
- A simple model for the early events in visual pigments and bacteriorhodopsin is proposed. (elsevier.com)
Similarity1
- It shows 21% identity with and 38% similarity to bacteriorhodopsin (BR). (uni-goettingen.de)
Rhodopsins1
- Bacteriorhodopsin belongs to the microbial rhodopsins . (standardtoday.co.uk)
Molecules1
- Furthermore, this molecular movie provides key insights into the role of active site water molecules and charged groups in dictating the overall vectorial nature of proton pumping by bacteriorhodopsin. (uiuc.edu)
Light-driven1
- The absorbance changes that accompany the light-driven proton-pumping cycle of bacteriorhodopsin measured over a broad range of times, wavelengths, temperatures, and pH values have been globally fitted to the kinetic model K in equilibrium with L in equilibrium with X in equilibrium with M in equilibrium with N in equilibrium with O----bR. (nih.gov)
Studies2
Crystals1
- Utilization of lipidic cubic phases in the crystallization of bacteriorhodopsin (bR) has yielded long sought after crystals that diffract X-rays to 2 Å resolution. (elsevier.com)
High-resolution1
- Surface of bacteriorhodopsin revealed by high-resolution electron crystallography. (expasy.org)
Structures1
- It was observed that both bacteriorhodopsin-like and delta-endotoxin-like structures are generated in seven-helix bundle simulations, within which the composition varies dependent upon the cooling rate. (ox.ac.uk)
Structure1
- Gouaux, E 1998, ' It's not just a phase: Crystallization and x-ray structure determination of bacteriorhodopsin in lipidic cubic phases ', Structure , vol. 6, no. 1, pp. 5-10. (elsevier.com)
Water1
- In analysing bacteriorhodopsin, glucose was used to substitute for the water that is lost to the microscope vacuum. (cam.ac.uk)
Model1
- The equilibrium side chain orientations of tryptophan and tyrosine residues are discussed and compared with those found in the recently proposed model of bacteriorhodopsin. (nih.gov)
Transport1
- He defended his thesis about light induced proton transport of bacteriorhodopsin in April 1989. (mpg.de)
Energy1
- Bacteriorhodopsins function as an energy transducers, converting light energy into electrochemical energy via PROTON PUMPS . (nih.gov)
Single2
- Molecular Force Modulation Spectroscopy Revealing the Dynamic Response of Single Bacteriorhodopsins. (ist.ac.at)
- Pulling single bacteriorhodopsin out of a membrane: Comparison of simulation and experiment. (bioexploratorium.pl)
Switch1
- Using nonlinear photoinduced anisotropy in bacteriorhodopsin (bR) film, we presented and demonstrated an image switch in which the output can be tuned continuously by the intensity of a pumping beam. (syr.edu)