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W Lubitz

Publications and source records attributed to W Lubitz.

At least 73 records · Page 4Linked to original sources

Self-assembly product formation of the Bacillus stearothermophilus PV72/p6 S-layer protein SbsA in the course of autolysis of Bacillus subtilis.

In order to achieve high level expression and to study the release of a protein capable of self-assembly, the gene encoding the crystalline cell surface (S-layer) protein SbsA of Bacillus stearothermophilus PV72/p6, including its signal sequence, was cloned and expressed in Bacillus subtilis. To obtain high level expression, a tightly regulated, xylose-inducible, stably replicating multicopy-plasmid vector was constructed. After induction of expression, the S-layer protein made up about 15% of the total cellular protein content, which was comparable to the SbsA content of B. stearothermophilus PV72/p6 cells. During all growth stages, SbsA was poorly secreted to the ambient cellular environment by B. subtilis. Extraction of whole cells with guanidine hydrochloride showed that in late stationary growth phase cells 65% of the synthesised SbsA was retained in the peptidoglycan-containing layer, indicating that the rigid cell wall layer was a barrier for efficient SbsA secretion. Electron microscopic investigation revealed that SbsA release from the peptidoglycan-containing layer started in the late stationary growth phase at distinct sites at the cell surface leading to the formation of extracellular self-assembly products which did not adhere to the cell wall surface. In addition, intracellular sheet-like SbsA self-assembly products which followed the curvature of the cell became visible in partly lysed cells. Intracellularly formed self-assembly products remained intact even after complete lysis of the rigid cell envelope layer.

Bacillus subtilis↗

Determination of the distance between Y(Z)ox* and QA-* in photosystem II by pulsed EPR spectroscopy on light-induced radical pairs.

Out-of-phase electron spin echo envelope modulation (ESEEM) spectroscopy was used to determine the distances within two consecutive radical pair states initiated by a laser flash in photosystem II membrane fragments at pH 11. The distance between the spin density centers of the primary electron donor cation radical, P680+*, and the reduced plastoquinone acceptor, QA-*, has been found to be 27.7+/-0.7 A in agreement with previous results. Near room temperature and at high pH, P680+* is reduced by Y(Z), a redox active tyrosine residue, on a sub-microsecond timescale. As a consequence, the subsequent radical pair state, Y(Z)ox*-QA-*, could be investigated after almost complete reduction of P680+* by Y(Z). The determined dipolar electronic spin-spin coupling within the radical pair Y(Z)ox*QA-* corresponds to a distance of 34+/-1 A between the two molecules.

Electron Spin Resonance Spectroscopy↗

Reorientation of the acetyl group of the photoactive bacteriopheophytin in reaction centers of Rhodobacter sphaeroides: an ENDOR/TRIPLE resonance study.

The freeze-trapped bacteriopheophytin alpha radical anion phi(*)A- has been investigated by 1H-ENDOR/Special TRIPLE resonance spectroscopy in photosynthetic reaction centers of Rhodobacter sphaeroides, in which the Tyr at position M210 had been replaced by either Phe, Leu, His or Trp. In the wild type reaction center and the mutants YF(M210) and YW(M210) two distinct states of phi(*)A-, denoted I(*)1- and I(*)2-, can be stabilized below 200 K. The state I(*)1 is metastable and relaxes to I(*)2- as the temperature is raised from 135 K to 180 K. The difference in the electronic structure of phi(*)A- between the two states is interpreted in terms of a conformational change of phiA after freeze-trapping, involving a reorientation of the 3-acetyl group with respect to the macrocycle of the bacteriopheophytin. This interpretation is supported by the results of RHF-INDO/SP calculations. In the YH(M210) reaction center only one phiA- state is obtained that is distinct from I(*)1- and I(*)2, and the observed electronic structure indicates an almost in-plane orientation of the 3-acetyl group. This is consistent with the proposal that a hydrogen bond is formed between His M210 and the 3(1)-keto oxygen of phiA that impedes the reorientation of the acetyl group. Only one phi(*)A- state is observed in the YL(M210) reaction center, which is similar to the metastable state I(*)1 in the wild type complex. This result is interpreted in terms of a steric hindrance of the reorientation of the 3-acetyl group that is exerted by the side chain of Leu at position M210. Possible implications of these findings for the mechanism of electron transfer in bacterial reaction centers are discussed.

Electron Spin Resonance Spectroscopy↗

Orientation-selected ENDOR of the active center in Chromatium vinosum [NiFe] hydrogenase in the oxidized "ready" state.

Electron nuclear double resonance (ENDOR) was applied to study the active site of the oxidized "ready" state, Ni(r), in the [NiFe] hydrogenase of Chromatium vinosum. The magnetic field dependence of the EPR was used to select specific subsets of molecules contributing to the ENDOR response by stepping through the EPR envelope. Three hyperfine couplings could be clearly followed over the complete field range. Two protons, H1 and H2, display a very similar large isotropic coupling of 12.5 and 12.6 MHz, respectively. Their dipolar coupling is small (2.1 and 1.4 MHz, respectively). A third proton, H3, exhibits a small isotropic coupling of 0.5 MHz and a larger anisotropic contribution of 3.5 MHz. Based on a comparison with structural data obtained from X-ray crystallography of single crystals of hydrogenases from Desulfovibrio gigas and D. vulgaris and the known g-tensor orientation of Ni(r), an assignment of the 1H hyperfine couplings could be achieved. H1 and H2 were assigned to the beta-CH2 protons of the bridging cysteine Cys533 and H3 could belong to a beta-CH2 proton of Cys68 or to a protonated cysteine (-SH) of Cys68 or Cys530.

Catalytic Domain↗

Analysis of bacterial communities on historical glass by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA.

The present study describes the analysis of bacterial communities on historical window glass by denaturing gradient gel electrophoresis of PCR-amplified 16S rDNA fragments. So far, only a few studies have been published in which the microflora and the corrosion mechanisms of glass surfaces have been investigated. Some microorganisms, especially fungi, have been isolated from different glass samples in the past. However, our results demonstrate that bacterial communities on biodeteriorated glass surfaces are much more complex than previously believed. In addition, bacteria were identified, which have never been isolated from glass samples before.

Bacteria↗

Agrococcus citreus sp. nov., isolated from a medieval wall painting of the chapel of Castle Herberstein (Austria).

A bacterial strain, D-1/1aT, isolated from a medieval wall painting of the chapel of Herberstein (Styria, Austria) was characterized by a polyphasic approach. Strain D-1/1aT shared 98.1% 16S rRNA sequence similarity to Agrococcus jenensis. The chemotaxonomic characteristics including polar lipid pattern, whole cell sugars, quinone system, polyamine pattern, cell wall composition and fatty acid profile were in good agreement with those of Agrococcus jenensis. The G+C content of the DNA was determined to be 74 mol%. The value of 47% DNA reassociation obtained after DNA-DNA hybridization between DNA of Agrococcus jenensis and strain D-1/1aT as well as differences in the amino acid composition of the peptidoglycan and in physiological characteristics demonstrate that the isolate represents a new species of the genus Agrococcus. The name Agrococcus citreus sp. nov. is proposed for the new species harbouring isolate D-1/1aT. The type strain is DSM 12453T.

Actinomycetales↗

Heterologous phi X174 gene E-expression in Ralstonia eutropha: E-mediated lysis is not restricted to gamma-subclass of proteobacteria.

E-lysis of Ralstonia eutropha H16, which belongs to the beta-subclass, was undertaken to verify whether transmembrane tunnel formation is possible in bacteria which do not belong to the enterobacteriaceae. For this purpose, a new gene E expression plasmid, pKG12, with two origins of replication, oriV and oriT, from plasmid pRP4, chloramphenicol and kanamycin resistance genes and a casette composed of lambda cI857 and lambda pR gene E was constructed. Temperature upshift of R. eutropha H16 (pKG12) from 28 to 45 degrees C during exponential growth resulted in lysis of the strain with features characteristic of E-mediated lysis of Escherichia coli. The cytoplasmic contents released can easily be separated from the still intact envelope fraction by centrifugation or filtration. As R. eutropha H16 represents an important industrial organism, E-mediated lysis could facilitate procedures for the recovery of intracellular mediators or products like polyhydroxyalkanoates.

Bacteriophages↗

Aqueous release and purification of poly(beta-hydroxybutyrate) from Escherichia coli.

The poly(beta-hydroxybutyrate) (PHB) biosynthetic genes of Ralstonia eutropha that are organized in a single operon (phaCAB) have been cloned in Escherichia coli, where the expression of the genes in the wild-type pha operon from plasmid pTZ18U-PHB leads to the formation of 50-80% PHB/celldry mass when the cells are grown in Luria-Bertani medium supplemented with 1% glucose (w/v). In combination with the phaCAB genes, expression of cloned lysis gene E of bacteriophage PhiX174 from plasmid pSH2 has been used to release PHB granules produced in E. coli. It was shown that small PHB granules in a semiliquid stage are squeezed out of the cells through the E-lysis tunnel structure which is characterized by a small opening in the envelope with borders of fused inner and outer membranes. All envelope components remain intact after E-lysis and can be removed from the mixture of released PHB granules by density gradient centrifugation. In addition, a modified E-lysis procedure is described which enables the release of PHB from cell pellets in pure water or low ionic strength buffer. PHB granules in aqueous solution can be aggregated by divalent cations. Addition of glassmilk speeds up the agglomeration of PHB granules and binding to glass beads can either be used for collection or further purification of PHB in aqueous solutions.

Bacteriolysis↗

A conformational change of the photoactive bacteriopheophytin in reaction centers from Rhodobacter sphaeroides.

It is demonstrated by ENDOR and Special TRIPLE spectroscopy that two distinct radical anion states of the intermediate electron acceptor (I), a bacteriopheophytin, can be freeze-trapped in isolated photosynthetic reaction centers of Rhodobacter sphaeroides. The formation of these states depends on the illumination time prior to freezing and the temperature. The first state, I1.-, is metastable and relaxes irreversibly at T approximately 160 K to the second state, I2.-. Experiments on quinone depleted as well as mutant reaction centers help to exclude the possibility that other cofactors besides the bacteriopheophytin in the A-branch, PhiA, are reduced during the trapping procedure. In particular, two mutants are investigated, in which the hydrogen bonds to PhiA that exist in the wild type are removed. These mutants are EL(L104), in which Glu at position L104 near the 13(1)-keto group of PhiA is replaced by Leu, and WF(L100), in which Trp at position L100 near the 13(2)-methyl ester of PhiA is replaced by Phe. Both mutations have characteristic effects on both I.- states. In addition, the replacement of Thr at position M133 near the 13(1)-keto group of the inactive bacteriopheophytin and of Gly at position M203 near the 13(1)-keto group of the accessory bacteriochlorophyll in the A-branch by Asp causes no changes of the electronic structure of I.-. The two I.- states are interpreted in terms of a reorientation of the 3-acetyl group of PhiA after reduction. Possible implications for the initial charge separation process are discussed.

Electron Spin Resonance Spectroscopy↗

Cold-sensitive E-lysis systems.

The release of recombinant bacteria into the environment is undesirable because of possible risks associated with the genetically modified organisms. The aim of this study was to establish a cold-sensitive killing system with a lethal gene, activated when bacteria encounter lower environmental temperatures. To obtain cold-sensitive lysis vectors, the lambdacI857 repressor/pR promoter expression system was combined with either the lacI/lacZpo or the phage 434 cI/pR system that control the expression of the lysis gene E of bacteriophage phiX174. Escherichia coli strains harbouring such suicide vectors are able to grow at 37 degrees C, but cell lysis takes place at temperatures below 30 degrees C. By replacing gene E with a beta-galactosidase reporter gene we also showed that the onset of beta-galactosidase activity corresponds with the onset of lysis at 28 degrees C. Results indicate that these newly combined promoter/repressor systems can also be used to confer cold-sensitive expression to any gene of interest.

Bacterial Proteins↗

Effect of phi X174 protein E-mediated lysis on murein composition of Escherichia coli.

Lysis of Escherichia coli by bacteriophage phi X174 is caused by the phage protein E. As protein E is devoid of enzymatic activities it has been postulated that lysis is the result of an induction of the autolytic enzymes of the host. This hypothesis was investigated by comparing the murein composition before and during lysis of either phi X174 infected cells or protein E induced lysis of E. coli. Additionally, protein E-mediated lysis was compared with induction of the autolytic system by EDTA. The analysis showed that the overall composition of murein is not changed after induction of protein E-mediated lysis. Nevertheless, murein degradation seems to be stimulated by the action of protein E as shown by an increase in the total amount of murein turnover products by about 10%. It could be shown that an intact murein sacculus prevents the phages from being released.

Bacterial Outer Membrane Proteins↗

Characterization of Escherichia coli lysis using a family of chimeric E-L genes.

Gene E-L, a chimeric lysis construct from bacteriophages phi X174 and MS2 lysis proteins E and L, respectively, was subjected to internal deletions to create a series of new E-L clones with altered lysis or killing properties. The lytic activities of the parental genes E. L. E-L and the internal truncated forms of E-L were investigated in this study to characterize the different lysis mechanisms, based on differences in the architecture of the different membrane spanning domains. Electron microscopy and release of marker enzymes for the cytoplasmic and periplasmic spaces revealed that two different lysis mechanisms can be distinguished depending on penetrating of the proteins either the inner membrane or the inner and outer membranes of Escherichia coli. Several candidates, which share efficient lysis properties, have biotechnological applications in terms of cell disruption.

Bacteriolysis↗

Mutations in cell division proteins FtsZ and FtsA inhibit phiX174 protein-E-mediated lysis of Escherichia coli.

Electron microscopic studies emphasized that the protein-E-specific transmembrane tunnel structure, which permeabilizes Escherichia coli, is not randomly distributed over the cell envelope but is restricted to areas of potential division sites. These sites were located predominantly in the middle of the cell, but approximately one-third of these structures are found at the polar sites. Therefore, E. coli mutant strains with defects in cell division components were tested for their sensitivity to protein-E-mediated lysis. The ftsZ84 and the ftsA12 cell division mutant strains of E. coli were tolerant to protein-E-mediated lysis, whereas the ftsA3 mutant strain was lysed by protein E under conditions nonpermissive for division. The protein-E-tolerant phenotype of ftsZ84 and ftsA12 and the lysis-sensitive phenotype of other components of the septosome (e.g., ftsA3, ftsQ, and ftsI) suggest that initiation of cell division - rather than specific functions of cell division - plays an essential role in protein-E-mediated lysis. SulA-overproducing cells had a lysis-positive phenotype, the ring structure - but not the GTPase function - of FtsZ was impaired.

Animals↗

Relationship between the oxidation potential and electron spin density of the primary electron donor in reaction centers from Rhodobacter sphaeroides.

The primary electron donor in bacterial reaction centers is a dimer of bacteriochlorophyll a molecules, labeled L or M based on their proximity to the symmetry-related protein subunits. The electronic structure of the bacteriochlorophyll dimer was probed by introducing small systematic variations in the bacteriochlorophyll-protein interactions by a series of site-directed mutations that replaced residue Leu M160 with histidine, tyrosine, glutamic acid, glutamine, aspartic acid, asparagine, lysine, and serine. The midpoint potentials for oxidation of the dimer in the mutants showed an almost continuous increase up to approximately 60 mV compared with wild type. The spin density distribution of the unpaired electron in the cation radical state of the dimer was determined by electron-nuclear-nuclear triple resonance spectroscopy in solution. The ratio of the spin density on the L side of the dimer to the M side varied from approximately 2:1 to approximately 5:1 in the mutants compared with approximately 2:1 for wild type. The correlation between the midpoint potential and spin density distribution was described using a simple molecular orbital model, in which the major effect of the mutations is assumed to be a change in the energy of the M half of the dimer, providing estimates for the coupling and energy levels of the orbitals in the dimer. These results demonstrate that the midpoint potential can be fine-tuned by electrostatic interactions with amino acids near the dimer and show that the properties of the electronic structure of a donor or acceptor in a protein complex can be directly related to functional properties such as the oxidation-reduction midpoint potential.

Journal Article↗

Pulsed EPR structure analysis of photosystem I single crystals: localization of the phylloquinone acceptor.

A novel application of electron paramagnetic resonance (EPR) is reported to gain three dimensional structural information on cofactors in proteins. The method is applied here to determine the unknown position of the electron acceptor QK, a phylloquinone (vitamin K1), in the electron transfer chain in photosystem I of oxygenic photosynthesis. The unusual electron spin echo (out-of-phase echo) observed for the light induced radical pair P700.+QK.- in PS I allows the measurement of the dipolar coupling between the two radical pair spins which yields directly the distance between these two radicals. Full advantage of the information in the out-of-phase echo modulation can be taken if measurements using single crystals are performed. With such samples, the orientation of the principal axis of the dipolar interaction, i.e., the axis connecting P700.+QK.-, can be determined with respect to the crystal axes system. An angle of theta = (27 +/- 5)degrees between the dipolar coupling axis and the crystallographic c-axis has been derived from the modulation of the out-of-phase echo. Furthermore, the projection of the dipolar axis into the crystallographic a,b-plane, is found to be parallel to the a-axis. The results allow for the determination of two possible locations of QK within the electron transfer chain of photosystem I. These two positions are related to each other by the pseudo C2 symmetry of the chlorophyll cofactors.

Crystallization↗

Pulsed EPR measurement of the distance between P680+. and Q(A)-. in photosystem II.

Out-of-phase electron spin echo envelope modulation (ESEEM) spectroscopy was used to determine the distance between the primary donor radical cation P680+. and the quinone acceptor radical anion Q(A)-. in iron-depleted photosystem II in membrane fragments from spinach that are deprived of the water oxidizing complex. Furthermore, a lower limit for the distance between the oxidized tyrosine residue Y(Z) of polypeptide D1 and Q(A)-. could be estimated by a comparison of data gathered from samples where the electron transfer from Y(Z) to P680+. is either intact or blocked by preillumination in the presence of NH2OH.

Benzoquinones↗

Two distinct conformations of the primary electron donor in reaction centers from Rhodobacter sphaeroides revealed by ENDOR/TRIPLE-spectroscopy.

The effect of solubilization of photosynthetic reaction centers (RCs) from Rhodobacter sphaeroides with different detergents on the electronic structure of the oxidized primary donor, P.+, is investigated. Electron paramagnetic resonance spectroscopy and related multiple resonance techniques (ENDOR/Special TRIPLE) show that two distinct conformations of P.+ can be obtained, depending on the detergent properties, the detergent/RC ratio, and the temperature. The two states correspond to different positions of the long-wavelength Qy-band of the neutral state, P (lambda1 = 866 nm and lambda2 = 850 nm at room temperature) and therefore are called P866.+ and P850.+, respectively. P866.+ is found in chromatophores and in RCs solubilized with nonionic detergents and bile salts. P850.+ is induced by zwitterionic and ionic detergents with aliphatic hydrophobic chains. The TRIPLE resonance spectra reveal that both states coexist in the range lambda2 < lambda(max) < lambda1. The main property of the detergent that determines the ability to induce P850.+ is the polarity of the head group. A simple phenomenological model is presented that relates the standard Gibbs free energy difference between the two conformations to the detergent/RC ratio and the temperature. Of special interest is the observation that the widely used detergent LDAO can induce P850.+ upon freezing the RCs without cryoprotectants. The spectroscopic properties of the two states are compared and their possible roles in RC function are discussed.

Bile Acids and Salts↗

Endotoxicity does not limit the use of bacterial ghosts as candidate vaccines.

Gram-negative bacterial ghosts produced by controlled expression of the plasmid-encoded lysis gene E offers a promising approach in non-living vaccine technology. Bacterial cell wall complex and hence the antigenic determinants of the living cells are not affected by denaturation due to cell killing. However, the endotoxin content of the Gram-negative cell wall has been discussed as a potential problem for this kind of whole cell or envelope vaccines. Here we show that bacterial ghosts prepared from Escherichia coli O26:B6 and Salmonella typhimurium C5 induce dose-dependent antibody responses against bacterial cells or their corresponding lipopolysaccharides (LPS) in doses 25 ng kg-1 when administered intravenously to rabbits in a standard immunization protocol. No differences between the immune responses of the rabbits were observed when comparing equivalent doses of bacterial ghosts and antibiotic-treated whole cells. The results indicate that the bacterial ghosts exhibit all the antigenic properties of the living cells. No significant fever responses in rabbits have been recorded in doses of < 250 ng kg-1 E. coli O26:B6 ghosts and up to doses of 250 ng kg-1 S. typhimurium C5 ghosts when applying test methods recommended by the US pharmacopoeia. These findings correlate with cell culture experiments where doses 100 ng ml-1 of bacterial ghosts were needed for the release of tumour necrosis factor alpha (TNF alpha) and prostaglandin E2 (PGE2) from RAW mouse macrophage cultures. Free LPS of Salmonella abortus equi commonly used as a LPS-standard, however, stimulated TNF alpha and PGE2 synthesis of RAW cells in doses of 1 ng ml-1. The endotoxic activity of our bacterial preparations analysed by a standard limulus amoebocyte lysate and 2-keto-3-deoxyoctonate assay correlated with the capacity to stimulate the release of PGE2 and TNF alpha in RAW mouse macrophage cultures and the endotoxic responses in rabbits. It can be concluded that these in vitro systems can be used as easy predictive test systems for preparations of bacterial vaccines, particularly for bacterial ghosts.

Animals↗