Publications
| Title | Abstract | Year(sorted ascending) Filter | PMID Filter |
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| cometabolic transformation and cleavage of nitrodiphenylamines by three newly isolated sulfate-reducing bacterial strains. | three sulfate-reducing bacterial strains (desulfovibrio sp. strain shv, desulfococcus sp. strain whc, and desulfomicrobium sp. strain whb) with the capacity to cometabolize 2-nitrodiphenylamine, 4-nitrodiphenylamine, and 2,4-dinitrodiphenylamine were newly isolated. before breaking down the diphenylamine structure, these strains cometabolically reduce the nitrodiphenylamines to the corresponding aminodiphenylamines during anaerobic oxidation of the growth substrate lactate (desulfovibrio strain ... | 1996 | 16535317 |
| crystallization and preliminary x-ray crystallographic analysis of the putative [6fe-6s] prismane protein from desulfovibrio vulgaris (hildenborough). | crystals of the prismane protein from desulfovibrio vulgaris (hildenborough) containing a putative [6fe-6s] cluster have been obtained and x-ray data collected to a resolution of 1.7 a using synchrotron radiation. the unit cell is orthorhombic with a = 64.1, b = 65.1 and c = 154.1 a, space group p2(1)2(1)2(1) (no. 19). the unit cell will readily accommodate four molecules of molecular weight 60 kda with a corresponding solvent content of approximately 48%. | 1996 | 15299589 |
| preliminary crystallographic analysis and further characterization of a dodecaheme cytochrome c from desulfovibrio desulfuricans atcc 27774. | dodecaheme cytochrome c has been purified from desulfovibrio (d.) desulfuricans atcc 27774 cells grown under both nitrate and sulfate-respiring conditions. therefore, it is likely to play a role in the electron-transfer system of both respiratory chains. its molecular mass (37768 kda) was determined by electrospray mass spectrometry. its first 39 amino acids were sequenced and a motif was found between amino acids 32 and 37 that seems to exist in all the cytochromes of the c(3) type from sulfate ... | 1996 | 15299587 |
| influence of sulfur metalation on the accessibility of the ni(ii/i) couple in [n,n'-bis(2-mercaptoethyl)-1,5-diazacyclooctanato]nickel(ii): insight into the redox properties of [nife]-hydrogenase. | a redox model study of [nife] hydrogenase has examined a series of five polymetallics based on the metalation of the dithiolate complex [1,5-bis(mercaptoethyl)-1,5-diazacyclooctane]ni(ii), ni-1. crystal structures of three polymetallics of the series have been reported earlier: [(ni-1)(2)()ni]cl(2)(), [(ni-1)(2)()fecl(2)()](2)(), and [(ni-1)(3)()(zncl)(2)()]cl(2)(). two are described here: [(ni-1)(2)()pd]cl(2)().2h(2)()ocrystallizes in the monoclinic system, space group p2(1)/c with cell constan ... | 1996 | 11666411 |
| biological sulfate reduction using synthesis gas as energy and carbon source. | biological sulfate reduction was studied in laboratory-scale gas-lift reactors. synthesis gas (gas mixtures of h(2)/co/co(2)) was used as energy and carbon source. the required biomass retention was obtained by aggregation and immobilization on pumice particles. special attention was paid to the effect of co addition on the sulfate conversion rate, aggregation, and aggregate composition.addition of 5% co negatively affected the overall sulfate conversion rate; i.e., it dropped from 12-14 to 6-8 ... | 1996 | 18626930 |
| reduction of hexavalent uranium from organic complexes by sulfate- and iron-reducing bacteria. | the influence of organic-hexavalent-uranium [u(vi)] complexation on u(vi) reduction by a sulfate-reducing bacterium (desulfovibrio desulfuricans) and an iron-reducing bacterium (shewanella alga) was evaluated. four aliphatic ligands (acetate, malonate, oxalate, and citrate) and an aromatic ligand (tiron [4,5-dihydroxy-1,3-benzene disulfonic acid]) were used to study complexed-uranium bioavailability. the trends in uranium reduction varied with the nature and the amount of u(vi)-organic complex f ... | 1997 | 16535729 |
| bilophila wadsworthia: a unique gram-negative anaerobic rod. | although comprising less than 0.01% of the normal human gastrointestinal microbiota, bilophila wadsworthia is the third most common anaerobe recovered from clinical material obtained from patients with perforated and gangrenous appendicitis. since its discovery in 1988, b. wadsworthia has been recovered from clinical specimens associated with a variety of infections, including sepsis, liver abscesses, cholecystitis, fournier's gangrene, soft tissue abscesses, empyema, osteomyelitis, bartholiniti ... | 1997 | 16887567 |
| membrane-bound cytochromes in a sulfate-reducing strict anaerobe desulfovibrio vulgaris miyazaki f. | cytoplasmic membranes were isolated from the cells of a sulfate-reducing strict anaerobe desulfovibrio vulgaris miyazaki f and membrane-bound cytochromes were characterized. redox difference spectra at 77 k revealed the presence of cytochromes with the alpha peaks at 552 and 556 nm while co-binding difference spectra showed the presence of o-type cytochrome(s). partial purification of the cytochromes demonstrated that the membranes contain cytochromes c550, c551, c556 and possibly d1 besides hig ... | 1997 | 16887609 |
| recombinant two-iron rubredoxin of pseudomonas oleovorans: overexpression, purification and characterization by optical, cd and 113cd nmr spectroscopies. | the gene (alk g) encoding the two-iron rubredoxin of pseudomonas oleovorans was amplified from genomic dna by pcr and subcloned into the expression vector pkk223-3. the vector directed the high-level production of rubredoxin in escherichia coli. a simple three-step procedure was used to purify recombinant rubredoxin in the 1fe form. 1fe-rubredoxin was readily converted to the 2fe, apoprotein and cadmium forms after precipitation with trichloroacetic acid and resolubilization in the presence or a ... | 1997 | 9359843 |
| the primary structure of the split-soret cytochrome c from desulfovibrio desulfuricans atcc 27774 reveals an unusual type of diheme cytochrome c. | the complete amino acid sequence of the unusual diheme split-soret cytochrome c from the sulphate-reducing desulfovibrio desulfuricans strain atcc 27774 has been determined using classical chemical sequencing techniques and mass spectrometry. the 247-residue sequence shows almost no similarity with any other known diheme cytochrome c, but the heme-binding site of the protein is similar to that of the cytochromes c3 from the sulphate reducers. the cytochrome-c-like domain of the protein covers on ... | 1997 | 9346301 |
| desulfovibrio inopinatus, sp. nov., a new sulfate-reducing bacterium that degrades hydroxyhydroquinone. | a new sulfate-reducing bacterium was isolated from marine sediment with hydroxyhydroquinone (1,2,4-trihydroxybenzene) as the sole electron and carbon source. strain hhq 20 grew slowly with doubling times of > 20 h and oxidized hydroxyhydroquinone, lactate, pyruvate, ethanol, fructose, and ribose incompletely to acetate and carbon dioxide, with concomitant reduction of sulfate to sulfide. cells were large, vibrio-shaped, and gram-negative with a g+c content of 49.7 mol%, and contained desulfoviri ... | 1997 | 9297472 |
| a model for the unusual kinetics of thermal denaturation of rubredoxin. | the thermal denaturation of the simple, redox-active iron protein rubredoxin is characterized by a slow, irreversible decay of the characteristic red color of the iron center at elevated temperatures in the presence of oxygen at ph 7.8. the denaturation rate is essentially constant and the time period for complete bleaching is nearly independent of protein concentration. these two characteristics of the kinetics can be fit by a simple self-catalyzed kinetics model consisting of the combination o ... | 1997 | 9330230 |
| identification of a putative histidine base and of a non-protein nitrogen ligand in the active site of fe-hydrogenases by one-dimensional and two-dimensional electron spin-echo envelope-modulation spectroscopy. | the active h-cluster of the fe-hydrogenases from megasphaera elsdenii and desulfovibrio vulgaris (strain hildenborough) has been investigated with one- and two-dimensional pulsed epr spectroscopy. in both complexes the coordination of a nitrogen-containing ligand was found. the unusual quadrupole interaction parameters (d. vulgaris: quadrupole coupling constant, k = 1.20 mhz, asymmetry parameter eta = 0.32, m. elsdenii: k = 1.23 mhz, eta = 0.25) indicate a non-protein type of nitrogen and are co ... | 1997 | 9346288 |
| genetic diversity and expression of the [nife] hydrogenase large-subunit gene of desulfovibrio spp. in environmental samples. | the genetic diversity and expression of the [nife] hydrogenase large-subunit gene of desulfovibrio spp. in environmental samples were determined in order to show in parallel the existing and active members of desulfovibrio populations. dna and total rna were extracted from different anaerobic bioreactor samples; rna was transcribed into cdna. subsequently, pcr was performed to amplify a ca.-440-bp fragment of the [nife] hydrogenase large-subunit gene and its mrna. denaturing gradient gel electro ... | 1997 | 9361423 |
| enzymatic properties and effect of ionic strength on periplasmic nitrate reductase (nap) from desulfovibrio desulfuricans atcc 27774. | some sulfate reducing bacteria can induce nitrate reductase when grown on nitrate containing media being involved in dissimilatory reduction of nitrate, an important step of the nitrogen cycle. previously, it was reported the purification of the first soluble nitrate reductase from a sulfate-reducing bacteria desulfovibrio desulfuricans atcc 27774 (s.a. bursakov, m.-y. liu, w.j. payne, j. legall, i. moura, and j.j.g. moura (1995) anaerobe 1, 55-60). the present work provides further information ... | 1997 | 9367852 |
| characterization of the [nife] hydrogenase from the sulfate reducer desulfovibrio vulgaris hildenborough. | the [nife] hydrogenase from desulfovibrio vulgaris hildenborough was isolated from the cytoplasmic membranes and characterized by epr spectroscopy. it has a total molecular mass of 98.7 kda (subunits of 66.4 and 32.3 kda), and contains 1 nickel and 12 fe atoms per heterodimer. the catalytic activities for hydrogen consumption and production were determined to be 174 and 89 mumol h2.min-1.mg-1, respectively. as isolated, under aerobic conditions, this hydrogenase exhibits epr signals characterist ... | 1997 | 9367885 |
| protein contributions to redox potentials of homologous rubredoxins: an energy minimization study. | the energetic contributions of the protein to the redox potential in an iron-sulfur protein are studied via energy minimization, comparing homologous rubredoxins from clostridium pasteurianum, desulfovibrio gigas, desulfovibrio vulgaris, and pyrococcus furiosus. the reduction reaction was divided into 1) the change in the redox site charge without allowing the protein to respond and 2) the relaxation of the protein in response to the new charge state, focusing on the latter. the energy minimizat ... | 1997 | 9370467 |
| evidence for a tungsten-stimulated aldehyde dehydrogenase activity of desulfovibrio simplex that oxidizes aliphatic and aromatic aldehydes with flavins as coenzymes. | the aldehyde dehydrogenase activity of the sulfate-reducing bacterium desulfovibrio simplex strain dsm 4141 was characterized in cell-free extracts. oxygen-sensitive, constitutive aldehyde dehydrogenase activity was found in cells grown on l(+)-lactate, hydrogen, or vanillin with sulfate as the electron acceptor. a 1.83- to 2.6-fold higher specific activity was obtained in cells grown in media supplemented with 1 microm wo42-. the aldehyde dehydrogenase in cell-free extracts catalyzed the oxidat ... | 1997 | 9385139 |
| evaluation of the role of specific acidic amino acid residues in electron transfer between the flavodoxin and cytochrome c3 from desulfovibrio vulgaris. | a hypothetical model for electron transfer complex between cytochrome c3 and the flavodoxin from the sulfate-reducing bacteria desulfovibrio vulgaris has been proposed, based on electrostatic potential field calculations and nmr data [stewart, d. e., legall, j. , moura, i., moura, j. j. g., peck, h. d., jr., xavier, a. v., weiner, p. k., & wampler, j. e. (1988) biochemistry 27, 2444-2450]. this modeled complex relies primarily on the formation of five ion pairs between lysine residues of the cyt ... | 1997 | 9354631 |
| crystal structure and mechanism of action of the xanthine oxidase-related aldehyde oxidoreductase from desulfovibrio gigas. | 1997 | 9388539 | |
| evaluation of the bbl crystal anaerobe identification system. | the bbl crystal anaerobe (anr) identification system was evaluated, and the results were compared with those from conventional anaerobic methods. we tested 322 clinically significant anaerobic bacteria according to the manufacturer's instructions. the system identified correctly 286 of 322 (88.8%) of the anaerobic bacteria tested. of these, 263 of 322 (81.7%) were identified correctly on initial testing and 49 were identified correctly only to the genus level; on repeat testing, 23 of 49 (46.9%) ... | 1997 | 9399517 |
| structure and function of molybdopterin containing enzymes. | molybdopterin containing enzymes are present in a wide range of living systems and have been known for several decades. however, only in the past two years have the first crystal structures been reported for this type of enzyme. this has represented a major breakthrough in this field. the enzymes share common structural features, but reveal different polypeptide folding topologies. in this review we give an account of the related spectroscopic information and the crystallographic results, with e ... | 1997 | 9652170 |
| pathway of chymotrypsin evolution suggested by the structure of the fmn-binding protein from desulfovibrio vulgaris (miyazaki f) | 1997 | 9406543 | |
| further characterization of the two tetraheme cytochromes c3 from desulfovibiro africanus: nucleotide sequences, epr spectroscopy and biological activity. | the genes encoding the basic and acidic tetraheme cytochromes c3 from desulfovibrio africanus have been sequenced. the corresponding amino acid sequences of the basic and acidic cytochromes c3 indicate that the mature proteins consist of a single polypeptide chain of 117 and 103 residues, respectively. their molecular masses, 15102 and 13742 da, respectively, determined by mass spectrometry, are in perfect agreement with those calculated from their amino acid sequences. both d. africanus cytochr ... | 1997 | 9392524 |
| molecular epidemiology of rabies epizootics in texas. | texas is in the midst of two independent epizootics of rabies, involving coyotes (canis latrans) and domestic dogs (canis familiaris) in southern texas and grey foxes (urocyon cinereoargenteus) in west central texas. the domestic dog/coyote (ddc) and grey for (tf) rabies virus variants cannot be differentiated by antigenic typing with currently available monoclonal antibodies. these two variants also cannot be distinguished from a third variant, sonora dog (sd) rabies, that is not enzootic in te ... | 1997 | 9406651 |
| unusual ligand structure in ni-fe active center and an additional mg site in hydrogenase revealed by high resolution x-ray structure analysis. | the hydrogenase of desulfovibrio sp. catalyzes the reversible oxidoreduction of molecular hydrogen, in conjunction with a specific electron acceptor, cytochrome c3. the ni-fe active center of desulfovibrio hydrogenase has an unusual ligand structure with non-protein ligands. an atomic model at high resolution is required to make concrete assignment of the ligands which coordinate the ni-fe center. these in turn will provide insight into the mechanism of electron transfer, during the reaction cat ... | 1997 | 9438867 |
| the relationship between microbial metabolic activity and biocorrosion of carbon steel. | the effect of metabolic activity (expressed by generation time, rate of h2s production and the activity of hydrogenase and adenosine phosphosulphate (aps)-reductase enzymes) of the 8 wild strains of desulfovibrio desulfuricans and of their resistance to metal ions (hg2+, cu2+, mn2+, zn2+, ni2+, cr3+) on the rate of corrosion of carbon steel was studied. the medium containing lactate as the carbon source and sulphate as the electron acceptor was used for bacterial metabolic activity examination a ... | 1997 | 9765862 |
| role of intestinal bacteria in nutrient metabolism. | the human large intestine contains a microbiota, the components of which are generically complex and metabolically diverse. its primary function is to salvage energy from carbohydrate not digested in the upper gut. this is achieved through fermentation and absorption of the major products, short chain fatty acids (scfa), which represent 40-50% of the available energy of the carbohydrate. the principal scfa, acetate, propionate and butyrate, are metabolized by the colonic epithelium (butyrate), l ... | 1997 | 9406136 |
| hydrogenase: a hydrogen-metabolizing enzyme. what do the crystal structures tell us about its mode of action? | hydrogenases are proteins which metabolize the most simple of chemical compounds, molecular hydrogen, according to the reaction h2<-->2h+ + 2e-. these enzymes are found in many microorganisms of great biotechnological interest such as methanogenic, acetogenic, nitrogen fixing, photosynthetic or sulfate-reducing bacteria. the x-ray structure of a dimeric [nife] hydrogenase together with a wealth of biophysical, biochemical and genetic studies have revealed that the large subunit contains the bime ... | 1997 | 9479448 |
| barriers to heterologous expression of a selenoprotein gene in bacteria. | the specificity parameters counteracting the heterologous expression in escherichia coli of the desulfomicrobium baculatum gene (hydv) coding for the large subunit of the periplasmic hydrogenase which is a selenoprotein have been studied. hydv'-'lacz fusions were constructed, and it was shown that they do not direct the incorporation of selenocysteine in e. coli. rather, the uga codon is efficiently suppressed by some other aminoacyl-trna in an e. coli strain possessing a ribosomal ambiguity mut ... | 1997 | 9006007 |
| the formate dehydrogenase isolated from the aerobe methylobacterium sp. rxm is a molybdenum-containing protein. | the formate dehydrogenase (fdh) isolated from cells of methylobacterium sp. rxm grown on molybdenum-containing mineral medium using methanol as carbon source, was partially purified (at least 90% pure as revealed by sds-page). the enzyme is unstable under oxygen and all the purification steps were conducted under strict anaerobic conditions. the molecular mass is 75 kda (gel exclusion 300 kda). the enzyme was characterized in terms of the kinetic parameters towards different substrates and elect ... | 1997 | 9020054 |
| use of paramagnetic nmr probes for structural analysis in cytochrome c3 from desulfovibrio vulgaris. | the dipolar field generated by each of the four haems in the tetrahaem ferricytochrome c3 from desulfovibrio vulgaris (hildenborough) (c3dvh) is determined by means of a novel procedure. in this method the 13c chemical shifts of the nuclei directly bound to the haems are used to determine the in-plane orientations of the rhombic perturbation in each of the four haems with respect to a model of molecular orbitals of e(g) symmetry which are subject to a rhombic perturbation [turner, d. l., salguei ... | 1997 | 9108240 |
| cloning and expression of the rubredoxin gene from desulfovibrio vulgaris (miyazaki f)--comparison of the primary structure of desulfoferrodoxin. | a gene encoding rubredoxin from desulfovibrio vulgaris (miyazaki f) was cloned and overexpressed in escherichia coli. a 1.1-kilobase pair dna fragment, isolated from d. vulgaris (miyazaki f) by double digestion with smai and sali, contained two genes, the rubredoxin gene (rub) and the desulfoferrodoxin gene (rbo) which was situated upstream of rub. the deduced amino acid sequence of desulfoferrodoxin was homologous to those from other strains and cys residues that are responsible to bind irons w ... | 1997 | 9116039 |
| biochemical and spectroscopic characterization of two new cytochromes isolated from desulfuromonas acetoxidans. | the multimeric cytochromes described to date in sulfate- and sulfur-reducing bacteria are associated with diverse respiratory modes involving the use of elemental sulfur or oxidized sulfur compounds as terminal acceptors. they exhibit no structural similarity with the other cytochrome c classes and are characterized by a bis-histidinyl axial iron coordination and low redox potentials. we have purified two new cytochromes c with markedly different molecular masses (10 000 and 50 000) from the bac ... | 1997 | 9271490 |
| studies on the redox centers of the terminal oxidase from desulfovibrio gigas and evidence for its interaction with rubredoxin. | rubredoxin-oxygen oxidoreductase (roo) is the final component of a soluble electron transfer chain that couples nadh oxidation to oxygen consumption in the anaerobic sulfate reducer desulfovibrio gigas. it is an 86-kda homodimeric flavohemeprotein containing two fad molecules, one mesoheme ix, and one fe-uroporphyrin i per monomer, capable of fully reducing oxygen to water. epr studies on the native enzyme reveal two components with g values at approximately 2.46, 2.29, and 1.89, which are assig ... | 1997 | 9278402 |
| a rubrerythrin operon and nigerythrin gene in desulfovibrio vulgaris (hildenborough). | rubrerythrin is a nonheme iron protein of unknown function isolated from desulfovibrio vulgaris (hildenborough). we have sequenced a 3.3-kbp sal1 fragment of d. vulgaris chromosomal dna containing the rubrerythrin gene, rbr, identified additional open reading frames (orfs) adjacent to rbr, and shown that these orfs are part of a transcriptional unit containing rbr. one orf, designated fur, lies just upstream of rbr and encodes a 128-amino-acid-residue protein which shows homology to fur (ferric ... | 1997 | 9226272 |
| targeted gene-replacement mutagenesis of dcra, encoding an oxygen sensor of the sulfate-reducing bacterium desulfovibrio vulgaris hildenborough. | a gene-replacement mutagenesis method has been developed for the anaerobic, sulfate-reducing bacterium desulfovibrio vulgaris hildenborough and used to delete dcra, encoding a potential oxygen or redox sensor with homology to the methyl-accepting chemotaxis proteins. a suicide plasmid, containing a cat-marked dcra allele and a counter-selectable sacb marker was transferred from escherichia coli s17-1 to d. vulgaris by conjugation. following plasmid integration the desired dcra deletion mutant (d ... | 1997 | 9202456 |
| pathways for utilization of carbon reserves in desulfovibrio gigas under fermentative and respiratory conditions. | the sulfate-reducing bacterium desulfovibrio gigas accumulates large amounts of polyglucose as an endogenous carbon and energy reserve. in the absence of exogenous substrates, the intracellular polysaccharide was utilized, and energy was conserved in the process (h. santos, p. fareleira, a. v. xavier, l. chen, m.-y. liu, and j. legall, biochem. biophys. res. commun. 195:551-557, 1993). when an external electron acceptor was not provided, degradation of polyglucose by cell suspensions of d. gigas ... | 1997 | 9190814 |
| bacteremia caused by a recently described novel desulfovibrio species. | an obligately anaerobic, fastidious, slowly growing, spiral, gram-negative bacterium was isolated from the blood of a 75-year-old man with acute onset of pyrexia. the patient responded rapidly to appropriate antibiotic therapy. extensive investigation failed to detect a focus for the infection. phenotypically, the organism was consistent with desulfovibrio species. microscopic investigation revealed an organism with a vibrioid or spirillioid morphology with rapidly progressive motility by means ... | 1997 | 9196198 |
| one-electron photo-oxidation of reduced desulfovibrio vulgaris flavodoxin on laser excitation at 355 nm. | electron ejection from the reduced flavin in flavodoxin from desulfovibrio vulgaris was obtained on exposure of the protein to the third harmonic radiation (354.7 nm) generated from a pulsed nd/yag laser. the results indicate that the reaction is due to stepwise two-photon excitation of the reduced flavin via the excited singlet state. the absorption spectrum of the neutral flavosemiquinone radical formed in this process was obtained. this spectrum remains stable over the time of study (0.2 ms) ... | 1997 | 9165104 |
| evidence for the bacterial origin of genes encoding fermentation enzymes of the amitochondriate protozoan parasite entamoeba histolytica. | entamoeba histolytica is an amitochondriate protozoan parasite with numerous bacterium-like fermentation enzymes including the pyruvate:ferredoxin oxidoreductase (por), ferredoxin (fd), and alcohol dehydrogenase e (adhe). the goal of this study was to determine whether the genes encoding these cytosolic e. histolytica fermentation enzymes might derive from a bacterium by horizontal transfer, as has previously been suggested for e. histolytica genes encoding heat shock protein 60, nicotinamide nu ... | 1997 | 9171424 |
| [3fe-4s] <--> [4fe-4s] cluster interconversion in desulfovibrio africanus ferredoxin iii: properties of an asp14 --> cys mutant. | the 8fe ferredoxin iii from desulfovibrio africanus is a monomeric protein which contains two [4fe-4s]2+/1+ clusters, one of which is labile and can readily and reversibly lose one fe under oxidative conditions to yield a [3fe-4s]1+/0 cluster. this 4fe cluster has an s = 3/2 ground sping state insteaed of s = 1/2 in the reduced +1 state [george, armstrong, hatchikian and thomson (1989) biochem. j. 264, 275-284]. the co-ordination to this cluster is unusual in that an aspartate (asp14, d14, is fo ... | 1997 | 9173907 |
| genome sizes of desulfovibrio desulfuricans, desulfovibrio vulgaris, and desulfobulbus propionicus estimated by pulsed-field gel electrophoresis of linearized chromosomal dna. | pulsed-field gel electrophoresis (pfge) of linearized, full-length chromosomal dna was used to estimate the genome sizes of three species of sulfate-reducing bacteria. genome sizes of desulfovibrio desulfuricans, desulfovibrio vulgaris, and desulfobulbus propionicus were estimated to be 3.1, 3.6, and 3.7 mb, respectively. these values are double the genome sizes previously determined for two desulfovibrio species by two-dimensional agarose gel electrophoresis of dna cut with restriction enzymes. ... | 1997 | 9142739 |
| taurine reduction in anaerobic respiration of bilophila wadsworthia rzatau. | organosulfonates are important natural and man-made compounds, but until recently (t. j. lie, t. pitta, e. r. leadbetter, w. godchaux iii, and j. r. leadbetter. arch. microbiol. 166:204-210, 1996), they were not believed to be dissimilated under anoxic conditions. we also chose to test whether alkane- and arenesulfonates could serve as electron sinks in respiratory metabolism. we generated 60 anoxic enrichment cultures in mineral salts medium which included several potential electron donors and ... | 1997 | 9143131 |
| deletion of two downstream genes alters expression of the hmc operon of desulfovibrio vulgaris subsp. vulgaris hildenborough. | the hmc operon of desulfovibrio vulgaris subsp. vulgaris hildenborough consists of six genes (hmca to hmcf) that encode structural components of the high-molecular-mass cytochrome redox protein complex (the hmc complex). two genes (rrf1 and rrf2) encoding regulatory proteins are present downstream of hmcf. expression of the hmc operon, monitored by incubating protein blots with hmca-specific or hmcf-specific antibodies, was found to be highest when hydrogen was the sole electron donor for sulfat ... | 1997 | 9148780 |
| dynamics and unfolding pathways of a hyperthermophilic and a mesophilic rubredoxin. | molecular dynamics simulations in solution are performed for a rubredoxin from the hyperthermophilic archaeon pyrococcus furiosus (rdpf) and one from the mesophilic organism desulfovibrio vulgaris (rddv). the two proteins are simulated at four temperatures: 300 k, 373 k, 473 k (two sets), and 500 k; the various simulations extended from 200 ps to 1,020 ps. at room temperature, the two proteins are stable, remain close to the crystal structure, and exhibit similar dynamic behavior; the rms residu ... | 1997 | 9416608 |
| determinant role of e. coli rnase iii in the decay of both specific and heterologous mrnas. | a comparative analysis of mrna decay was carried out in escherichia coli using the wild-type and an isogenic rnase iii deletion strain. we have studied the mrna degradation from the escherichia coli gene bola, the lactococcus lactis biovar diacetylactis citqrp operon and the desulfovibrio vulgaris hildenborough gene cyc. as seen by a dramatic stabilization of the specific mrnas in the mutant strain, rnase iii was crucial for the decay process of these three messages. since rnase iii, unlike rnas ... | 1997 | 9418237 |
| isolation and evaluation of susceptibility to sulphasalazine of desulfovibrio desulfuricans strains from the human digestive tract. | various genera of sulphate reducing bacteria (srb) have been found in the human digestive tract. it is suggested that some of srb species may be responsible for the development of the clinical symptoms of ulcerative colitis and other disease of large intestine. sulphasalazine (salicyl-azo-sulphapyridine, sas) is commonly used to treat patients with ulcerative colitis and crohn disease. above 30 samples of faeces or biopsy specimens from 25 patients (age 45 +/- 14 years; m/f, 13/12) suffering fro ... | 1997 | 9429289 |
| encapsulation of flavodoxin in reverse micelles. | the regulation of the properties of desulfovibrio gigas flavodoxin in aot/water/iso-octane micellar system was studied. uv-visible spectroscopic studies have shown that photoreduction of flavodoxin in the presence of edta leads to hydroquinone formation through the intermediate semiquinone. the [free fmn] - [bound to flavodoxin fmn] equilibrium (and hence, the amount of apoprotein) depends on redox state of fmn and on hydration degree which controls the micellar size. thus, a new method of rever ... | 1997 | 9175769 |
| a single mutation in the heme 4 environment of desulfovibrio desulfuricans norway cytochrome c3 (mr 26,000) greatly affects the molecule reactivity. | the gene encoding desulfovibrio desulfuricans norway cytochrome c3 (mr 26,000), a dimeric octaheme cytochrome belonging to the polyheme cytochrome c3 superfamily, has been cloned and successfully expressed in another sulfate reducing bacteria, d. desulfuricans g201. the gene, named cycd, is monocistronic and encodes a cytochrome precursor of 135 amino acids with an extension at the nh2 terminus of 24 amino acids. this extension acts as a signal sequence which allows export across the cytoplasmic ... | 1997 | 9182533 |
| nature and electronic structure of the ni-x dinuclear center of desulfovibrio gigas hydrogenase. implications for the enzymatic mechanism. | the recent determination of the x-ray crystal structure of desulfovibrio gigas hydrogenase has revealed that the active site is a ni-x dinuclear center [volbeda, a., charon, m. h., piras, c., hatchikian, e. c., frey, m., & fontecilla-camps, j. c. (1995) nature 373, 580-587]. this unexpected result calls for a re-examination of the magnetic and redox properties that have been attributed previously to a mononuclear ni center. we have used a combination of dosimetric and electron paramagnetic reson ... | 1997 | 9201928 |
| regulation of oxidation-reduction potentials through redox-linked ionization in the y98h mutant of the desulfovibrio vulgaris [hildenborough] flavodoxin: direct proton nuclear magnetic resonance spectroscopic evidence for the redox-dependent shift in the pka of histidine-98. | flavodoxin from desulfovibrio vulgaris is a low molecular weight (15 000 da) acidic flavoprotein that contains a single flavin mononucleotide (fmn) cofactor. a distinguishing feature of the flavodoxin family is the exceptionally low midpoint potential of the semiquinone/hydroquinone couple. tyrosine-98, which flanks the outer or si face of the fmn, plays an important role in establishing the oxidation-reduction properties of the bound cofactor as demonstrated by the substitution of a number of a ... | 1997 | 9220989 |
| comparison of the 16s ribosomal dna sequences from the intracellular agents of proliferative enteritis in a hamster, deer, and ostrich with the sequence of a porcine isolate of lawsonia intracellularis. | proliferative enteritis is an enteric disease that affects a variety of animals. the causative agent in swine has been determined to be an obligate intracellular bacterium, lawsonia intracellularis, related to the sulfate-reducing bacterium desulfovibrio desulfuricans. the intracellular agents found in the lesions of different animal species are antigenically similar. in addition, strains from the pig, ferret, and hamster have been shown to be genetically similar. in this study we performed a pa ... | 1997 | 9226893 |
| nutritional aspects of dissimilatory sulfate reduction in the human large intestine. | in contrast to other anaerobic ecosystems, such as marine and estuarine sediments, there is a lack of information on the nutritional requirements of human gut sulfate-reducing bacteria (srb). various substrates stimulated sulfate reduction in mixed culture, including short-chain fatty acids and other organic acids, alcohols, and amino acids (but not sugars or aromatic compounds). however, the use of sodium molybdate as a specific inhibitor of sulfate reduction caused an accumulation of ethanol a ... | 1997 | 9462959 |
| gas access to the active site of ni-fe hydrogenases probed by x-ray crystallography and molecular dynamics. | the 2.54 a resolution structure of ni-fe hydrogenase has revealed the existence of hydrophobic channels connecting the molecular surface to the active site. a crystallographic analysis of xenon binding together with molecular dynamics simulations of xenon and h2 diffusion in the enzyme interior suggest that these channels serve as pathways for gas access to the active site. | 1997 | 9228943 |
| oxygen-dependent growth of the obligate anaerobe desulfovibrio vulgaris hildenborough. | desulfovibrio vulgaris hildenborough, a sulfate-reducing bacterium classified as an obligate anaerobe, swam to a preferred oxygen concentration of 0.02 to 0.04% (0.24 to 0.48 microm), a level which also supported growth. oxygen concentrations of 0.08% and higher arrested growth. we propose that in zones of transition from an oxic to an anoxic environment, d. vulgaris protects anoxic microenvironments from intrusion of oxygen. | 1997 | 9287020 |
| conversion of desulforedoxin into a rubredoxin center. | rubredoxin and desulforedoxin both contain an fe(s-cys)4 center. however, the spectroscopic properties of the center in desulforedoxin differ from rubredoxin. these differences arise from a distortion of the metal site hypothesized to result from adjacent cysteine residues in the primary sequence of desulforedoxin. two desulforedoxin mutants were generated in which either a g or p-v were inserted between adjacent cysteines. both mutants exhibited optical spectra with maxima at 278, 345, 380, 480 ... | 1997 | 9070870 |
| population structure of microbial communities associated with two deep, anaerobic, alkaline aquifers. | microbial communities of two deep (1,270 and 316 m) alkaline (ph 9.94 and 8.05), anaerobic (eh, -137 and -27 mv) aquifers were characterized by rrna-based analyses. both aquifers, the grande ronde (gr) and priest rapids (pr) formations, are located within the columbia river basalt group in south-central washington, and sulfidogenesis and methanogenesis characterize the gr and pr formations, respectively. rna was extracted from microorganisms collected from groundwater by ultrafiltration through ... | 1997 | 9097447 |
| desulfovibrio profundus sp. nov., a novel barophilic sulfate-reducing bacterium from deep sediment layers in the japan sea. | several strains of a strictly anaerobic, vibrio-shaped or sigmoid, sulfate-reducing bacterium were isolated from deep marine sediments (depth, 80 and 500 m) obtained from the japan sea (ocean drilling program leg 128, site 798b). this bacterium was identified as a member of the genus desulfovibrio on the basis of the presence of desulfoviridin and characteristic phospholipid fatty acids (iso 17:1 omega 7 and iso 15:0), the small number of growth substrates utilized (lactate, pyruvate, and hydrog ... | 1997 | 9103642 |
| desulfonatronovibrio hydrogenovorans gen. nov., sp. nov., an alkaliphilic, sulfate-reducing bacterium. | a new alkaliphilic, sulfate-reducing bacterium, strain z-7935t (t = type strain), was isolated from a soda-depositing lake, lake magadi in kenya. this organism is a motile vibrio which utilizes only hydrogen and formate as electron donors and sulfate, sulfite, and thiosulfate, but not sulfur, as electron acceptors. thiosulfate is dismutated. strain z-7935t is an obligately sodium-dependent alkaliphile which grows in sodium carbonate medium and does not grow at ph 7; the maximum ph for growth is ... | 1997 | 8995816 |
| physiological characteristics and growth behavior of single and double hydrogenase mutants of desulfovibrio fructosovorans. | the presence of one periplasmic [nife] hydrogenase, one periplasmic [fe] hydrogenase, and one cytoplasmic nadp-reducing hydrogenase has been previously established in desulfovibrio fructosovorans. in the present work, marker-exchange mutagenesis was performed to determine the function of the tetrameric nadp-reducing hydrogenase encoded by the hnda, b, c, and d genes. the mutations performed were not lethal to the cells, although the h2-dependent nadp reduction was completely abolished. the doubl ... | 1997 | 9000340 |
| a geographically widespread plasmid from thiobacillus ferrooxidans has genes for ferredoxin-, fnr-, prismane- and nadh-oxidoreductase-like proteins which are also located on the chromosome. | during a search for genes encoding electron transport proteins from a thiobacillus ferroxidans atcc 33020 gene bank, a 19.8 kb plasmid, ptf5, which conferred increased sensitivity to the antimicrobial agent metronidazole upon an escherichia coli mutant, was isolated and cloned in e. coli. the plasmid had an identical restriction enzyme map to a plasmid which has been found in t. ferrooxidans strains isolated from many different parts of the world. the plasmid was present at between two and four ... | 1997 | 9353917 |
| backbone dynamics of oxidized and reduced d. vulgaris flavodoxin in solution. | recombinant desulfovibrio vulgaris flavodoxin was produced in escherichia coli. a complete backbone nmr assignment for the two-electron reduced protein revealed significant changes of chemical shift values compared to the oxidized protein, in particular for the flavine mononucleotide (fmn)-binding site. a comparison of homo- and heteronuclear noesy spectra for the two redox states led to the assumption that reduction is not accompanied by significant changes of the global fold of the protein. th ... | 1997 | 9335116 |
| towards the phylogeny of aps reductases and sirohaem sulfite reductases in sulfate-reducing and sulfur-oxidizing prokaryotes. | the genes for adenosine-5'-phosphosulfate (aps) reductase, aprba, and sirohaem sulfite reductase, dsrab, from the sulfur-oxidizing phototrophic bacterium chromatium vinosum strain d (dsmz 180(t)) were cloned and sequenced. statistically significant sequence similarities and similar physicochemical properties suggest that the aprba and dsrab gene products from chr. vinosum are true homologues of their counterparts from the sulfate-reducing chemotrophic archaeon archaeoglobus fulgidus and the sulf ... | 1997 | 9308173 |
| a mechanism for complementation of the soda sodb defect in escherichia coli by overproduction of the rbo gene product (desulfoferrodoxin) from desulfoarculus baarsii. | overexpression of rbo in escherichia coli prevents the inactivation of the [4fe-4s]-containing fumarases that otherwise occurs in the soda sodb strain. it similarly protects against the increased sensitivity toward h2o2, which is imposed by the lack of sod a and sod b. these results would be explained on the basis of scavenging of o-2 within the cells by rbo. this interpretation was supported by measurements of intracellular scavenging of o-2 by the lucigenin luminescence method. since sod activ ... | 1997 | 9325275 |
| isolation and analysis of the gene encoding the pyruvate-ferredoxin oxidoreductase of desulfovibrio africanus, production of the recombinant enzyme in escherichia coli, and effect of carboxy-terminal deletions on its stability. | previous studies have shown that the pyruvate-ferredoxin oxidoreductase (por) of the sulfate-reducing bacterium desulfovibrio africanus is a homodimer that contains one thiamine pyrophosphate and three [4fe-4s]2+/1+ centers/subunit. interestingly, the enzyme isolated from a strictly anaerobic bacterium is highly stable in the presence of oxygen, in contrast to the other pors characterized in anaerobic organisms (l. pieulle, b. guigliarelli, m. asso, f. dole, a. bernadac, and e. c. hatchikian, bi ... | 1997 | 9294422 |
| purification and characterization of the hnda subunit of nadp-reducing hydrogenase from desulfovibrio fructosovorans overproduced in escherichia coli. | based on the dna sequence of its structural genes, clustered in the hnd operon, the nadp-reducing hydrogenase of desulfovibrio fructosovorans is thought to be a heterotetrameric complex in which hnda and hndc constitute the nadp-reducing unit and hndd constitutes the hydrogenase unit, respectively. the weak representativity of the enzyme among cell proteins has prevented its purification. this paper discusses the purification and characterization of the hnda subunit of this unique tetrameric iro ... | 1998 | 9485416 |
| macrorestriction analysis of desulfurella acetivorans and desulfurella multipotens. | the genomes of the phylogenetically and physiologically unique bacteria desulfurella acetivorans dsm 5264t and d. multipotens dsm 8415t were characterized and compared by pulsed field gel electrophoresis (pfge). macrorestriction patterns made of large pfge separated dna fragments were generated by digesting the genomic dnas of both strains with the rare cutting restriction endonucleases apai, asci, eagi, rsrii, sacii, sali as well as with the intron encoded endonuclease i-ceui. the sum of calcul ... | 1998 | 9485604 |
| a primitive pathway of porphyrin biosynthesis and enzymology in desulfovibrio vulgaris. | culture of desulfovibrio vulgaris in a medium supplemented with 5-aminolevulinic acid and l-methionine-methyl-d3 resulted in the formation of porphyrins (sirohydrochlorin, coproporphyrin iii, and protoporphyrin ix) in which the methyl groups at the c-2 and c-7 positions were deuterated. a previously unknown hexacarboxylic acid was also isolated, and its structure was determined to be 12, 18-didecarboxysirohydrochlorin by mass spectrometry and 1h nmr. these results indicate a primitive pathway of ... | 1998 | 9560192 |
| desulfovibrio aminophilus sp. nov., a novel amino acid degrading and sulfate reducing bacterium from an anaerobic dairy wastewater lagoon. | a mesophilic strain of sulfate-reducing bacterium, designated ala-3t (t = type strain), was isolated from an anaerobic lagoon of a dairy wastewater treatment plant. the curved, gram-negative, non-sporeforming cells (0.2 x 3.0-4.0 microns) existed singly or in chains, and were motile by single polar flagella. optimum growth occurred at 35 degrees c and ph 7.5 on a medium containing lactate and sulfate. thiosulfate or sulfite but not elemental sulfur, nitrate, or fumarate could also replace sulfat ... | 1998 | 9924817 |
| metabolism of explosive compounds by sulfate-reducing bacteria. | the metabolism of various explosive compounds-1,3,5-trinitrobenzene (tnb), hexahydro-1,3,5-trinitro-1,3,5-triazine (rdx), and octahydro-1,3,5,7-tetranitro-1,3,5,7-tetraazocine (hmx)-by a sulfate-reducing bacterial consortium, desulfovibrio spp., was studied. the results indicated that the desulfovibrio spp. used all of the explosive compounds studied as their sole source of nitrogen for growth. the concentrations of tnb, rdx, and hmx in the culture media dropped to below the detection limit (<0. ... | 1998 | 9662613 |
| heterologous expression of the desulfovibrio gigas [nife] hydrogenase in desulfovibrio fructosovorans mr400. | the ability of desulfovibrio fructosovorans mr400 deltahynabc to express the heterologous cloned [nife] hydrogenase of desulfovibrio gigas was investigated. the [nife] hydrogenase operon from d. gigas, hynabcd, was cloned, sequenced, and introduced into d. fructosovorans mr400. a portion of the recombinant heterologous [nife] hydrogenase was totally matured, exhibiting catalytic and spectroscopic properties identical to those of the native d. gigas protein. a chimeric operon containing hynab fro ... | 1998 | 9733707 |
| growth of a human intestinal desulfovibrio desulfuricans in continuous cultures containing defined populations of saccharolytic and amino acid fermenting bacteria. | ecological and physiological effects of the sulphate-reducing bacterium (srb) desulfovibrio desulfuricans on other intestinal organisms were investigated in anaerobic chemostats (dilution rate approximately 0.2 h-1). reproducible defined bacterial communities were used in these experiments, comprising 14 different saccharolytic and amino acid fermenting species: bifidobacterium longum, bif. adolescentis, bif. pseudolongum, bif. infantis, bacteroides thetaiotaomicron, bact. vulgatus, lactobacillu ... | 1998 | 9750310 |
| [3fe-4s] to [4fe-4s] cluster conversion in desulfovibrio fructosovorans [nife] hydrogenase by site-directed mutagenesis. | the role of the high potential [3fe-4s]1+,0 cluster of [nife] hydrogenase from desulfovibrio species located halfway between the proximal and distal low potential [4fe-4s]2+,1+ clusters has been investigated by using site-directed mutagenesis. proline 238 of desulfovibrio fructosovorans [nife] hydrogenase, which occupies the position of a potential ligand of the lacking fourth fe-site of the [3fe-4s] cluster, was replaced by a cysteine residue. the properties of the mutant enzyme were investigat ... | 1998 | 9751716 |
| iron-sulfur proteins: new roles for old clusters. | several major advances in our understanding of the structure, function and properties of biological iron-sulfur clusters have occurred in the past year. these include a new structural type of cluster in the inappropriately named prismane protein, the establishment of redox-mediated [fe2s2]2+ <--> [fe4s4]2+ cluster conversions, and the characterization of valence-delocalized [fe2s2]+ and all ferrous clusters with [fe2s2]0, [fe3s4]2- and [fe4s4]0 cores. the emergence of novel types of redox, regul ... | 1998 | 9667933 |
| interaction of sulfate-reducing bacteria with molybdenum dissolved from sputter-deposited molybdenum thin films and pure molybdenum powder. | when sputter-deposited mo thin films were exposed to sulfate-reducing bacterium desulfovibrio desulfuricans, dissolved mo markedly delayed the culture growth and reduced the rate of sulfate reduction. the interaction led to an orange coloration of the culture liquid. x-ray photoelectron spectroscopy of dried culture droplets revealed that mo dissolution products existed mostly in pentavalent state, and a smaller amount of molybdate and molybdenum disulfide. in contrast, mo dissolution in uninocu ... | 1998 | 9698401 |
| fractionation of sulfur isotopes during thiosulfate reduction by desulfovibrio desulfuricans | sulfur isotope fractionation during reduction of thiosulfate was investigated with growing batch cultures of desulfovibrio desulfuricans csn (dsm 9104) at 30 degreesc. the sulfide produced was depleted in 34s by 10 per thousand as compared to total thiosulfate sulfur. the depletion was equal to that during sulfate reduction under similar conditions. the two sulfur atoms of the thiosulfate molecule were affected differently by fractionation. sulfide produced from sulfonate sulfur was depleted by ... | 1998 | 9560428 |
| nmr determination of the global structure of the 113cd derivative of desulforedoxin: investigation of the hydrogen bonding pattern at the metal center. | desulforedoxin (dx) is a simple homodimeric protein isolated from desulfovibrio gigas (dg) containing a distorted rubredoxin-like center with one iron coordinated by four cysteinyl residues (7.9 kda with 36 amino acids per monomer). in order to probe the geometry and the h-bonding at the active site of dx, the protein was reconstituted with 113cd and the solution structure determined using 2d nmr methods. the structure of this derivative was initially compared with the nmr solution structure of ... | 1998 | 9568899 |
| altered specificity mutations define residues essential for substrate positioning in xanthine dehydrogenase. | we describe the sequence changes of a number of mutations of the aspergillus nidulans xanthine dehydrogenase (xdh). we have located the amino acids affected by these changes in the three-dimensional (3d) structure of aldehyde oxido-reductase (mop) from desulfovibrio gigas, related to eukaryotic xdhs. of these, two are loss of function mutations, mapping, respectively, in the molybdenum-pterin co-factor (moco) domain and in the domain involved in substrate recognition. changes in two amino acids ... | 1998 | 9571062 |
| photostable chlorophyll a conjugated with poly(vinylpyrrolidone)-smectite catalyzes photoreduction and hydrogen gas evolution by visible light. | chlorophyll a was adsorbed to a synthetic smectite intercalated by poly(vinylpyrrolidone) (pvp) to form the chlorophyll-pvp-smectite conjugate (chl-pvp-sme) having an absorption maximum at 677 nm. the conjugate was found to be stable toward light illumination in comparison with chlorophyll-smectite, chlorophyll-pvp, and free chlorophyll a. chl-pvp-sme had a photoinduced activity for catalyzing the reduction of methyl viologen. furthermore, the evolution of hydrogen gas was observed when an aqueo ... | 1998 | 9576817 |
| structure of azotobacter vinelandii 7fe ferredoxin at 1.35 a resolution and determination of the [fe-s] bonds with 0.01 a accuracy. | the crystal structure of azotobacter vinelandii ferredoxin i (fdi) at 100 k has been refined at 1.35 a resolution by full matrix block diagonal least-squares methods with anisotropic temperature factors for all non-hydrogen atoms and with hydrogen atoms included in the model. fe-s bonds within the [3fe-4s]+ and [4fe-4s]2+ clusters of the protein are determined with an accuracy of at least 0.01 a. analysis of metric parameters reveals greater variation in bonds and angles within the [3fe-4s]+ clu ... | 1998 | 9600844 |
| tyrosine 64 of cytochrome c553 is required for electron exchange with formate dehydrogenase in desulfovibrio vulgaris hildenborough. | replacement of tyrosine 64 by alanine in cytochrome c553 from desulfovibrio vulgarishildenborough prevents electron transfer with the formate dehydrogenase. biophysical and biochemical studies show that the protein is correctly folded and that the oxidoreduction potential is not modified. the solution structure of the mutant cytochrome determined by two-dimensional (2d) nmr clearly establishes that the overall fold of the molecule is nearly identical to that of the wild-type cytochrome. the elec ... | 1998 | 9622485 |
| structural bases for the catalytic mechanism of [nife] hydrogenases. | 1998 | 9765886 | |
| characterization of the complex of isofmn and apoflavodoxin from desulfovibrio vulgaris (hildenborough). | 1998 | 9765934 | |
| enzymatic recovery of elemental palladium by using sulfate-reducing bacteria | worldwide usage of platinum group metals is increasing, prompting new recovery technologies. resting cells of desulfovibrio desulfuricans reduced soluble pd2+ to elemental, cell-bound pd0 supported by pyruvate, formate, or h2 as the electron donor without biochemical cofactors. pd reduction was o2 insensitive, opening the way for recycling and recovery of pd under oxic conditions. | 1998 | 9797331 |
| psychrotolerant sulfate-reducing bacteria from an oxic freshwater sediment, description of desulfovibrio cuneatus sp. nov. and desulfovibrio litoralis sp. nov. | the most abundant culturable sulfate-reducing bacteria were isolated from the littoral sediment of the oligotrophic lake stechlin. the strains stl1 and stl4 were obtained from the oxic uppermost layer, while strain stl6 was isolated from the anoxic zone in 20 to 30 mm depth. the isolates showed a striking morphological feature in tapering off at one end of the cell. physiological characteristics related them to the genus desulfovibrio. they contained desulfoviridin. h2, formate, pyruvate, lactat ... | 1998 | 9704109 |
| mass balance studies with 14c-labeled 2,4,6-trinitrotoluene (tnt) mediated by an anaerobic desulfovibrio species and an aerobic serratia species. | investigations were carried out to evaluate the level of incorporation of radiolabeled 2,4,6-trinitrotoluene (tnt) and metabolites into the bacterial biomass of two different bacterial species after cometabolically mediated tnt transformation. biotransformation experiments with 14c-tnt indicated that tnt was not mineralized; however, carbon derived from tnt became associated with the cells. it was found that more than 42% of the initially applied radiolabel was associated with the cell biomass a ... | 1998 | 9806975 |
| characterization of the cytochromes c from desulfovibrio desulfuricans g201. | a monoheme cytochrome c553 and a hexadecaheme high molecular weight cytochrome (hmc) have been isolated and characterized from the sulfate-reducing bacteria desulfovibrio desulfuricans g201, in addition to the tetraheme cytochrome c3 (mr 13000) that has been previously described. both cytochromes are homologous with respect to several biochemical properties to the corresponding cytochromes found in other desulfovibrio species. however, they are acidic proteins while the corresponding molecules, ... | 1998 | 9439638 |
| identification of a gene for a rubrerythrin/nigerythrin-like protein in spirillum volutans by using amino acid sequence data from mass spectrometry and nh2-terminal sequencing. | a hydrogen peroxide-resistant mutant of the catalase-negative microaerophile, spirillum volutans, constitutively expresses a 21.5 kda protein that is undetectable and non-inducible in the wild-type cells. part of the gene that encodes the protein was cloned using amino acid sequence data obtained by both mass spectrometry and nh2-terminal sequencing. the deduced 158 amino acid polypeptide shows high relatedness to rubrerythrin and nigerythrin previously described in the anaerobes clostridium per ... | 1998 | 9830123 |
| replacement of lysine 45 by uncharged residues modulates the redox-bohr effect in tetraheme cytochrome c3 of desulfovibrio vulgaris (hildenborough). | the structural basis for the ph dependence of the redox potential in the tetrahemic desulfovibrio vulgaris (hildenborough) cytochrome c3 was investigated by site-directed mutagenesis of charged residues in the vicinity of heme i. mutation of lysine 45, located in the neighborhood of the propionates of heme i, by uncharged residues, namely threonine, glutamine and leucine, was performed. the replacement of a conserved charged residue, aspartate 7, present in the n-terminal region and near heme i ... | 1998 | 9724528 |
| ionic strength-dependent physicochemical factors in cytochrome c3 regulating the electron transfer rate. | the effect of ionic strength on the macroscopic and microscopic redox potentials and the heme environment of cytochrome c3 from desulfovibrio vulgaris miyazaki f have been investigated by nmr and electrochemical methods. the redox potentials of this tetraheme protein are found to be ionic strength-dependent. especially, the microscopic redox potentials of hemes 2 and 3 at the fourth reduction step increase significantly with increasing ionic strength, which is in contraction to the theoretical e ... | 1998 | 9726950 |
| the structural origin of nonplanar heme distortions in tetraheme ferricytochromes c3. | resonance raman (rr) spectroscopy, molecular mechanics (mm) calculations, and normal-coordinate structural decomposition (nsd) have been used to investigate the conformational differences in the hemes in ferricytochromes c3. nsd analyses of heme structures obtained from x-ray crystallography and mm calculations of heme-peptide fragments of the cytochromes c3 indicate that the nonplanarity of the hemes is largely controlled by a fingerprint peptide segment consisting of two heme-linked cysteines, ... | 1998 | 9730815 |
| structural and kinetic studies of the y73e mutant of octaheme cytochrome c3 (mr = 26 000) from desulfovibrio desulfuricans norway. | a combination of structural, kinetic, and interaction experiments has been used to study the role of a highly conserved aromatic residue, tyr73, parallel to the sixth heme axial ligand of heme 4 in multiheme cytochrome c3 (mr = 26 000), also called cytochrome cc3 or octaheme cytochrome, from desulfovibrio desulfuricans norway. this residue is expected to be involved in intermolecular electron transfer and protein-protein interaction, since heme 4 is described to be the interaction site between p ... | 1998 | 9485359 |
| solution structure of desulfovibrio vulgaris (hildenborough) ferrocytochrome c3: structural basis for functional cooperativity. | desulfovibrio vulgaris cytochrome c3 is a 14 kda tetrahaem cytochrome that plays a central role in energy transduction. the three-dimensional structure of the ferrocytochrome at ph 8.5 was solved through two-dimensional 1h-nmr. the structures were calculated using a large amount of experimental information, which includes upper and lower distance limits as well as dihedral angle restraints. the analysis allows for fast-flipping aromatic residues and flexibility in the haem plane. the structure w ... | 1998 | 9710542 |
| high genetic and physiological diversity of sulfate-reducing bacteria isolated from an oligotrophic lake sediment. | the community structure of sulfate-reducing bacteria in littoral and profundal sediments of the oligotrophic lake stechlin (germany) was investigated. a collection of 32 strains was isolated from the highest positive dilutions of most-probable-number series, and their partial 16s rrna gene sequences and genomic fingerprints based on eric (enterobacterial repetitive intergenic consensus)-pcr were analyzed. the strains fell into eight distinct phylogenetic lineages, and the majority (70%) showed a ... | 1998 | 9732438 |
| a low-spin iron with cn and co as intrinsic ligands forms the core of the active site in [fe]-hydrogenases. | in this report the first high-quality infrared spectra of [fe]-hydrogenase are presented. analyses of these spectra obtained under a variety of redox conditions strongly indicate that [fe]-hydrogenases contain a low-spin fe ion in the active site with one cn- group and one co molecule as intrinsic, non-protein ligands. when in the ferric state, the presence of such an ion can explain the enigmatic epr properties (the rhombic 2.10 signal) of the active, oxidised enzyme. to account for other, well ... | 1998 | 9874225 |
| 1h-nmr study of the structural influence of y64 substitution in desulfovibrio vulgaris hildenborough cytochrome c553. | y64 has been replaced in cytochrome c553 from desulfovibrio vulgaris hildenborough by phenylalanine, leucine, valine, serine and alanine residues. an nmr study of structural variation induced in both oxidoreduction states of the molecule has been carried out by analysing observed chemical-shift variations. dynamic changes were evidenced using nh exchange. we have observed that the substitution has a drastic effect on the stability of the molecule in the reduced state, although there is no effect ... | 1998 | 9490053 |
| determination of the structure of oxidised desulfovibrio africanus ferredoxin i by 1h nmr spectroscopy and comparison of its solution structure with its crystal structure. | the solution structure of the 64 amino acid fe4s4 ferredoxin i from desulfovibrio africanus has been determined using two-dimensional 1h nmr spectroscopy. sequence-specific assignments were obtained for 59 amino acid residues and the structure determined with the program diana on the basis of 549 nuclear overhauser enhancement (noe) upper distance limits, and four dihedral angle and 52 distance constraints for the fe4s4 cluster. the nmr structure was refined using the simulated annealing and ene ... | 1998 | 9533888 |
| desulfovibrio aespoeensis sp. nov., a mesophilic sulfate-reducing bacterium from deep groundwater at aspö hard rock laboratory, sweden. | a sulfate-reducing bacterium, strain aspo-2, was isolated from granitic groundwater sampled at a depth of 600 m. this and other strains of srb frequently occur in the deep granitic rock aquifers studied. on the basis of its morphological, physiological and genotypical properties, and its unique habitat, we propose strain aspo-2 as a new species of the genus desulfovibrio, desulfovibrio aespoeensis (dsm 10631t). | 1998 | 9542102 |
| the nadp-reducing hydrogenase of desulfovibrio fructosovorans: evidence for a native complex with hydrogen-dependent methyl-viologen-reducing activity. | the nadp-reducing hydrogenase of desulfovibrio fructosovorans represents a novel class of [fe] hydrogenases which is encoded by the well-characterized hndabcd operon containing the genes hnda, hndb, hndc, and hndd. expression of this operon, monitored by measuring the nadp-reducing activity, was found to be maximum during the exponential phase of growth on fructose and then decreased when the concentration of the carbon and energy source became limiting. the optimum ph for the h2-driven nadp red ... | 1998 | 9703971 |