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Human histidine triad nucleotide‐binding protein 2 (hHINT2) is an important player in human mitochondrial bioenergetics, but little is known about its catalytic capabilities or its nucleotide phosphoramidate prodrug (proTide)‐activating activity akin to the cytosolic isozyme hHINT1. Here, a similar substrate specificity profile (kcat/Km) for model phosphoramidate substrates was found for hHINT2 but with higher kcat and Km values when compared with hHINT1. A broader pH range for maximum catalytic activity was determined for hHINT2 (pK1 = 6.76 ± 0.16, pK2 = 8.41 ± 0.07). In addition, the known hHINT1‐microphthalmia‐inducing transcription factor‐regulating molecule Ap4A was found to have no detectable binding to HINT1 nor HINT2 by isothermal titration calorimetry. These results demonstrate that despite differences in their sequence and localization, HINT1 and HINT2 have similar nucleotide substrate specificities, which should be considered in future proTide design and in studies of their natural function. [ABSTRACT FROM AUTHOR]

Siderophore A (SidA) from Aspergillus fumigatus is a flavin‐containing monooxygenase that hydroxylates ornithine (Orn) at the amino group of the side chain. Lysine (Lys) also binds to the active site of SidA; however, hydroxylation is not efficient and H2O2 is the main product. The effect of pH on steady‐state kinetic parameters was measured and the results were consistent with Orn binding with the side chain amino group in the neutral form. From the pH dependence on flavin oxidation in the absence of Orn, a pKa value >9 was determined and assigned to the FAD‐N5 atom. In the presence of Orn, the pH dependence displayed a pKa value of 6.7 ±0.1 and of 7.70 ±0.10 in the presence of Lys. Q102 interacts with NADPH and, upon mutation to alanine, leads to destabilization of the C4a‐hydroperoxyflavin (FADOOH). Flavin oxidation with Q102A showed a pKa value of ~8.0. The data are consistent with the pKa of the FAD N5‐atom being modulated to a value >9 in the absence of Orn, which aids in the stabilization of FADOOH. Changes in the FAD‐N5 environment lead to a decrease in the pKa value, which facilitates elimination of H2O2 or H2O. These findings are supported by solvent kinetic isotope effect experiments, which show that proton transfer from the FAD N5‐atom is rate limiting in the absence of a substrate, however, is significantly less rate limiting in the presence of Orn and or Lys. [ABSTRACT FROM AUTHOR]

Phytases are phosphohydrolases that initiate the sequential hydrolysis of phosphate from phytate, which is the main storage form of phosphorous in numerous plant seeds, especially in cereals and grains. Phytate is indigestible for most monogastric animals, such as poultry, swine, fish, and humans; therefore, microbial phytases have been widely used in plant (specially soy)-based animal feeding to improve nutrition by enhanced phosphorus, mineral, and trace element absorption, and reducing phosphorus pollution by animal waste. Most phytases used as animal feed additives have an acid pH optimum (pH 2.5 and 5.5 for Aspergillus and pH 4.5 for E. coli phytases) and show a sharp decrease in performance at neutral pH, correlating with intestinal digestion. Directed evolution of phytases has been previously reported to improve enzyme thermostability, pH, or specific activity. In this manuscript, we report a directed evolution campaign of the highly active bacterial phytase from Yersinia mollaretii (YmPh) towards a broadened pH activity spectrum. Directed evolution identified the key positions T44 and K45 for increased YmPh activity at neutral pH. Both positions are located in the active site loop of the phytase and have a synergistic effect on activity with a broadened pH spectrum. Kinetic characterization of the improved variants, YmPh-M10 and -M16, showed up to sevenfold increased specific activity and up to 2.2-fold reduced Khalf at pH 6.6 under screening conditions compared to Yersinia mollaretii phytase wild type (YmPhWT). [ABSTRACT FROM AUTHOR]

[Display omitted] • Skin permeability is well predicted by liquid chromatography using a C18 column. • Three estimation methods based on PAMPA, HPLC and QSAR equations are compared. • All three estimation methods have similar prediction ability. • Skin-PAMPA permeability of ionic and neutral forms of a compound are not correlated. The skin permeation, K p , of a chemical compound is a relevant parameter in fields such as toxicology, exposure to pollutants, or dermal studies of pharmaceutical and cosmetic interest. Nonetheless, its experimental determination is not a trivial task, and for this reason alternative methods to estimate K p have been developed. This work evaluates the suitability of different methodologies to estimate skin permeation of neutral compounds. Three different approaches have been examined: estimation through the skin-PAMPA (Parallel Artificial Membrane Permeability Assay) permeability, P e , estimation through the chromatographic retention factor combined with molecular volume, and finally estimation through a quantitative structure–property relationship (QSPR) based on the octanol–water partition coefficient, log P o/w , and molecular volume as descriptors. The three approaches have been tested with the same set of compounds and it has been observed that all of them can be used to estimate K p with similar results, although the chromatographic method presents slightly improved statistics in addition to the facility of measurement. As many drugs are partially ionised at the pH of skin, the influence of pH in skin-PAMPA permeability has been also studied. To this end, the log P e vs. pH profiles of a set of 25 compounds of different nature have been determined. As expected, the permeation of neutral forms is higher than the one of ionic forms, and permeation of neutral and ionic species are not governed by the same mechanisms. [ABSTRACT FROM AUTHOR]

In this study, we used a brush border membrane (BBM) preparation from human small intestine to analyze the proportion and the activity of major intestinal disaccharidases, including sucrase-isomaltase (SI), maltase-glucoamylase (MGAM) and lactase-phlorizin hydrolase (LPH). SI, MGAM and LPH respectively constituted 8.2%, 2.7% and 1.4% of total BBM protein. The activity of SI and LPH decreased threefold after purification from the brush border membrane, which highlights the effect of membrane microdomains on the functional capacity of these enzymes. All of the disaccharidases showed optimal activity at pH 6, over 50% residual activity between pH 5 to pH 7, and increasing activity with rising temperatures up to 45 °C, along with a stable functional structure. Therefore the enzymes can withstand mild intraluminal pH alterations with adequate function, and are able to increase their activity with elevated core body temperature. Our data provide a functional measure for characterization of intestinal disaccharidases under different physiological and pathological conditions. [ABSTRACT FROM AUTHOR]

The CO mass transfer model associated with growth kinetics of microalgal biofilm in attached cultivation photobioreactor was developed and verified by using the analysis of pH profiles which were in equilibrium with inorganic carbon components concentrations (CO, HCO, HCO and CO ) in medium. Model simulation results showed that the model well presented the biofilm growth process. The overall volumetric mass transfer coefficient of CO was more influenced by CO concentration in aerated gas but less by gas aeration rate and medium circulation rate. Other bio-kinetic parameters related with the microalgal biofilm such as CO diffusion coefficient in biofilm, Monod maximum utilization rate of CO, lag phase duration of biofilm and half-saturation CO concentration in the biofilm were independent on operational conditions. The pH profiles provided a way to monitor the variations of inorganic carbon concentrations of medium and to regulate the cultivation of attached microalgal biofilm by CO supplement. [ABSTRACT FROM AUTHOR]

In majority of exposure environments for concrete structures, there is a high probability of the cyclic occurence of both chloride ingress and carbonation. This paper reports a detailed investigation on the influence of carbonation on both the ingress and distribution of chlorides in three different types of concretes, by comparing results from exposure to chlorides, chlorides before carbonation and chlorides after carbonation. Concretes studied were of 0.55 water-binder ratio with 100% Portland Cement (PC), 70% PC + 30% pulverized fuel ash (PFA) and 85% PC + 10% PFA + 5% microsilica (MS) as binders. Chloride profiles were compared to assess the effects of all variables studied in this research. The effect of carbonation was quantified by measuring the consumption of hydroxyl ions (OH − ), air permeability and chloride migration coefficient. The results indicated that carbonation of concrete increases chloride transport, but the precise nature of this is dependent on the combined regime as well as the type of binder. In general, it was found that carbonation of chloride contaminated concretes results in a decrease of their chloride binding capacity, that is it releases the bound Cl − in concretes and pushes chlorides inwards, as has been established previously by other researchers. However, it is established in this research that the combined regimes detrimentally affect the service life of concrete structures, particularly when chloride induced corrosion is a concern. [ABSTRACT FROM AUTHOR]

The use of acid-tolerant precipitated calcium carbonate fillers, including phosphoric acid/sodium hexametaphosphate modified precipitated CaCO3 filler, and sodium silicate/phosphoric acid/sodium hexametaphos-phate modified precipitated CaCO3 filler in papermaking of deinked pulp derived from recycled newspaper was explored. These two acid-tolerant fillers provided considerably more brightness improvement in papers in comparison the unmodified filler, presumably indicating alleviated pulp darkening achieved as a result of better acid-resistant properties. The addition of acid-tolerant fillers into the furnish slurries gave lower system pH as compared with unmodified filler. Among the three fillers used in this work, the effect on retention of modification of the filler with sodium silicate/phosphoric acid/sodium hexametaphosphate was probably the best, as evaluated from ash content measurements. For air permeability of the paper, the use of acid-tolerant fillers provided slightly more improvement in comparison to the unmodified filler. For tensile and burst strength of the paper, the use of sodium silicate/phosphoric acid/sodium hexameta-phosphate modified precipitated calcium carbonate filler gave better results as compared with the other two fillers. Additionally, the improving effect of acid-tolerant fillers on furnish static drainage was found to be slightly weaker than that of unmodified filler.

Na/H antiporters play important roles in ion and pH homeostasis. In this study, two NhaD homologues that effectively catalyze Na/H antiporter were identified from Halomonas sp. Y2, a halotolerant and alkaliphilic strain isolated from sodium enriched black liquor. They exhibited high sequence identity of 72 % and similar binding affinities for Na and Li translocation, while having different pH profiles. Ha-NhaD1 was active at pH 6.0 and most active at pH 8.0-8.5, whereas Ha-NhaD2 lacked activity at pH 6.0 but exhibited maximum activity at pH 9.5 or higher. Based on multiple alignments, 11 partially conserved residues were selected and corresponding mutants were generated for Ha-NhaD1. As expected, replacement of most of the hydrophobic residues abolished the cation exchange activities. Three serine residues at positions 200, 282 and 353 in Ha-NhaD1 were replaceable by alanines with partial retention of activity. The S353A mutant exhibited significantly reduced binding affinity for Na and Li, while S282 mutant exhibited an alkaline shift of about 1.5 pH units, as compared to the wild type Ha-NhaD1. Serine at position 282 was predicted to be located in transmembrane segment VIII and was found to be important in regulating pH sensitivity in concert with flanking residues. [ABSTRACT FROM AUTHOR]

As the relative performance of alkali activated slag (AAS) concretes in comparison to portland cement (PC) counterparts for chloride transport and resulting corrosion of steel bars is not clear, an investigation was carried out and the results are reported in this paper. The effect of alkali concentration and modulus of sodium silicate solution used in AAS was studied. Chloride transport and corrosion properties were assessed with the help of electrical resistivity, non-steady state chloride diffusivity, onset of corrosion, rate of corrosion and pore solution chemistry. It was found that: (i) although chloride content at surface was higher for the AAS concretes, they had lower chloride diffusivity than PC concrete; (ii) pore structure, ionic exchange and interaction effect of hydrates strongly influenced the chloride transport in the AAS concretes; (iii) steel corrosion resistance of the AAS concretes was comparable to that of PC concrete under intermittent chloride ponding regime, with the exception of 6 % NaO and Ms of 1.5; (iv) the corrosion behaviour of the AAS concretes was significantly influenced by ionic exchange, carbonation and sulphide concentration; (v) the increase of alkali concentration of the activator generally increased the resistance of AAS concretes to chloride transport and reduced its resulting corrosion, and a value of 1.5 was found to be an optimum modulus for the activator for improving the chloride transport and the corrosion resistance. [ABSTRACT FROM AUTHOR]

ABSTRACT The protonation states of the two active-site lysines (Lys69 and Lys235) of PBP 6 of Escherichia coli were explored to understand the active site chemistry of this enzyme. Each lysine was individually mutated to cysteine, and the resultant two mutant proteins were purified to homogeneity. Each protein was denatured, and its cysteine was chemically modified to produce an S-aminoethylated cysteine (γ-thialysine) residue. Following renaturation, the evaluation of the kinetics of the dd-carboxypeptidase activity of PBP 6 as a function of pH was found consistent with one lysine in its free-base (Lys69) and the other in the protonated state (Lys235) for optimal catalysis. The experimental estimates for their p Ka values were compared with the p Ka values calculated computationally, using molecular-dynamics simulations and a thermodynamic cycle. Study of the γ-thialysine69 showed that lysine at position 69 influenced the basic limb of catalysis, consistent with the fact that the two lysine side chains are in proximity to each other in the active site. Based on these observations, a reaction sequence for PBP 6 is proposed, wherein protonated Lys235 serves as the electrostatic substrate anchor and Lys69 as the conduit for protons in the course of the acylation and deacylation half-reactions. Proteins 2014; 82:1348-1358. © 2013 Wiley Periodicals, Inc. [ABSTRACT FROM AUTHOR]

This is the first study showing pH dependence of three distinct redox sites within bilirubin oxidase (BOD) adsorbed on a nanocomposite modified electrode. The 1st redox centre with the highest redox potential Ec(1st) =404mV vs. Ag/AgCl (614mV vs. NHE at pH7.0) exhibited pH dependence with a slope -dEc(1st)/dpH=66(±3) mV under a non-turnover process. The 2nd redox centre with a potential Ec(2nd) =228mV vs. Ag/AgCl (438mV vs. NHE at pH7.0) was not dependent on pH in the absence and presence of O2. Finally, the 3rd redox site with a redox potential Ec(3rd) =92mV vs. Ag/AgCl (302mV vs. NHE at pH7.0) exhibited pH dependence for a cathodic process with -dEc(3rd)/dpH=70(±6) mV and for anodic process with -dEa(3rd)/dpH=73(±2) mV, respectively. Moreover, two break points for dependence of Ec(1st) or Ec(3rd) on pH were observed for the 1st (T1) site and the 3rd site assigned to involvement of two acidic amino acids (Asp105 and Glu463). A diagram of a potential difference between cathodic peaks of BOD as a dependence on pH is shown. The results obtained can be of interest for construction of biofuel cells based on BOD such as for generation of a low level of electricity from body fluids. [ABSTRACT FROM AUTHOR]

Highlights: [•] The RIL activity at low pH value is controlled by an ionizable residue present in its active site. [•] DEPC derivatization of accessible His of RlL affect the kinetic behavior of RlL with pH and ionic strength. [•] Main role of His-457 in the control of the catalytic activity of laccase from Rigidoporus lignosus. [Copyright &y& Elsevier]

Background and Aims: The effect of the cystic fibrosis transmembrane conductance regulator protein (CFTR) defect in pancreatic insufficient (PI) patients with cystic fibrosis (CF) on the gastrointestinal pH profile is poorly defined. Adequate and efficient neutralization of the gastric acidity in the duodenum is important for nutrient absorption and timely release of pancreatic enzyme replacement therapy (PERT). We utilized a wireless motility capsule (WMC) to study intestinal pH profile and gastrointestinal transit profile in CF subjects. Methods: WMC studies were done on ten adult CF patients with PI while off acid suppression medication and ten age, gender and BMI matched healthy controls. Mean pH over 1 min increments and area under the pH curve over 5 min increments was calculated for the first hour post gastric emptying. Paired t-test was used to compare means of the pH recordings, transit profiles and analysis of time interval required to reach and maintain pH >5.5 and 6.0. Results: A statistically significant difference was observed between mean pH values during the first 23 min of small bowel transit ( p < 0.05). In CF subjects, there was a significant delay in time interval required to reach and sustain pH 5.5 and pH 6.0 ( p < 0.001), which is required for PERT dissolution. Only small bowel transit in CF subjects was noted to be significantly delayed ( p = 0.004) without a compensatory increase in whole gut transit time. Conclusions: We have demonstrated a significant delay in the small intestinal transit and a deficient buffering capacity required to neutralize gastric acid in the proximal small bowel of patients with CF. [ABSTRACT FROM AUTHOR]

Eight genes encoding cellulolytic enzymes were obtained by direct PCR amplification of genomic DNA recovered from woodland soil samples. The direct amplifications were carried out by using primers designed from available online cellulase nucleotide sequences. The isolated genes were all different from each other and homologous to endo-β-1,4-glucanases of Bacillus subtilis. The cellulases were functionally expressed in Escherichia coli and tested on soluble substrate at 37 and 60 °C, showing different cellulolytic activities. Among these, the enzyme renamed CelWS6 exhibited good activity at higher temperatures. Further analysis of CelWS6 showed a high performance in acid environments (between pH 4.0 and 6.0) and at elevated temperatures with its maximum activity at pH 5.0 and 50 °C. At the optimum pH, it was very stable since more than 80 % of its original activity was maintained after an incubation of 120 min at 60 °C. Because the cellulases had different cellulolytic activities, but similar amino acid sequences, it was possible to assess the relationship between sequence and protein function. [ABSTRACT FROM AUTHOR]

Mining of soil sample from cold desert of Ladakh by functional metagenomics led to the isolation of cold-adapted endocellulase (CEL8M) that hydrolyses carboxymethyl cellulose (CMC). Mature CEL8M, a 347-residue polypeptide with a molecular mass of 38.9 kDa showed similarity to β-1,3-1,4 d-glucanase from Klebsiella sp. The enzyme contains the catalytic module of glycosyl hydrolase family 8 but does not possess a carbohydrate-binding domain. 3D structural model of the enzyme built by homology modeling showed an architecture of (α/α)-barrel fold. The purified enzyme was found to be active against CMC, xylan, colloidal chitosan and lichenan but not active against avicel. Glucose was not among the initial hydrolysis products, indicating an endo mode of action. CEL8M displayed maximal activity at pH 4.5 and remained significantly active (~28 %) when the temperature decreased to 10 °C. Cold-active endocellulase CEL8M may find applications in textile industry at low temperature which can result in energy savings. [ABSTRACT FROM AUTHOR]

Activities of ion pumps and H-conducting channels in the plasmalemma of illuminated characean algae are distributed inhomogeneously along the internode, which accounts for the shifts of surface pH up to 3.5 units between various cells regions. Spatial variations in cytoplasmic properties provide the basis for uneven distribution of photosynthetic activity along the cell length and might affect the operation of H-transporting systems at the tonoplast. In order to visualize the longitudinal distribution of the vacuolar pH in Chara corallina internodal cells, the pH microelectrode was inserted into the vacuole and the cell sap was gradually displaced along the cell during intracellular perfusion with an artificial medium. Fluorescein was added to the perfusion medium as a fluorescent marker to detect the arrival of the replacing medium into the area of pH and fluorescence measurements. In light-adapted cells, nonuniform longitudinal pH profiles were observed, with pH shifts as large as 2-2.5 units. In dark-adapted cells, the pH shifts in longitudinal profiles did not exceed 0.5 pH units. The occurrence of large pH changes within the vacuole of individual internodes indicates the possibility of nonuniform distribution of the tonoplast H-transporting systems in different regions of the illuminated cell. [ABSTRACT FROM AUTHOR]

Stereotypical changes in pH occur along the gastrointestinal (01) tract. Classically, there is an abrupt increase in pH on exit from the stomach, followed later by a sharp fall in pH, attributed to passage through the ileocecal region. However, the precise location of this latter pH change has never been conclusively substantiated. We aimed to determine the site of fall in pH using a dual-scintigraphic technique. On day 1, 13 healthy subjects underwent nasal intubation with a 3-m-long catheter, which was allowed to progress to the distal ileum. On day 2, subjects ingested a pH-sensitive wireless motility capsule labeled with 4 MBq 51Chromium [EDTA]. The course of this, as it travelled through the 01 tract, was assessed with a single-headed γ-camera using static and dynamic scans. Capsule progression was plotted relative to a background of 4 MBq 111Indium [diethylenetriamine penta-acetic acid] administered through the catheter. Intraluminal pH, as recorded by the capsule, was monitored continuously, and position of the capsule relative to pH was established. A sharp fall in pH was recorded in all subjects; position of the capsule relative to this was accurately determined anatomically in 9/13 subjects. In these nine subjects, a pH drop of 1.5 ± 0.2 U, from 7.6 ± 0.05 to 6.1 ± 0.1 occurred a median of 7.5 mm (1-16) after passage through the ileocecal valve; location was either in the cecum (n = 5), ascending colon (n = 2), or coincident with a move from the cecum to ascending colon (n = 2). This study provides conclusive evidence that the fall in pH seen within the ileocolonic region actually occurs in the proximal colon. This phenomenon can be used as a biomarker of transition between the small and large bowel and validates assessment of regional GI motility using capsule technology that incorporates pH measurement. [ABSTRACT FROM AUTHOR]

Bacillus sp. GHA1 was isolated from water samples and screened for the production of α-amylase. Maximum production of amylase by this strain occurs at 42 °C, pH 6.5 and 72 h after cultivation in production medium. The enzyme was purified through successive applications of ammonium sulfate precipitation, ion exchange and hydrophobic interaction chromatography, resulting in a single band with an apparent molecular weight of 66 kDa, as judged by SDS-PAGE. Calcium analysis of the purified enzymerevealed that it contained three metal ions per molecule. The new extracellular α-amylase is active in a wide range of pH with its maximum activity at pH values 5.5-8.0. The optimum temperature for enzyme activity is 57 ° C and the presence of calcium has relatively low influence on its activity and thermostability. The Bacillus sp. GHA1 a-amylase with these properties may be suitable for use in detergent and food industries. [ABSTRACT FROM AUTHOR]

Online foam separation was proposed to recover nisin during fermentation of Lactococcus lactis subsp. lactis ATCC 11454. Firstly, the optimal pH profile of nisin fermentation was investigated including different realkalization set values and pH drop gradients. Then the selected pH profiles of 5.75 ± 0.05 and 6.25–5.75 (±0.02) were used to perform nisin fermentation coupling with foam separation. The results showed that pH profile of 5.75 ± 0.05 was better than that of 6.25–5.75 (±0.02) for online foam separation. With the optimal pH profile, an aeration of 20 ml min−1 that started at 8 h of incubation and lasted for 2 h resulted in 6.6 times higher specific productivity than that of the fermentation without aeration. Nisin synthesis was therefore prolonged with low sucrose concentration in the culture broth, which indicated that the feedback inhibition of nisin is more influential than the substrate limitation of sucrose in the late phase of nisin fermentation. Total nisin production (4,870 ± 180 IU ml−1) was increased by 30.3% with online foam separation. This effective online recovery method for nisin production could be easily scaled up due to the facile operation of foaming process. [ABSTRACT FROM AUTHOR]

Abstract: The Chromatographic Hydrophobicity Index (CHI) has been measured for several diprotic compounds. In order to model the variation of CHI with pH, a general equation for polyprotic compounds which allows the calculation of CHI for each one of the species has been proposed. Different types of diprotic solutes have been selected: neutral acids, neutral bases, and amphiprotic compounds (non-zwitterionic and zwitterionic). The applicability of the model to these complex polyprotic compounds, its advantages and limitations, as well as the information provided by the fits is discussed. In general, the model fits the experimental behaviour of all kind of solutes very well, obtaining the higher hydrophobicity values for the neutral form of the compounds, except for the zwitterionic phenylalanine. The equation and parameters obtained allow an easy calculation of CHI of the compound at any pH value. [Copyright &y& Elsevier]

Abstract: Benzaldehyde lyase from Pseudomonas fluorescens (BAL, EC 4.1.2.38) is a versatile catalyst for stereoselective carboligations. Nevertheless, rather inconsistent data about its biochemical properties are reported in literature. In this study, the dependency of BAL activity on ionic strength, pH, and concentration of DMSO was for the first time systematically investigated and interpreted. It was found that the activity of BAL strongly depends on all three parameters, and a correlation exists between the dependency on pH and DMSO concentration. This correlation could be explained by an interaction of DMSO with an ionic amino acid in the catalytic site. A model-based analysis indicated that the pKa of this residue shifts to the alkaline milieu upon addition of DMSO. Consequently, the optimum pH also shifts to alkaline values when DMSO is present. Potentiometric experiments confirmed that the pKa can most probably be attributed to Glu50 which governs the activity increase of BAL on the acidic limb of its pH-activity profile. With these findings, the apparently contradicting data from literature become comprehensible and optimal reaction conditions for synthesis can easily be deduced. [Copyright &y& Elsevier]

Abstract: The flavin-dependent pyranose 2-oxidase catalyzes the oxidation of d-glucose and other pyranoses at the C2 atom to yield 2-keto-sugars and hydrogen peroxide. Here, the steady-state kinetic mechanism of the enzyme from Trametes ochracea was investigated as a function of pH. Our findings show that the enzyme follows a bi-bi ping-pong kinetic mechanism at pH values <7.0, and a bi-bi ordered mechanism at pH values >7.0. Thus, at low pH the reactivity of the reduced enzyme with oxygen is controlled a by a conformational change of the enzyme that is associated with the release of the 2-keto-sugar from the active site of the enzyme. In contrast, at high pH the reduced enzyme–product complex permits the reaction of oxygen with the flavin. The study also illustrates that caution should be exerted in extrapolating the conclusions drawn on steady-state kinetic mechanisms established at a single pH value to other pH’s in flavoprotein oxidases. [Copyright &y& Elsevier]

The objectives of this study were to prepare and evaluate a novel sustained release tablet formulation using a binary mixture of polymethacrylate polymers: Eudragit E-100 (EE) and Eudragit L-100 (EL) in their salt forms. Tablets prepared using EE-citrate and EL-Na showed the highest degree of swelling among other combinations of EE and EL. The drug release rates were independent of the pH of the dissolution medium as the release profiles exhibited a continuous release pattern with no burst effect when changing the pH of the medium. These results, along with other test results, indicated the presence of an ionic interaction between both polymers when combined in the salt forms. [ABSTRACT FROM AUTHOR]

Abstract: This paper discusses Excel applications related to the prediction of drug absorbability from physicochemical constants. PHDISSOC provides a generalized model for pH profiles of electrolytic dissociation, water solubility, and partition coefficient. SKMODEL predicts drug absorbability, based on a log–log plot of water solubility and O/W partitioning; augmented by additional features such as electrolytic dissociation, melting point, and the dose administered. GIABS presents a mechanistic model of g.i. drug absorption. BIODATCO presents a database compiling relevant drug data to be used for quantitative predictions. [Copyright &y& Elsevier]

Objectives/Hypothesis: Exposure of laryngeal epithelia to pepsin during extra-esophageal reflux causes depletion of laryngeal protective proteins, carbonic anhydrase isoenzyme III (CAIII), and squamous epithelial stress protein Sep70. The first objective of this study was to determine whether pepsin has to be enzymatically active to deplete these proteins. The second objective was to investigate the effect of pH on the activity and stability of human pepsin 3b under conditions that might be found in the human esophagus and larynx. Study Design: Prospective translational research study. Methods: An established porcine in vitro model was used to examine the effect of active/inactive pepsin on laryngeal CAIII and Sep70 protein levels. The activity and stability of pepsin was determined by kinetic assay, measuring the rate of hydrolysis of a synthetic pepsin specific substrate after incubation at various pH values for increasing duration. Results: Active pepsin is required to deplete laryngeal CAIII and Sep70. Pepsin has maximum activity at pH 2.0 and is inactive at pH 6.5 or higher. Although pepsin is inactive at pH 6.5 and above, it remains stable until pH 8.0 and can be reactivated when the pH is reduced. Pepsin is stable for at least 24 hours at pH 7.0, 37°C and retains 79% ± 11% of its original activity after re-acidification at pH 3.0. Conclusions: Detectable levels of pepsin remain in laryngeal epithelia after a reflux event. Pepsin bound there would be enzymatically inactive because the mean pH of the laryngopharynx is pH 6.8. Significantly, pepsin could remain in a form that would be reactivated by a subsequent decrease in pH, such as would occur during an acidic reflux event or possibly after uptake into intracellular compartments of lower pH. [ABSTRACT FROM AUTHOR]

Abstract: Metagenomes of uncultured microorganisms represent a sheer unlimited resource for discovery of novel biocatalysts. Here, we report on the biochemical characterisation of a novel, soil metagenome-derived cellulase (endoglucanase), Cel5A. The deduced amino acid sequence of Cel5A was similar to a family 5, single domain cellulase with no distinct cellulose binding domain from Cellvibrio mixtus. The 1092bp ORF encoding Cel5A was overexpressed in Escherichia coli and the corresponding 42.1kDa protein purified using three-step chromatography. The recombinant Cel5A protein was highly active against soluble cellulose substrates containing β-1,4 linkages, such as lichenan and barley β-glucan, and not active against insoluble cellulose. Glucose was not among the initial hydrolysis products, indicating an endo mode of action. Cel5A displayed a wide range of pH activity with a maximum at pH 6.5 and at least 60% activity at pH 5.5 and 9.0. The enzyme was highly stable at 40°C for up to 11 days, and retained 86–87% activity after incubation with 3M NaCl, 3M RbCl or 4M KCl for 20h. Cel5A was also active in the presence of diverse divalent cations, detergents and EDTA. This highly stable, salt and pH tolerant cellulase is an ideal candidate for industrial applications. [Copyright &y& Elsevier]

Abstract: Glycosyltransferases are key enzymes in glycoconjugate biosynthesis, which make them important targets for biomedical research. Among the different methodologies developed to analyze glycosyltransferase activities, fluorophore-assisted capillary electrophoresis (FACE) emerges as a powerful technique in carbohydrate analysis. Its application to monitor glycosyltransferase activity has been limited to reactions with derivatized sugars as acceptor substrates in which a charged fluorophore/chromophore must be introduced, thus requiring tedious preparative synthesis and purification for each single acceptor substrate. Here we describe a novel and general glycosyltransferase assay based on FACE using underivatized acceptor substrates. Enzyme activity is monitored by a discontinuous assay with postreaction derivatization by reductive amination with 8-aminonaphthalene-1,3,6-trisulfonic acid. The reaction mixture is directly analyzed by HPCE (high-performance capillary electrophoresis) under inverted electroosmotic conditions at pH 2.5 and 30°C. After method validation, it was applied to the kinetic characterization of an α-1,3-galactosyltransferase, the enzyme responsible for the biosynthesis of αGal epitope involved in the hyperacute rejection in xenotransplantation. The absence of a label on the acceptor during the GT reaction avoids any interference of the label with the enzyme, and the postreaction derivatization does not require any purification step. [Copyright &y& Elsevier]

Abstract: Bacillus sp. KR-8104 was selected from a set of 18 bacteria strains isolated from soil samples and screened for production of amylase. The maximum productivity obtained at pH 5–6 and 60–65h after cultivation in production medium. New extracellular Ca-independent α-amylase was highly purified using ion exchange and hydrophobic interaction chromatography, which showed a single band with an apparent molecular weight of 59kDa by SDS-PAGE. This enzyme is active in a wide pH range with its maximum activity at low pH values (4.0–6.0) and has the 90% of its maximum activity at pH 3.5. The α-amylase is optimally active at 75–80°C. The presence or absence of Ca2+ and EDTA did not affect enzyme activity and thermal stability. [Copyright &y& Elsevier]

Recently the crystal structure of creatine kinase from Torpedocalifornica was determined to 2.1 Å. The dimeric structure revealed two different forms in the unit cell: one monomer was bound to a substrate, MgADP, and the other monomer was bound to a transition-state analogue complex composed of MgADP, nitrate and creatine. The most striking difference between the structures is the movement of two loops (comprising residues 60?–?70 and residues 323?–?333) into the active site in the transition state structure. This loop movement effectively occludes the active site from solvent, and the loops appear to be locked into place by a salt bridge formed between His66 and Asp326. His66 is of particular interest as it is located within a PGHP motif conserved in all creatine kinases but not found in other guanidino kinases. We have carried out alanine-scanning mutagenesis of each of the residues in the PGHP motif and determined that only the His66 plays a significant role in the creatine kinase reaction. Although neither residue interacts directly with the substrate, the interaction His66 and Asp326 appears to be important in providing the precise alignment of substrates necessary for phosphoryl group transfer. Finally, it is clear that neither His66 nor Asp326 are responsible for the pKs observed in the pH-rate profile for HMCK. IUBMB Life, 57: 355–362, 2005 [ABSTRACT FROM AUTHOR]

Crystal structures of C-terminal despentapeptide nitrite reductase (NiRc-5) from Achromobacter cycloclastes were determined from 1.9 to 2.3 A˚ at pH 5.0, 5.4, and 6.2. NiRc-5, that has lost about 30% activity, is found to possess quite similar trimeric structures as the native enzyme. Electron density and copper content measurements indicate that the activity loss is not caused by the release of type 2 copper (T2Cu). pH-profile structural comparisons with native enzyme reveal that the T2Cu active center in NiRc-5 is perturbed, accounting for the partial loss of enzyme activity. This perturbation likely results from the less constrained conformations of two catalytic residues, Asp98 and His255. Hydrogen bonding analysis shows that the deletion of five residues causes a loss of more than half the intersubunit hydrogen bonds mediated by C-terminal tail. This study shows that the C-terminal tail plays an important role in controlling the conformations around the T2Cu site at the subunit interface, and helps keep the optimum microenvironment of active center for the full enzyme activity of AcNiR. [Copyright &y& Elsevier]

Arylmalonate decarboxylase (EC. 4.1.1.76, originated from Alcaligenes bronchisepticus KU 1201) is an enzyme which catalyzes asymmetric decarboxylation of arylmalonate. We have once proposed the intermediary formation of a thiol ester between the substrate and the enzyme based on the inhibition studies with α-bromophenylacetate. We misinterpreted the binding mode of this acid as formation of thiol ester and estimated that the substrate also bound to the enzyme in the same manner. However, reinvestigation indicated that the mode of inhibition by this acid is irreversible, different from the previous conclusion. Accordingly the above mechanism became very unlikely. Instead, we would like to propose that Cys 188 is working as a proton donor on the basis of following evidence. The pH-rate of reaction profiles of the native and C188S mutant enzyme greatly differed in alkaline region. This is estimated to come from the difference in pKa values of Cys and Ser, and suggested that Cys 188 is a proton donor. Homology alignment showed that this enzyme has some homology with glutamete racemase and some other isomerases. The presence of Cys 188 is conserved to all these enzymes as well as to AMDase. The role of this amino acid residue in glutamate racemase has been established to interchange a proton between the substrate. This fact also supports that Cys 188 of AMDase is working as a proton donor to form the asymmetric center of the product. [Copyright &y& Elsevier]

The FAD-dependent choline oxidase catalyzes the four-electron oxidation of choline to glycine-betaine, with betaine-aldehyde as intermediate. The enzyme is capable of accepting either choline or betaine-aldehyde as a substrate, allowing the investigation of the reaction mechanism for both the conversion of choline to betaine-aldehyde and of betaine-aldehyde to glycine-betaine. In the present study, pH and deuterium kinetic isotope effects with [1,2-2H4]-choline were used to study the mechanism of oxidation of choline to betaine-aldehyde. The V/K and Vmax pH-profiles increased to limiting values with increasing pH, suggesting the presence of a catalytic base essential for catalysis at the enzyme active site. From the V/K pH-profile with [1,2-2H4]-choline, a pKa of 8.0 was determined for the catalytic base. This pKa was shifted to 7.5 in the V/K pH-profile with choline, indicating a significant commitment to catalysis with this substrate. In agreement with this conclusion, the D(V/K) values decreased from a limiting value of 12.4 below pH 6.5 to a limiting value of 4.1 above pH 9.5. The large D(V/K) values at low pH are consistent with carbon–hydrogen bond cleavage of choline being nearly irreversible and fully rate-limiting at low pH. Based on comparison of amino acid sequences and previous structural and mechanistic studies on other members of the GMC oxidoreductase superfamily, the identity of the catalytic base of choline oxidase is proposed. [Copyright &y& Elsevier]