Biochemical and structural characterization of a novel cold-active esterase-like protein from the psychrophilic yeast Glaciozyma antarctica

Dienelactone hydrolase, an α/β hydrolase enzyme, catalyzes the hydrolysis of dienelactone to maleylacetate, an intermediate for the Krebs cycle. Genome sequencing of the psychrophilic yeast, Glaciozyma antarctica predicted a putative open reading frame (ORF) for dienelactone hydrolase (GaDlh) with 52% sequence similarity to that from Coniophora puteana. Phylogenetic tree analysis showed that GaDlh is closely related to other reported dienelactone hydrolases, and distantly related to other α/β hydrolases. Structural prediction using MODELLER 9.14 showed that GaDlh has the same α/β hydrolase fold as other dienelactone hydrolases and esterase/lipase enzymes, with a catalytic triad consisting of Cys–His–Asp and a G–x–C–x–G–G motif. Based on the predicted structure, GaDlh exhibits several characteristics of cold-adapted proteins such as glycine clustering in the binding pocket, reduced protein core hydrophobicity, and the absence of proline residues in loops. The putative ORF was amplified, cloned, and overexpressed in an Escherichia coli expression system. The recombinant protein was overexpressed as soluble proteins and was purified via Ni–NTA affinity chromatography. Biochemical characterization of GaDlh revealed that it has an optimal temperature at 10 °C and that it retained almost 90% of its residual activity when incubated for 90 min at 10 °C. The optimal pH was at pH 8.0 and it was stable between pH 5–9 when incubated for 60 min (more than 50% residual activity). Its K_m value was 256 μM and its catalytic efficiency was 81.7 s⁻¹. To our knowledge, this is the first report describing a novel cold-active dienelactone hydrolase-like protein.

     

Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings

The effects of divalent Mg(2+) on the conformation and dynamics of the stem-loop transactivation response element (TAR) RNA from HIV-1 have been characterized using NMR residual dipolar couplings (RDCs). Order matrix analysis of one bond 13C-1H RDCs measured in TAR at [Mg(2+)]:[TAR] stoichiometric ratios of approximately 3:1 (TAR(3.0Mg)) and approximately 4.5:1 (TAR(4.5Mg)) revealed that Mg(2+) reduces the average inter-helical angle from 47(+/-5) degrees in TAR(free) to 5(+/-7) degrees in TAR(4.5Mg). In contrast to the TAR(free) state, the generalized degree of order for the two stems in TAR(4.5Mg) is found to be identical within experimental uncertainty, indicating that binding of Mg(2+) leads to an arrest of inter-helical motions in TAR(free). Results demonstrate that RDC-NMR methodology can provide new insight into the effects of Mg(2+) on both the conformation and dynamics of RNA.     

TCR Peptide Therapy in Human Autoimmune Diseases

Inflammatory Th1 cells reacting to tissue/myelin derived antigens likely contribute to the pathogenesis of diseases such as multiple sclerosis (MS), rheumatoid arthritis (RA), and psoriasis. One regulatory mechanism that may be useful for treating autoimmune diseases involves an innate second set of Th2 cells specific for portions of the T cell receptor of clonally expanded pathogenic Th1 cells. These Th2 cells are programmed to respond to internally modified V region peptides from the T cell receptor (TCR) that are expressed on the Th1 cell surface in association with major histocompatibility molecules. Once the regulatory Th2 cells are specifically activated, they may inhibit inflammatory Th1 cells through a non-specific bystander mechanism. A variety of strategies have been used by us to identify candidate disease-associated TCR V genes present on pathogenic Th1 cells, including BV5S2, BV6S5, and BV13S1 in MS, BV3, BV14, and BV17 in RA, and BV3 and BV13S1 in psoriasis. TCR peptides corresponding to the mid region of these BV genes were found to be consistently immunogenic in vivo when administered either i.d. in saline or i.m. in incomplete Freund's adjuvant (IFA). In MS patients, repeated injection of low doses of peptides (100-300 g) significantly boosted the number of TCR-reactive Th2 cells. These activated cells secreted cytokines, including IL-10, that are known to inhibit inflammatory Th1 cells. Cytokine release could also be induced in TCR-reactive Th2 cells by direct cell-cell contact with Th1 cells expressing the target V gene. These findings indicate the potential of regulatory Th2 cells to inhibit not only the target Th1 cells, but also bystander Th1 cells expressing different V genes specific for other autoantigens. TCR peptide vaccines have been used in our studies to treat a total of 171 MS patients (6 trials), 484 RA patients (7 trials), and 177 psoriasis patients (2 trials). Based on this experience in 824 patients with autoimmune diseases, TCR peptide vaccination is safe and well tolerated, and can produce significant clinical improvement in a subset of patients that respond to immunization. TCR peptide vaccination represents a promising approach that is well-suited for treating complex autoimmune diseases.     

Volume overload cardiac hypertrophy exhibits decreased expression of g(s)alpha and not of g(i)alpha in heart

We haverecently reported enhanced levels of G_i proteins ingenetic and other experimentally induced models of hypertension, whereas the levels of G_s were decreased in hypertensiverats expressing cardiac hypertrophy. The present studies wereundertaken to investigate whether the decreased levels ofG_s are associated with cardiac hypertrophy per se andused an aortocaval fistula (AV shunt; volume overload) rat model thatexclusively expresses cardiac hypertrophy. Cardiac hypertrophy inSprague-Dawley rats (200-250 g) was induced under anesthesia, and,after a period of 10 days, the hearts were used for adenylyl cyclaseactivity determination, protein quantification, and mRNA leveldetermination. A temporal relationship between the expression ofG_s proteins and cardiac hypertrophy was also examined ondays 2, 3, 7, and 10 after induction of AV shuntin the rat. The heart-to-body-weight ratio (mg/g) was significantlyincreased in AV shunt rats after 3, 7, and 10 days of induction of AVshunt compared with sham-operated controls, whereas arterial bloodpressure was not different between the two groups. Guanosine5'-O-(3-thiotriphosphate) (GTPS) stimulated adenylylcyclase activity in a concentration-dependent manner in heart membranesfrom both groups; however, the degree of stimulation was significantlydecreased in AV shunt rats. In addition, the stimulatory effects ofisoproterenol were also diminished in AV shunt rats compared withcontrol rats, whereas glucagon-stimulated adenylyl cyclase activity wasnot different in the two groups. The inhibitory effects of oxotremorine(receptor-dependent G_i functions) and low concentrations ofGTPS on forskolin-stimulated adenylyl cyclase activity(receptor-independent G_i functions) were not different inthe two groups. In addition forskolin and NaF also stimulated adenylylcyclase activity to a lesser degree in AV shunt rats compared withcontrol rats. The levels of G_i-2 and G_i-3proteins and mRNA, as determined by immunoblotting and Northernblotting, respectively, were not different in both groups; however, thelevels of G_s45 andG_s47, and not ofG_s52, proteins were significantly decreasedin AV shunt rats by days 7 and 10 compared withcontrol rats, whereas no change was observed on days 2 and3 after induction of AV shunt. These results suggest thatthe decreased expression of G_s proteins may not be thecause but the effect of hypertrophy and that the diminishedresponsiveness of adenylyl cyclase to GTPS, isoproterenol, NaF, andforskolin in hearts from AV shunt rats may partly be due to thedecreased expression of G_s. It can be concluded fromthese studies that the decreased expression of G_s may beassociated with cardiac hypertrophy and not with arterial hypertension.

     

Identification of overweight in children in the United States: a simplified approach

The objective of this study was to develop a screening instrument for easy identification of overweight in children and adolescents in the United States. Data derived from the 2000 Growth Charts published by the Centers for Disease Control and Prevention (CDC) were utilized to compute gender-specific screening values for identification of overweight in children and adolescents. Computations were based on age- and gender-specific 85th percentile BMI calculated for the various height percentiles at 6-month age intervals. The simplified approach for identification of overweight in children and adolescents consisted of two tables, one each for males and females. Each table described the screening values for overweight at 6-month age intervals for all the nine height percentiles described in the CDC Stature for Age Tables. Two screening tables for identification of obesity were also developed in a similar manner using age- and gender-specific 95th percentile BMI. The simplified approach described for identification of overweight uses only the child's height and weight measurements and obviates the need to compute BMI or assess BMI percentile scores.     

Lentivirus vector driven by polybiquitin C promoter without woodchuck posttranscriptional regulatory element and central polypurine tract generates low level and short-lived reporter gene expression

Hereditary myopathy with lactic acidosis (HML) (OMIM #255125) presents in childhood with exercise intolerance and muscle pain on trivial exercise, lactic acidosis, dyspnoea, palpitations, and rhabdomyolysis which can be fatal. The disease is recessively inherited and caused by a deep intronic, single base transition in the iron-sulfur cluster scaffold, ISCU gene that causes retention of a pseudoexon and introduction of a premature termination codon. IscU protein deficiency causes secondary defects in several iron-sulfur dependant proteins, including enzymes involved in aerobic energy metabolism. We have shown in a previous study that the splice abnormality affects skeletal muscle more than other tissues, leading to the purely muscular phenotype.Antisense oligonucleotides (AOs) have been able to redirect mRNA splicing in a number of disease models, and show promise in clinical studies. We designed 2′O-methyl phosphorothioate AOs targeting either splice site of the detrimental HML pseudoexon. The acceptor site AO effectively redirected splicing towards the normal state in cultured muscle fibroblasts, whilst the donor site AO promoted pseudoexon inclusion in both patient and control cells. Our results show that AO therapy seems feasible in HML, but care must be taken to avoid adverse splicing effects.     

Impact of static and dynamic A-form heterogeneity on the determination of RNA global structural dynamics using NMR residual dipolar couplings

We examined how static and dynamic deviations from the idealized A-form helix propagate into errors in the principal order tensor parameters determined using residual dipolar couplings (rdcs). A 20-ns molecular dynamics (MD) simulation of the HIV-1 transactivation response element (TAR) RNA together with a survey of spin relaxation studies of RNA dynamics reveals that pico-to-nanosecond local motions in non-terminal Watson-Crick base-pairs will uniformly attenuate base and sugar one bond rdcs by approximately 7%. Gaussian distributions were generated for base and sugar torsion angles through statistical comparison of 40 RNA X-ray structures solved to <3.0 A resolution. For a typical number (>or=11) of one bond C-H base and sugar rdcs, these structural deviations together with rdc uncertainty (1.5 Hz) lead to average errors in the magnitude and orientation of the principal axis of order that are <9% and <4 degrees, respectively. The errors decrease to <5% and <4 degrees for >or=17 rdcs. A protocol that allows for estimation of error in A-form order tensors due to both angular deviations and rdc uncertainty (Aform-RDC) is validated using theoretical simulations and used to analyze rdcs measured previously in TAR in the free state and bound to four distinct ligands. Results confirm earlier findings that the two TAR helices undergo large changes in both their mean relative orientation and dynamics upon binding to different targets.