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131.
ATP is an important modulator of gating in type 1 ryanodine receptor (RyR1), also known as a Ca2+ release channel in skeletal muscle cells. The activating effect of ATP on this channel is achieved by directly binding to one or more sites on the RyR1 protein. However, the number and location of these sites have yet to be determined. To identify the ATP-binding regions within RyR1 we used 2N3ATP-2′,3′-Biotin-LC-Hydrazone (BioATP-HDZ), a photo-reactive ATP analog to covalently label the channel. We found that BioATP-HDZ binds RyR1 specifically with an IC50 = 0.6±0.2 mM, comparable with the reported EC50 for activation of RyR1 with ATP. Controlled proteolysis of labeled RyR1 followed by sequence analysis revealed three fragments with apparent molecular masses of 95, 45 and 70 kDa that were crosslinked by BioATP-HDZ and identified as RyR1 sequences. Our analysis identified four glycine-rich consensus motifs that can potentially constitute ATP-binding sites and are located within the N-terminal 95-kDa fragment. These putative nucleotide-binding sequences include amino acids 699–704, 701–706, 1081–1084 and 1195–1200, which are conserved among the three RyR isoforms. Located next to the N-terminal disease hotspot region in RyR1, these sequences may communicate the effects of ATP-binding to channel function by tuning conformational motions within the neighboring cytoplasmic regulatory domains. Two other labeled fragments lack ATP-binding consensus motifs and may form non-canonical ATP-binding sites. Based on domain topology in the 3D structure of RyR1 it is also conceivable that the identified ATP-binding regions, despite their wide separation in the primary sequence, may actually constitute the same non-contiguous ATP-binding pocket within the channel tetramer. 相似文献
132.
Bocharova OV Breydo L Salnikov VV Gill AC Baskakov IV 《Protein science : a publication of the Protein Society》2005,14(5):1222-1232
In recent studies, the amyloid form of recombinant prion protein (PrP) encompassing residues 89-230 (rPrP 89-230) produced in vitro induced transmissible prion disease in mice. These studies showed that unlike "classical" PrP(Sc) produced in vivo, the amyloid fibrils generated in vitro were more proteinase-K sensitive. Here we demonstrate that the amyloid form contains a proteinase K-resistant core composed only of residues 152/153-230 and 162-230. The PK-resistant fragments of the amyloid form are similar to those observed upon PK digestion of a minor subpopulation of PrP(Sc) recently identified in patients with sporadic Creutzfeldt-Jakob disease (CJD). Remarkably, this core is sufficient for self-propagating activity in vitro and preserves a beta-sheet-rich fibrillar structure. Full-length recombinant PrP 23-230, however, generates two subpopulations of amyloid in vitro: One is similar to the minor subpopulation of PrP(Sc), and the other to classical PrP(Sc). Since no cellular factors or templates were used for generation of the amyloid fibrils in vitro, we speculate that formation of the subpopulation of PrP(Sc) with a short PK-resistant C-terminal region reflects an intrinsic property of PrP rather than the influence of cellular environments and/or cofactors. Our work significantly increases our understanding of the biochemical nature of prion infectious agents and provides a fundamental insight into the mechanisms of prions biogenesis. 相似文献
133.
134.
Changlin Fu William P. Donovan Olga Shikapwashya-Hasser Xudong Ye Robert H. Cole 《PloS one》2014,9(12)
Molecular cloning is utilized in nearly every facet of biological and medical research. We have developed a method, termed Hot Fusion, to efficiently clone one or multiple DNA fragments into plasmid vectors without the use of ligase. The method is directional, produces seamless junctions and is not dependent on the availability of restriction sites for inserts. Fragments are assembled based on shared homology regions of 17–30 bp at the junctions, which greatly simplifies the construct design. Hot Fusion is carried out in a one-step, single tube reaction at 50°C for one hour followed by cooling to room temperature. In addition to its utility for multi-fragment assembly Hot Fusion provides a highly efficient method for cloning DNA fragments containing inverted repeats for applications such as RNAi. The overall cloning efficiency is in the order of 90–95%. 相似文献
135.
Differential ability of genotypes of 2,4-diacetylphloroglucinol-producing Pseudomonas fluorescens strains to colonize the roots of pea plants 总被引:3,自引:0,他引:3
Landa BB Mavrodi OV Raaijmakers JM McSpadden Gardener BB Thomashow LS Weller DM 《Applied and environmental microbiology》2002,68(7):3226-3237
Indigenous populations of 2,4-diacetylphloroglucinol (2,4-DAPG)-producing fluorescent Pseudomonas spp. that occur naturally in suppressive soils are an enormous resource for improving biological control of plant diseases. Over 300 isolates of 2,4-DAPG-producing fluorescent Pseudomonas spp. were isolated from the rhizosphere of pea plants grown in soils that had undergone pea or wheat monoculture and were suppressive to Fusarium wilt or take-all, respectively. Representatives of seven genotypes, A, D, E, L, O, P, and Q, were isolated from both soils and identified by whole-cell repetitive sequence-based PCR (rep-PCR) with the BOXA1R primer, increasing by three (O, P, and Q) the number of genotypes identified previously among a worldwide collection of 2,4-DAPG producers. Fourteen isolates representing eight different genotypes were tested for their ability to colonize the rhizosphere of pea plants. Population densities of strains belonging to genotypes D and P were significantly greater than the densities of other genotypes and remained above log 6.0 CFU (g of root)(-1) over the entire 15-week experiment. Genetic profiles generated by rep-PCR or restriction fragment length polymorphism analysis of the 2,4-DAPG biosynthetic gene phlD were predictive of the rhizosphere competence of the introduced 2,4-DAPG-producing strains. 相似文献
136.
In 1991, soil samples were taken from the long-term (40 years old) field trial at Ultuna in order to investigate soil P status and the distribution of its various forms. Among the treatments investigated, two were inorganic PK additions only – one to continuous fallow (PK-fallow) and the other to cropped fields (PK). There were also treatments amended with PK in combination with applications of straw, green manure composed of grass (GM), farmyard manure (FYM) or sewage sludge (SS). A total of 720, 720, 883, 1154, 1941 and 6617 kg P h-1 had been supplied in the PK-fallow, PK, Straw, GM, FYM and SS treatments, respectively up to 1991. The soil P distribution was determined by step-wise fractionation using anion exchange resin (resin-P), sodium bicarbonate (bicarb-P), sodium hydroxide (hyd-P), and HCl (HCl-P). Finally, the soil was digested to obtain residual P (resid-P). The amendments resulted in a significant (p=0.05) enrichment of total P in soils relative to the initial value. A breakdown of the bicarb-P and hyd-P into inorganic P (Pi) and organic P (Po) was manifested as considerable transformations within these P compartments compared with the initial values. Thus, total Pi (resin-P, bicarb-Pi, hyd-Pi, HC1-P, resid-P)/total Po (bicarb-Po, hyd-Po) ratios markedly decreased in all treatments relative to control. The two P compartments were significantly and negatively (p =0.05) correlated. On average, the total Po increase was about 380 mg kg-1 (range 270–715). The results suggested that an equilibrium between Pi immobilization and Po mineralization was difficult to attain under any of the experimental management regimes used, which exclude inorganic N application. The balance sheet calculations revealed P deficits ranging from about 10 to 60 kg ha-1, indicating that some P had migrated to the subsoil. 相似文献
137.
Insight into the aberrant expression of microRNAs (miRNAs) and the genes that they regulate during the progression of cancer in general and prostate cancer (PCa) in particular is one of the most important issues in current molecular biomedicine and allows for the discovery of therapeutic or diagnostic miRNA targets. The present study aimed to analyze the available data regarding the direct or indirect effects of miRNAs on the expression of the mRNAs involved in carcinogenesis and to enable updating and optimizing the selection of the corresponding targets. The present review focuses on the data related to the genes with miRNA‐dependent expression during the development of PCa. The data used in this review have been extracted from research papers and the databases STRING, PANTHER and TargetScan, with a special focus on the genes directly associated with cell transformation and the maintenance of the transformed genotype, as well as tumor invasion and spread. The search for miRNA markers of PCa and therapeutically active molecules should rely on bioinformatics resources, such as data from recent experimental studies, as well as meta‐analysis and cross‐analysis of the data on the state of the tumor, patient status, histological/immunohistological data and data on mRNA–miRNA coexpression. 相似文献
138.
Joanna Kamińska Olga M. Koper Edyta Siedlecka-Czykier Joanna Matowicka-Karna Jerzy Bychowski Halina Kemona 《Saudi Journal of Biological Sciences》2018,25(7):1263-1271
Introduction
Thrombotic and inflammatory mechanisms are involved in the pathophysiology of acute coronary syndrome (ACS). The aim of the study was the evaluation of inflammation (white blood cells count/WBC, C-reactive protein/CRP, interleukin-6/IL-6) and platelet (platelet count/PLT, mean platelet volume/MPV, large platelet/LPLT, beta-thromboglobulin/β-TG) biomarkers in the groups of ACS patients depending on the severity of signs and symptoms and compared to controls without coronary artery disease.Materials and methods
The study group included 93 patients categorized into 3 subgroups depending on the severity of signs and symptoms of ACS. PLT, MPV, LPLT, and WBC were determined on hematological analyzer, IL-6 and β-TG were measured using the ELISA method.Results
In the whole group of ACS patients WBC, CRP, IL-6, MPV, and β-TG were significantly higher as compared to controls. Analyzing the inflammation and platelet biomarkers depending on the severity of signs and symptoms in comparison to controls, statistically significant differences for above-mentioned parameters were also found. There were no significant differences between the advancement of coronary artery changes and inflammation as well as platelet parameters, except for CRP concentrations. The AUCs for all inflammation parameters tested were similar, however the highest AUCs showed WBC and CRP. Among platelet parameters the highest AUC revealed β-TG.Conclusion
Markers of inflammation and platelet activation may be associated to myocardial ischemia and myocardial injury. WBC, CRP and IL-6 as inflammation parameters and MPV and β-TG as platelet biomarkers may be useful indicators of the presence of coronary artery disease. 相似文献139.
Mazanko Maria S. Gorlov Ivan F. Prazdnova Evgeniya V. Makarenko Maxim S. Usatov Alexander V. Bren Anzhelika B. Chistyakov Vladimir A. Tutelyan Alexey V. Komarova Zoya B. Mosolova Natalia I. Pilipenko Denis N. Krotova Olga E. Struk Aleksandr N. Lin Angela Chikindas Michael L. 《Probiotics and antimicrobial proteins》2018,10(2):367-373
Probiotics and Antimicrobial Proteins - The study aims at elucidating the effect of bacilli probiotic preparations on the physiology of laying hens and roosters. Probiotic formulations were... 相似文献
140.
Kelsey H. Fisher-Wellman James A. Draper Michael T. Davidson Ashley S. Williams Tara M. Narowski Dorothy H. Slentz Olga R. Ilkayeva Robert D. Stevens Gregory R. Wagner Rami Najjar Mathew D. Hirschey J. Will Thompson David P. Olson Daniel P. Kelly Timothy R. Koves Paul A. Grimsrud Deborah M. Muoio 《Cell reports》2019,26(6):1557-1572.e8