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Search results for: EFEKT PORTEVIN-LE CHATELIER
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The Role of Electrostatics in Enzymes: Do Biomolecular Force Fields Reflect Protein Electric Fields?
PublicationPreorganization of large, directionally oriented, electric fields inside protein active sites has been proposed as a crucial contributor to catalytic mechanism in many enzymes, and it may be efficiently investigated at the atomistic level with molecular dynamics simulations. Here, we evaluate the ability of the AMOEBA polarizable force field, as well as the additive Amber ff14SB and Charmm C36m models, to describe the electric...
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A Data Driven Model for Predicting RNA-Protein Interactions based on Gradient Boosting Machine
PublicationRNA protein interactions (RPI) play a pivotal role in the regulation of various biological processes. Experimental validation of RPI has been time-consuming, paving the way for computational prediction methods. The major limiting factor of these methods has been the accuracy and confidence of the predictions, and our in-house experiments show that they fail to accurately predict RPI involving short RNA sequences such as TERRA RNA....
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Organic solvents aggregating and shaping structural folding of protein, a case study of the protease enzyme
PublicationLow solubility of reactants or products in aqueous solutions can result in the enzymatic catalytic reactions that can occur in non-aqueous solutions. In current study we investigated aqueous solutions containing different organic solvents / deep eutectic solvents (DESs) that can influence the protease enzyme's activity, structural, and thermal stabilities. Retroviral aspartic protease enzyme is responsible for the cleavage of the...
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Con l’introduzione
PublicationNata nel 1953 con l’obiettivo di portare l’Italia tra le nazioni avanzate anche in campo energetico, Eni rappresenta una delle principali imprese ad aver influenzato l’innovazione economica del Paese. La sua storia, legata a doppio filo alla figura di Enrico Mattei, consente di seguirne le traiettorie di sviluppo e le strategie di internazionalizzazione, nel quadro di un contesto in continua evoluzione. Questo volume ripercorre...
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Napęd elektryczny w motoryzacji = The electric drive in motorization
PublicationWyczerpujące się zasoby ropy naftowej sprzyjają rozwojowi spekulacji cen paliw na giełdach światowych. Jednocześnie postępujący efekt cieplarniany zmusza inżynierów do poszukiwania nośników energii oraz napędów, które mógłby być alternatywnym rozwiązaniem zaistniałej sytuacji ekonomicznej oraz ekologicznej. Użycie silników elektrycznych do napędu pojazdów samochodowych jest pewną alternatywą rozwiązującą problem wysokich cen paliw...
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UN’IPERTROFIA INEVITABILE? LA MOBILITAZIONE INDUSTRIALE E LA TRASFORMAZIONE DELL’APPARATO AMMINISTRATIVO PER LO SFORZO BELLICO
PublicationIl capitolo esamina le trasformazioni dell'apparato amministrativo in relazione alle esigenze dello sforzo bellico
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Zmiany konstrukcyjne i technologiczne w budowie instalacji chłodniczych w kontekście zastępowania „F-gazów” oraz ich mieszanin nowymi substancjami o niskim potencjale tworzenia efektu cieplarnianego i substancjami naturalnymi
PublicationZe względu na zmieniające się prawodawstwo UE dotyczące możliwości wykorzystywania czynników należących do grupy tzw. „F-gazów”, pojawiają się liczne nowe problemy i zmiany w konstrukcji oraz eksploatacji urządzeń, wykorzystywanych w szeroko pojętej technice chłodniczej i klimatyzacyjnej. Zmiany te wynikają przede wszystkim z konieczności użytkowania substancji odznaczających się niskim wpływem na środowisko naturalne (ODP=0 i...
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Cross-talk modeling in coupled transmission lines terminated with nonlinear loads
PublicationW pracy przedstawiono przegląd dostępnych metod symulacji zjawiska przesłuchu kładąc szczegółny nacisk na efekty nieliniowości rzeczywistych obciążeń linii sygnałowych na płytach drukowanych. Wykorzystując metodę analizy opartą o szeregi Volterry przeanalizowano efekt przesłuchu w strukturze sprzężonych linii mikropaskowych obciążonych na wyjściu toru transmisyjnego diodą Schottky'ego z niską barierą potencjalu. Uzyskano bardzo...
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Sulforaphane, a cruciferous vegetable-derived isothiocyanate, inhibits protein synthesis in human prostate cancer cells
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CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures
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Towards Temperature Dependent Coarse-grained Potential of Side-chain Interactions for Protein Folding Simulations
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UNRES server for physics-based coarse-grained simulations and prediction of protein structure, dynamics and thermodynamics
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Methodology of Selecting the Optimal Receptor to Create an Electrochemical Immunosensor for Equine Arteritis Virus Protein Detection
PublicationThe study reports a methodology of selecting the optimal receptor to create an electrochemical immunosensor for equine arteritis virus (EAV) protein detection. The detection was based on antigen recognition by antibodies immobilized on gold electrodes. Modification steps were controlled by electrochemical impedance spectroscopy and cyclic voltammetry measurements. In order to obtain the impedance immunosensor with the best parameters,...
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E2/E3‐independent ubiquitin‐like protein conjugation by Urm1 is directly coupled to cysteine persulfidation
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Structural and dynamic changes adopted by EmrE, multidrug transporter protein—Studies by molecular dynamics simulation
PublicationEmrE protein transports positively charged aromatic drugs (xenobiotics) in exchange for two protons and thus provides bacteria resistance to variety of drugs. In order to understand how this protein may recognize ligands, the monomer and asymmetric apo-form of the EmrE dimer embedded in a heterogeneous phospholipid (POPE + POPG) membrane were studied by molecular dynamics simulations. Dimer is regarded as a functional form of the...
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Comparison of Antioxidant Activity of Protein Isolates Derived from Selected Dry-Cured Meat Products
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The Escherichia coli RNA polymerase alpha subunit and transcriptional activation by bacteriophage lambda CII protein.
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Mitogen activated protein kinase 4 (MPK4) influences growth in Populus tremula L.×tremuloides
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Rapeseed Meal Waste Biomass as Single-Cell Protein Substrate for Nutritionally-Enhanced Feed Component
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A cryptic ribosome binding site, false signals in reporter systems and avoidance of protein translation chaos
PublicationThe expression of reporter gene may be induced by activation of cryptic signalling sequences, as we found while constructing the mutS-lacZ fusion gene. We cloned the Escherichia coli lacZ gene encoding beta-galactosidase into a plasmid vector carrying the Thermus thermophilus mutS gene. The clones expected to produce beta-galactosidase as the C-terminal fusion were selected for the complementation of beta-galactosidase activity...
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Defining a novel domain that provides an essential contribution to site-specific interaction of Rep protein with DNA
PublicationAn essential feature of replication initiation proteins is their ability to bind to DNA. In this work, we describe a new domain that contributes to a replication initiator sequence-specific interaction with DNA. Applying biochemical assays and structure prediction methods coupled with DNA–protein crosslinking, mass spectrometry, and construction and analysis of mutant proteins, we identified that the replication initiator of the...
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Post mortem changes in M. iliotibialis lateralis muscle protein profile of emu (Dromaius novaehollandiae)
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Excessive amount of lactose in the diet of two-week-old calves induces urinary protein changes
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Formation of Protein Networks between Mucins: Molecular Dynamics Study Based on the Interaction Energy of the System
PublicationMolecular dynamics simulations have been performed for a model aqueous solution of mucin. As mucin is a central part of lubricin, a key component of synovial fluid, we investigate its ability to form cross-linked networks. Such network formation could be of major importance for the viscoelastic properties of the soft-matter system and crucial for understanding the lubrication mechanism in articular cartilage. Thus,the inter- and...
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How proteins bind to DNA: target discrimination and dynamic sequence search by the telomeric protein TRF1
PublicationTarget search as performed by DNA-binding proteins is a complex process, in which multiple factors contribute to both thermodynamic discrimination of the target sequence from overwhelmingly abundant off-target sites and kinetic acceleration of dynamic sequence interrogation. TRF1, the protein that binds to telomeric tandem repeats, faces an intriguing variant of the search problem where target sites are clustered within short fragments...
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Role of the disulfide bond in stabilizing and folding of the fimbrial protein DraE from uropathogenic Escherichia coli
PublicationDr fimbriae are homopolymeric adhesive organelles of uropathogenic Escherichia coli composed of DraE subunits, responsible for the attachment to host cells. These structures are characterized by enormously high stability resulting from the structural properties of an Ig-like fold of DraE. One feature of DraE and other fimbrial subunits that makes them peculiar among Ig-like domain-containing proteins is a conserved disulfide bond...
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Structural and dynamic insights on the EmrE protein with TPP+ and related substrates through molecular dynamics simulations
PublicationEmrE is a bacterial transporter protein that forms an anti-parallel homodimer with four transmembrane helices in each monomer. EmrE transports positively charged aromatic compounds, such as TPP+ and its derivatives. We performed molecular dynamics (MD) simulations of EmrE in complex with TPP+, MeTPP+, and MBTPP+ embedded in a membrane. The detailed molecular properties and interactions were analysed for all EmrE-ligand complexes....
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Improvements and new functionalities of UNRES server for coarse-grained modeling of protein structure, dynamics, and interactions
PublicationIn this paper we report the improvements and extensions of the UNRES server (https://unres-server.chem.ug.edu.pl) for physics-based simulations with the coarse-grained UNRES model of polypeptide chains. The improvements include the replacement of the old code with the recently optimized one and adding the recent scale-consistent variant of the UNRES force field, which performs better in the modeling of proteins with the β and the...
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Methodology of Selecting the Optimal Receptor to Create an Electrochemical Immunosensor for Equine Arteritis Virus Protein Detection
PublicationThe study reports a methodology of selecting the optimal receptor to create an electrochemical immunosensor for equine arteritis virus (EAV) protein detection. The detection was based on antigen recognition by antibodies immobilized on gold electrodes. Modification steps were controlled by electrochemical impedance spectroscopy and cyclic voltammetry measurements. In order to obtain the impedance immunosensor with the best parameters,...
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Silica In Silico: A Molecular Dynamics Characterization of the Early Stages of Protein Embedding for Atom Probe Tomography
PublicationA novel procedure for the application of atom probe tomography (APT) to the structural analysis of biological systems, has been recently proposed, whereby the specimen is embedded by a silica matrix and ablated by a pulsed laser source. Such a technique, requires that the silica primer be properly inert and bio-compatible, keeping the native structural features of the system at hand, while condensing into an amorphous, glass-like...
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Le Moyen Français. Revue d'études linguistiques et littéraires fondée par Giuseppe di Stefano
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Cartable de Clio (le) / Revue romande et tessinoise sur les didactiques de l'histoire
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Electronic and nuclear properties from the analysis of the isotope shifts in the spectral lines of lead [online]
PublicationW pracy dokonano analizy 24 linii widmowych atomu i jonu ołowiu, przy użyciu metody diagramów Kinga. Połączenie danych pomiarowych otrzymanych z badań fizyki jądrowej z danymi spektroskopii optycznej pozwoliło na analizę przesunięć izotopowych linii widmowych niezależnie od modelu teoretycznego. W wyniku czego, rozdzielono efekt masy od efektu objętościowego i otrzymano szereg danych spektroskopowych stanowiących bogatą bazę doświadczalną...
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Generacja rozproszona, jako sterowne źródło napięcia i mocy biernej dla sieci średniego napięcia
PublicationNiniejszy artykuł przedstawia przykładowe wyniki uzasadniające celowość wykorzystania źródeł rozproszonych w procesie regulacji napięcia i mocy biernej w sieci SN. Część wyników jak i główne wnioski stanowią efekt pracy badawczej [6]. W pracy wskazano podstawowe ograniczenia związane z wykorzystaniem generacji rozproszonej w czynnym udziale w regulacji napięć w sieci SN. Wskazano możliwości oraz efekty aktywnego uczestnictwa analizowanych...
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Schemat powstawania rys na przykładzie osiowo rozciąganego pręta żelbetowego
PublicationW artykule przedstawiono w sposób schematyczny ideę powstawania kolejnych rys w konstrukcjach żelbetowych na przykładzie osiowo rozciąganego pręta. Opisano początkowy oraz końcowy stan zarysowania. Wyprowadzono wzór na szerokość rysy. Przedstawiono interpretację geometryczną rys dla fazy początkowego zarysowania oraz efekt tension stiffening na przykładzie elementu osiowo rozciąganego. Przedstawiono przykładowe obliczenia miary...
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FE-investigations of a deterministic and statistical size effect in granular bodies within a micro-polar hypoplasticity
PublicationArtykuł omawia deterministyczny i statystyczny efekt skali w materiałach granulowanych podczas ścinania cienkiej warstwy piasku między dwoma bardzo szorstkimi ścianami. Obliczenia wykonano metodą elementów skończonych na bazie mikropolarnego prawa hipoplastycznego. Przyjęto różne wysokości warstw.
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Bounds on the vertex-edge domination number of a tree
PublicationA vertex-edge dominating set of a graph $G$ is a set $D$ of vertices of $G$ such that every edge of $G$ is incident with a vertex of $D$ or a vertex adjacent to a vertex of $D$. The vertex-edge domination number of a graph $G$, denoted by $\gamma_{ve}(T)$, is the minimum cardinality of a vertex-edge dominating set of $G$. We prove that for every tree $T$ of order $n \ge 3$ with $l$ leaves and $s$ support vertices we have $(n-l-s+3)/4...
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Ocena rozkładu namagnesowania wewnątrz płyty magnesowanej elektromagnesem jarzmowym. Zesz. Probl. - Badania Nieniszczące.**2003 nr 8 s. 61-66, 8 rys. bibliogr. 11 poz. Materiały 32 Krajowej Konferencji Badań nieniszczących 32 KKBN. Międzyzdro- je 28-30. X. 2003 r.
PublicationPrzedstawiono wyniki badań rozkładu namagnesowania wewnątrz płyty magnesowa-nej elektromagnesem jarzmowym. Mierzono a) rozkład na powierzchni płyty na-tężenia efektu Barkhausena EB sondą punktową b) natężenie emisji magnetoaku-stycznej EMA. Pętle histerezy natężenia EB oraz EMA ujawniły efekt przesu-nięcia fazowego procesu magnesowania wewnątrz płyty wynikającego z prądówwirowych. Wyniki pomiarów zostały potwierdzone wynikami...
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Taq DNA polymerase fused with DNA binding protein with increased resistance to inhibitors from clinical samples
PublicationNowadays PCR method is commonly used in molecular diagnostic. However, in many cases PCR is limited, by the presence of inhibitory substances in biological, soil or food samples Efficiency and fidelity of amplification is strongly connected with DNA polymerase and reaction conditions. To meet the requirements of modern diagnostic methods it is essential to seeking for new DNA polymerases with better properties useful in these field....
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Least Squares Estimators of Peptide Species Concentrations Based on Gaussian Mixture Decompositions of Protein Mass Spectra
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Influence of one‐night CPAP therapy on the changes of HIF‐1α protein in OSA patients: A pilot study
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A study on the interaction of rhodamine B with methylthioadenosine phosphorylase protein sourced from an Antarctic soil metagenomic library.
PublicationThe presented study examines the phenomenon of the fluorescence under UV light excitation (312 nm) of E. coli cells expressing a novel metagenomic-derived putative methylthioadenosine phosphorylase gene, called rsfp, grown on LB agar supplemented with a fluorescent dye rhodamine B. For this purpose, an rsfp gene was cloned and expressed in an LMG194 E. coli strain using an arabinose promoter. The resulting RSFP protein was purified...
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Identification and characterization of single-stranded DNA-binding protein from the facultative psychrophilic bacteria Pseudoalteromonas haloplanktis
PublicationSingle-stranded DNA-binding protein (SSB) plays an important role in DNA metabolism such as DNAreplication, repair, and recombination, and is essential for cell survival. This study reports on the ssb-likegene cloning, gene expression and characterization of a single-stranded DNA-binding protein of Pseudoal-teromonas haloplanktis (PhaSSB) and is the first report of such a protein from psychrophilic microorganism.PhaSSB possesses...
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The Role of Matrix Gla Protein (MGP) Expression in Paclitaxel and Topotecan Resistant Ovarian Cancer Cell Lines
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The Influence of the Parameters of a Gold Nanoparticle Deposition Method on Titanium Dioxide Nanotubes, Their Electrochemical Response, and Protein Adsorption
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Protein oligomerization is the biochemical process highly up-regulated in porcine oocytes before in vitro maturation (IVM)
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Real-time proliferation of porcine cumulus cells is related to the protein levels and cellular distribution of Cdk4 and Cx43
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Improved Consensus-Fragment Selection in Template-Assisted Prediction of Protein Structures with the UNRES Force Field in CASP13
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Structure determination of UL49.5 transmembrane protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics
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Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment
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