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Search results for: biochemia
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Chinifur, a Selective Inhibitor and "Subversive Substrate" for Trypanosoma congolense Trypanothione Reductase
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Genistein inhibits activities of methylenetetrahydrofolate reductase and lactate dehydrogenase, enzymes which use NADH as a substrate
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Graphene-encapsulated iron nanoparticles as a non-viral vector for gene delivery into melanoma cells
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Distance between the Basic Group of the Amino Acid Residue's Side Chain in Position P1of Trypsin Inhibitor CMTI-III and Asp189in the Substrate Pocket of Trypsin Has an Essential Influence on the Inhibitory Activity
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A simple method for selection of trypsin chromogenic substrates using combinatorial chemistry approach
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Design, Chemical Synthesis and Kinetic Studies of Trypsin Chromogenic Substrates Based on the Proteinase Binding Loop of Cucurbita maxima Trypsin Inhibitor (CMTI-III)
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Chromogenic Substrates of Bovine β-Trypsin: The Influence of an Amino Acid Residue in P1 Position on Their Interaction with the Enzyme
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Identification of X-DING-CD4, a new member of human DING protein family that is secreted by HIV-1 resistant CD4+ T cells and has anti-viral activity
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Rapid PD-L1 detection in tumors with PET using a highly specific peptide
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Pivotal participation of nitrogen dioxide in l-arginine induced acute necrotizing pancreatitis: protective role of superoxide scavenger 4-OH-TEMPO
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Techniques of preparing plant material for chromatographic separation and analysis
PublicationArtykuł przedstawia dyskusję na temat technik wykorzystywanych podczas przygotowywania próbek materiału roślinnego do rozdzielania chromatograficznego i analizy. Opisane techniki to: suszenie, homogenizacja, ługowanie, ekstrakcja. Przedstawiono także techniki ekstrakcyjne tj. ekstrakcja z wykorzystaniem ultradźwięków, przyśpieszona ekstrakcja rozpuszczalnikiem, ekstrakcja z wykorzystaniem mikrofal, ekstrakcja z wykorzystaniem rozpuszczalnika...
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Trends in solventless sample preparation techniques for environmental analysis
PublicationPraca przedstawia najnowsze tendencje w metodach przygotowania próbek do analizy środowiskowej. Najpierw przedstawiono klasyfikację tzw. bezrozpuszczalnikowych technik przygotowania próbek. Następnie, szczegółowo przedstawiono trzy techniki, traktowane priorytetowo, a mianowicie: mikroekstrakcję do fazy stacjonarnej (SPME), ekstrakcję do pojedynczej kropli (SPME)i analizę fazy nadpowierzchniowej (HS), w odniesieniu do ich użyteczności...
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Effects of metallic silver particles on resonance energy transfer in label-led bovine serum albumin
PublicationZbadano wpływ cząstek metalicznego srebra na rezonansowe przekazywanie energii od wewnętrznych residów tryptofanowych w proteinie do zewnętrznie dowiązanego akceptora. W tych warunkach zaobserwowano istotny wzrost odległości Fórstera z 28,6 A do 63 A, co wskazuje na możliwość użycia cząstek srebra przy mierzeniu dużych odległości między molekułami i ich o przydatność w zastosowaniach biotechnologicznych.
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Biomarkers of alcohol consumption in body fluids - possibilities and limitations of application in toxicological analysis
PublicationEthyl alcohol is the most popular legal drug, but its excessive consumption causes social problems. Despite many public campaigns against alcohol use, car accidents, instances of aggressive behaviour, sexual assaults and deterioration in labor productivity caused by inebriated people is still commonplace. Fast and easy diagnosis of alcohol consumption is required in order to introduce proper and effective therapy, and is crucial...
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Identification and properties of the psychrophilic bacterium Desulfolatea psychrophila single-stranded DNA binding proteins
PublicationTo study the biochemical properties of SSB from Desulfolatea psychrophila (DpsSSB), we have cloned the ssb genes obtained by PCR and have developed Escherichia coli overexpression systems. The gene consists of an open reading frame of 426 nucleotides encoding SSB protein of 142 amino acids with a calculated molecular mass of 15.6 kDa and it is the smallest known bacterial SSB protein indentified to date. The amino-acid sequence...
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Two-step mechanism of J-domain action in driving Hsp70 function
PublicationJ-domain proteins (JDPs), obligatory Hsp70 cochaperones, play critical roles in protein homeostasis. They promote key allosteric transitions that stabilize Hsp70 interaction with substrate polypeptides upon hydrolysis of its bound ATP. Although a recent crystal structure revealed the physical mode of interaction between a J-domain and an Hsp70, the structural and dynamic consequences of J-domain action once bound and how Hsp70s...
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Electronic nose algorithm design using classical system identification for odour intensity detection
PublicationThe two elements considered crucial for constructing an efficient environmental odour intensity monitoring systems are sensors and algorithms typically addressed to as electronic nose sensor (e-nose). Due to operational complexity of biochemical sensors developed in human bodies algorithms based on computational methods of artificial intelligence are typically considered superior to classical model based approaches in development...
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Analysis of the impact of wastewater discharge on recipients: synergistic approach
PublicationThe dissertation presents the analysis of chemical and microbial composition of wastewater and examines the impact of wastewater discharge on the environment. Various case studies were analysed: from small settlements in a pristine European Arctic, to large municipal wastewater treatment plants in areas subjected to greater anthropogenic pressure. In order to comprehensively analyse the impact of wastewater discharge on the receiving...
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Immunochromatografia : przegląd i charakterystyka immunosorbentów oraz metod immobilizacji = Immunochromatography: a review and characterization of immunosorbents and methods of immobilization
PublicationChromatografia immunopowinowactwa (ang. ImmunoAffinity Chromatography, IAC) jest techniką rozdzielania stosowaną do różnorodnych klas związków chemicznych, a także jako dodatkowe narzędzie w badaniach z zakresu biochemii. Kluczowym elementem odpowiedzialnym za wysoce selektywne oddziaływania w IAC jest przeciwciało (ang. antibody, Ab) produkowane przez organizmy żywe w wyniku odpowiedzi immunologicznej i wykazujące specyficzność...
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NOWE PODEJSCIE CHEMOMETRYCZNE DO ANALIZY ZESTAWÓW WIDM UV/VIS MIESZANIN DWUSKŁADNIKOWYCH
PublicationW wielu ważnych zagadnieniach z zakresu chemii, biochemii i biofizyki napotykamy problem analizy zestawów widm uzyskanych dla mieszanin dwuskładnikowych. Jeżeli widma obu składników mieszaniny są znane problem sprowadza się do klasycznej kalibracji. W większości zagadnień praktycznych widmo co najmniej jednego ze składników jest nieznane. Prezentowana praca przedstawia propozycję rozwiązania problemu z wykorzystaniem analizy chemometrycznej...
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Reliability and efficiency of pollution removal during long-term operation of a one-stage constructed wetland system with horizontal flow
PublicationThe paper presents the results of a study of the reliability and efficiency of pollutant removal during long term operation of a one-stage constructed wetland system with horizontal flow. The flow rate of the wastewater treatment plant was 1.2 m3·d-1 during the research period. Physical and chemical analyses of raw wastewater and treated effluent were carried out in the years 1997–2010 (14 years). During this study period, 56 series...
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Nitrification, denitrification, and dephosphatation capability of activated sludge during co-treatment of intermediate-age landfill leachates with municipal wastewater
PublicationThis study focuses on the possible use and efficacy of the co-treatment of landfill leachate (intermediate-age) with municipal wastewater. The nitrification, denitrification, and dephosphatation capability of activated sludge acclimated with a mixture of raw municipal wastewater (RWW) with gradually increasing amounts of raw landfill leachate (RLL) (from 0.5 to 5% v/v) were tested. Biochemical tests were conducted simultaneously...
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Transcriptome profiling reveals distinctive traits of retinol metabolism and neonatal parallels in the MRL/MpJ mouse
PublicationBackground: The MRL/MpJ mouse is a laboratory inbred strain known for regenerative abilities which are manifested by scarless closure of ear pinna punch holes. Enhanced healing responses have been reported in other organs. A remarkable feature of the strain is that the adult MRL/MpJ mouse retains several embryonic biochemical characteristics, including increased expression of stem cell markers. Results: We explored the transcriptome...
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Intercalation complex of imidazoacridinone C-1311, a potential anticancer drug, with DNA helix d(CGATCG)2: stereostructural studies by 2D NMR spectroscopy.
PublicationImidazoacridinone C-1311 (Symadex®) is a powerful antitumor agent, which successfully made its way through the Phase I clinical trials and has been recommended for Phase II few a years ago. It has been shown experimentally that during the initial stage of its action C-1311 forms a relatively stable intercalation complex with DNA, yet it has shown no base-sequence specificity while binding to DNA. In this paper, the d(CGATCG)2:C-1311...
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Carbon nanoarchitectures as high-performance electrodes for the electrochemical oxidation of landfill leachate
PublicationNanomaterials and assemblies of the aforementioned into complex architectures constitute an opportunity to design efficient and selective solutions to wide spread and emerging environmental issues. The limited disposal of organic matter in modern landfills generates extremely concentrated leachates characterised by high concentrations of refractory compounds. Conventional biochemical treatment methods are unsuitable, while advanced...
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A cold-adapted esterase from psychrotrophic Pseudoalteromonas sp. strain 643A
PublicationDzięki zastosowaniu lipaz możliwa jest biotechnologiczna produkcja m.in. biodegradowalnych biopolimerów, biopaliw (tzw. biodiesel), wielu terapeutyków, herbicydów, pestycydów, kosmetyków, substancji smakowych, serów i in. Szczególnie interesującą grupę stanowią enzymy lipolityczne, pochodzące z organizmów psychrofilnych i psychrotrofowych, ze względu na zdolność do wydajnego katalizowania reakcji w temperaturach rzędu 10-20 ºC....
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Wpływ imidazoakrydonu C-1311 na indukcję apoptozy, katastrofy mitotycznej lub starzenia komórek nowotworowych
PublicationPrezentowana praca stanowi kontynuację badań prowadzonych w Katedrze Technologii Leków i Biochemii, zmierzających do wyjaśnienia mechanizmu działania aktywnego przeciwnowotworowo imidazoakrydonu C-1311, znajdującego się obecnie w II fazie badań klinicznych prowadzonych na pacjentkach z rakiem piersi. Celem pracy było określenie końcowych efektów cytotoksycznego działania C-1311 w stosunku do wybranych rodzajów komórek nowotworowych...
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PTD4 Peptide Increases Neural Viability in an In Vitro Model of Acute Ischemic Stroke
PublicationIschemic stroke is a disturbance in cerebral blood flow caused by brain tissue ischemia and hypoxia. We optimized a multifactorial in vitro model of acute ischemic stroke using rat primary neural cultures. This model was exploited to investigate the pro-viable activity of cell-penetrating peptides: arginine-rich Tat(49–57)-NH2 (R49KKRRQRRR57-amide) and its less basic analogue, PTD4 (Y47ARAAARQARA57-amide). Our model included glucose...
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The use of constructed wetlands for the treatment of industrial wastewater
PublicationConstructed wetlands are characterized by specific conditions enabling simultaneous various physical and biochemical processes. This is the result of specific environment for the growth of microorganisms and hydro-phytes (aquatic and semiaquatic plants) which are capable of living in aerobic, anaerobic and facultative anaerobic conditions. Their interaction contributes to the intensification of oxidation and reduction responsible...
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Iron–Sulfur Cluster Biogenesis Chaperones: Evidence for Emergence of Mutational Robustness of a Highly Specific Protein–Protein Interaction
PublicationBiogenesis of iron–sulfur clusters (FeS) is a highly conserved process involving Hsp70 and J-protein chaperones. However, Hsp70 specialization differs among species. In most eukaryotes, including Schizosaccharomyces pombe, FeS biogenesis involves interaction between the J-protein Jac1 and the multifunctional Hsp70 Ssc1. But, in Saccharomyces cerevisiae and closely related species, Jac1 interacts with the specialized Hsp70 Ssq1,...
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The compositional space of exhaled breath condensate and its link to the human breath volatilome
PublicationBreath analysis is commonly understood to target gaseous or volatile organic compounds (VOCs) for the characterization of different pathologies. Targeted analysis is most effective if a working hypothesis can be based on a plethora of data. The recently published volatilome builds an optimal basis for organizing powerful target sets. However, the origin and pathways of biosynthesis of many VOCs are not known, which complicates...
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Karaś P., Kochanowicz K., Pitek M., Domański P., Obuchowski I., Tomiczek B., Liberek K.: Evolution towards simplicity in bacterial small heat shock protein system// eLife -, (2023), s.1-21
PublicationEvolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either...
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Evolution towards simplicity in bacterial small heat shock protein system
PublicationEvolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either two...
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Establishing the allosteric mechanism in CRISPR‐Cas9
PublicationAllostery is a fundamental property of proteins, which regulates biochemical information transfer between spatially distant sites. Here, we report on the critical role of molecular dynamics (MD) simulations in discovering the mechanism of allosteric communication within CRISPR‐Cas9, a leading genome editing machinery with enormous promises for medicine and biotechnology. MD revealed how allostery intervenes during at least three...
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Możliwości zastosowań, potencjalne źródła oraz ewolucja technologiczna sposobu otrzymywania trehalozy ze szczególnym uwzględnieniem enzymu syntazy trehalozy [EC 5.4.99.16]
PublicationJedna z wiodących gałęzi współczesnej biotechnologii opiera się na produkcji białek – przede wszystkim enzymów. Są one powszechnie wykorzystywane: od przemysłu chemicznego poprzez przemysł spożywczy aż po medycynę i życie codzienne (czy ktoś wyobraża sobie w dzisiejszych czasach proszek do prania „bez enzymu”). Przed rozwojem nowoczesnych metod biologii molekularnej i inżynierii genetycznej pozyskiwano interesujące substancje z...
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Biofilm bakteryjny uropatogennych szczepów E. coli Dr+ jako czynnik indukujący przewlekłość zakażeń dróg moczowych ograniczający ich leczenie
PublicationZakażenia dróg moczowych (ZUM) stanowią jedne z najczęściej występujących infekcji bakteryjnych, dotykających każdego roku miliony osób na świecie. Problematyka tych zakażeń wynika z ich przewlekłości i nawrotów, pomimo stosowania terapii antybiotykowej oraz ciągle wzrastającej lekooporności uropatogenów je wywołujących. Dominującym czynnikiem etiologicznym ZUM są uropatogenne szczepy E. coli (UPECs), wykazujące zdolność do adhezji,...
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Understanding chlorophylls: Central magnesium ion and phytyl as structural determinants
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Protochlorophyllide and protochlorophyll in model membranes — An influence of hydrophobic side chain moiety
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Short arginine-rich lipopeptides: From self-assembly to antimicrobial activity
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Interactions of amphotericin B derivatives with lipid membranes - a molecular dynamics study
PublicationW pracy analizowano oddziaływanie dwóch nisko-toksycznych pochodnych amfoterycyny B (związki SAmE i PAmE) z modelami błon lipidowych. Badania wykonane zostały za pomocą dynamiki molekularnej. Modele błon oprócz fosfolipidów DMPC zawierały odpowiednio cholesterol (model błony zwierzęcej) lub ertosterol (model błony grzybowej). Analiza wyników wykazała, że obie pochodne amfoterycyny B zachowują się inaczej w błonie cholesterolowej...
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Polar localization of new flavonoids from aerial parts of Scleranthus perennis and Hottonia palustris and their modulatory action on lipid membranes properties
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Comparative molecular dynamics simulations of amphotericin B-cholesterol/ergosterol membrane channels
PublicationBadania polegały na przeprowadzeniu porównawczej dynamiki molekularnej dla dwóch typów kanałów amfoterycyny B. Obie symulacje różniły się rodzajem sterolu (cholesterol lub ergosterol). Na podstawie wyników przeprowadzonych prac ustalono jakie elementy strukturalne badanych kanałów mogą być odpowiedzialne za selektywne działanie amfoterycyny B.
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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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Are the short cationic lipopeptides bacterial membrane disruptors? Structure-Activity Relationship and molecular dynamic evaluation
PublicationShort cationic lipopeptides are amphiphilic molecules that exhibit antimicrobial activity mainly against Grampositives. These compounds bind to bacterial membranes and disrupt their integrity. Here we examine the structure-activity relation (SAR) of lysine-based lipopeptides, with a prospect to rationally design more active compounds. The presented study aims to explain how antimicrobial activity of lipopeptides is affected by...
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Excitation energy transport and trapping in concentrated solid solutions offlavomononucleotide.
PublicationPraca dotyczy właściwości transportu i pułapkowania energii wzbudzenia w układzie monomer dimer dla flawomononukleotydu rozpuszczonego w filmach alkoholu poliwinylowego. Pokazano, że w tym przypadku wydajność kwantowa i depolaryzacja nie dają się opisać w ramach teorii nie uwzględniającej powrotnego przekazywania energii i że znacznie lepsza zgodność uzyskanych wyników doświadczalnych zachodzi z teorią, w której fluoryzujące...
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Synthesis, Chemical Characterization and Multiscale Biological Evaluation of a dimericcRGD Peptide for Targeted Imaging of αVβ3 Integrin Activity
PublicationCyclic peptides containing the Arg-Gly-Asp (RGD) sequence have been shown to specifically bind the angiogenesis biomarker α V β3 integrin. We report the synthesis, chemical characterization, and biological evaluation of two novel dimeric cyclic RGD-based molecular probes for the targeted imaging of α V β3 activity (a radiolabeled version, 64Cu-NOTA-PEG4-cRGD2, for PET imaging, and a fluorescent version, FITC-PEG4-cRGD2, for in...
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A pilot study with flow mediated skin fluorescence: A novel device to assess microvascular endothelial function in coronary artery disease
PublicationBackground: Endothelial dysfunction is one of the earliest vascular manifestations in the pathogenesis of cardiovascular disease. Noninvasive, simple and inexpensive methods of endothelial function assessment are therefore needed. Methods: Microvascular endothelial function was assessed in coronary artery disease (CAD) patients by flow mediated skin fluorescence (FMSF), based on measurements of NADH fluorescence intensity during...
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Retained features of embryonic metabolism in the adult MRL mouse
PublicationThe MRL mouse is an inbred laboratory strain that was derived by selective breeding in 1960 from the rapidly growing LG/J (Large) strain. MRL mice grow to nearly twice the size of other commonly used mouse strains, display uncommonly robust healing and regeneration properties, and express later onset autoimmune traits similar to Systemic Lupus Erythematosis. The regeneration trait (heal) in the MRL mouse maps to 14-20 quantitative...
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The Simulation of Activated Sludge System for Optimization of Predictive Aeration at Large WWTP
PublicationEffective use of biodegradable substrates as an internal carbon sources (ICS) for denitrification and EBPR and predicting performance of aeration systems during nitrification in activated sludge bioreactors, may be useful in realization the sustainable development by potentially saving energy consumption at WWTPs. A large number of WWTPs use activated sludge systems with an integrated removal of carbon, nitrogen and phosphorus...
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Characterization of recombinant homocitrate synthase from Candida albicans
PublicationLYS21 and LYS22 genes from Candida albicans encoding isoforms of homocitrate synthase (HCS), an enzyme catalyzing the first committed step in the L-lysine biosynthetic pathway, were cloned and expressed as NoligoHistagged fusion proteins in Escherichia coli. The purified gene products revealed HCS activity, i.e. catalyzed the condensation of α-ketoglutarate with acetyl-coenzyme A to yield homocitrate. The recombinant enzymes were purified...