Effects of macromolecular crowding on burst phase kinetics of cytochrome c folding.

abstract：:Protein enzymes often use ionizable side chains, such as histidine, for general acid-base catalysis because the imidazole pK(a) is near neutral pH. RNA enzymes, on the other hand, are comprised of nucleotides which do not have apparent pK(a) values near neutral pH. Nevertheless, it has been recently shown that cytidin...

journal_title：Biochemistry

authors： Ravindranathan S,Butcher SE,Feigon J

更新日期：2000-12-26 00:00:00

abstract：:Band 3, the anion transport protein of human erythrocyte membranes, can be transferred from cells to liposomes and from liposomes back to cell membranes, retaining function and native orientation. After incubation with cells, sonicated phosphatidylcholine vesicles bind a transmembrane protein that comigrates with band...

journal_title：Biochemistry

authors： Newton AC,Cook SL,Huestis WH

更新日期：1983-12-20 00:00:00

abstract：:Retinal membrane guanylyl cyclase (RetGC) in the outer segments of vertebrate photoreceptors is controlled by guanylyl cyclase activating proteins (GCAPs), responding to light-dependent changes of the intracellular Ca(2+) concentrations. We present evidence that a different RetGC binding protein, retinal degeneration ...

journal_title：Biochemistry

authors： Peshenko IV,Olshevskaya EV,Azadi S,Molday LL,Molday RS,Dizhoor AM

更新日期：2011-11-08 00:00:00

abstract：:Frequency-domain fluorescence resonance energy transfer and anisotropy measurements were performed to characterize conformational dynamics of an analog of the RNase S-peptide (residues 1-20). Trp was used as a donor by replacing Phe 8, and a dansyl acceptor group was introduced at position 1 or 18. The distance-distri...

journal_title：Biochemistry

authors： Maliwal BP,Lakowicz JR,Kupryszewski G,Rekowski P

更新日期：1993-11-23 00:00:00

abstract：:Aerobic and facultative bacteria and archaea harboring mer loci exhibit resistance to the toxic effects of Hg(II) and organomercurials [RHg(I)]. In broad spectrum resistance, RHg(I) is converted to less toxic Hg(0) in the cytosol by the sequential action of organomercurial lyase (MerB: RHg(I) → RH + Hg(II)) and mercur...

journal_title：Biochemistry

authors： Hong B,Nauss R,Harwood IM,Miller SM

更新日期：2010-09-21 00:00:00

abstract：:Pyruvate decarboxylase (PDC) uses thiamine diphosphate as an essential cofactor to catalyze the formation of acetaldehyde on the pathway of ethanol synthesis. Here we report the crystallographic image of a prereaction intermediate of a bacterial pyruvate decarboxylase prepared by cocrystallizing the enzyme with pyruva...

journal_title：Biochemistry

authors： Pei XY,Erixon KM,Luisi BF,Leeper FJ

更新日期：2010-03-02 00:00:00

abstract：:We recently introduced a new substrate rescue tool for investigating enzymatic base flipping by uracil DNA glycosylase (UDG) in which a bulky pyrene nucleotide wedge (Y) was placed opposite a uracil in duplex DNA (i.e., a U/Y pair), thereby preorganizing the target base in an extrahelical conformation [Jiang, Y. L., e...

journal_title：Biochemistry

authors： Jiang YL,Stivers JT,Song F

更新日期：2002-09-17 00:00:00

abstract：:The structure/function properties of functional groups in the leadzyme have been studied by assaying the activity of analog ribozymes generated by the systematic substitution of modified nucleotides in the internal loop region of the ribozyme. Guanosine analogs introduced at positions 4 and 7 occupied by guanosine in ...

journal_title：Biochemistry

authors： Chartrand P,Usman N,Cedergren R

更新日期：1997-03-18 00:00:00

abstract：:We have measured the base-pair lifetimes in oligodeoxynucleotides containing tracts of A.T base pairs using imino proton magnetic resonance. When the tract contains more than four consecutive A.T base pairs, possibly including a 5'-AT step but not a 5'-TA step, anomalously long lifetimes are observed. For example, the...

journal_title：Biochemistry

authors： Leroy JL,Charretier E,Kochoyan M,Guéron M

更新日期：1988-12-13 00:00:00

abstract：:To identify residues and segments in the central region of apolipoprotein A-I (apoA-I) that are important for the protein structure and stability, we studied the effects of four double charge ablations, D102A/D103A, E110A/E111A, R116V/K118A, and R160V/H162A, and two deletion mutations, Delta(61-78) and Delta(121-142),...

journal_title：Biochemistry

authors： Gorshkova IN,Liu T,Kan HY,Chroni A,Zannis VI,Atkinson D

更新日期：2006-01-31 00:00:00

abstract：:Human melanin-concentrating hormone (hMCH) and many of its analogues are potent but nonspecific ligands for human melanin-concentrating hormone receptors 1 and 2 (hMCH-1R and hMCH-2R). To differentiate between the physiological functions of these receptors, selective antagonists are needed. In this study, analogues of...

journal_title：Biochemistry

authors： Bednarek MA,Hreniuk DL,Tan C,Palyha OC,MacNeil DJ,Van der Ploeg LH,Howard AD,Feighner SD

更新日期：2002-05-21 00:00:00

abstract：:Traditional antibody generation, using either phage display or animal immunization, relies on purified antigens. Many membrane proteins, such as G protein-coupled receptors, solute carriers, or ion channels, are important drug targets but very challenging for the formation of antibodies due to the difficulty of protei...

journal_title：Biochemistry

authors： Chang YC,Kao CY,Tang HC,Huang MS,Mou KY

更新日期：2020-11-10 00:00:00

abstract：:The σ1 receptor is an integral membrane protein that shares no homology with other receptor systems, has no unequivocally identified natural ligands, but appears to play critical roles in a wide variety of cell functions. While the number of reports of the possible functions of the σ1 receptor is increasing, almost no...

journal_title：Biochemistry

authors： Brune S,Schepmann D,Klempnauer KH,Marson D,Dal Col V,Laurini E,Fermeglia M,Wünsch B,Pricl S

更新日期：2014-05-13 00:00:00

abstract：:Equilibrium binding experiments are widely used for the accurate characterization of binding and competitive binding behavior in biological systems. Modern high-throughput discovery efforts in chemical biology rely heavily upon this principle. Here, we derive exact analytical expressions for general competitive bindin...

journal_title：Biochemistry

authors： Roehrl MH,Wang JY,Wagner G

更新日期：2004-12-28 00:00:00

abstract：:Orthophosphate and phosphate derivatives including pyrophosphate, hexametaphosphate, ATP, ADP, and inositol hexaphosphate enhance the extent of DNA degradation by iron(II) bleomycin. These phosphate-containing compounds increase both the release of free nucleic base and that of base propenals which are DNA cleavage pr...

journal_title：Biochemistry

authors： Burger RM,Horwitz SB,Peisach J

更新日期：1985-07-02 00:00:00

abstract：:The association-dissociation kinetics of ribosomes from Escherichia coli have been studied under various conditions in a light-scattering stopped-flow apparatus. The dissociation reaction at 2 mg/ml at 25 degrees C, induced by lowering the MgCl2 concentration from 18 to 3 mM, can best be described by three independent...

journal_title：Biochemistry

authors： Görisch H,Goss DJ,Parkhurst LJ

更新日期：1976-12-28 00:00:00

abstract：:Specific enzymatic and chemical degradation of neutral lipid and phospholipid fractions from rat liver revealed the presence of novel types of lipid metabolites bearing a short-chain diol backbone. Diol-derived lecithin and cephalin analogs were readily cleaved by phospholipase C (EC 3.1.4.3) from Bacillus cereus, alt...

journal_title：Biochemistry

authors： Baumann WJ,Schupp E,Lin JT

更新日期：1975-02-25 00:00:00

abstract：:The Haemophilus influenzae diaminopimelate epimerase was cloned, expressed, purified, and crystallized in the C2221 space group (a = 102.1 A, b = 115.4 A, c = 66.3 A, alpha = beta = gamma = 90 degrees). The three-dimensional structure was solved to 2.7 A using a single Pt derivative and the Se-Met-substituted enzyme t...

journal_title：Biochemistry

authors： Cirilli M,Zheng R,Scapin G,Blanchard JS

更新日期：1998-11-24 00:00:00

abstract：:The ligand-binding dynamics and the reaction with O(2) of the fully (five-electron) reduced cytochrome caa(3) from the thermohalophilic bacterium Rhodothermus (R.) marinus were investigated. The enzyme is a proton pump which has all the residues of the proton-transfer pathways found in the mitochondrial-like enzymes c...

journal_title：Biochemistry

authors： Sigurdson H,Namslauer A,Pereira MM,Teixeira M,Brzezinski P

更新日期：2001-09-04 00:00:00

abstract：:The discovery of three mutants in the -synuclein (alphaSyn) gene and the identification of alphaSyn as the major component of Lewy body have opened a new field for understanding the pathogenesis of Parkinson's disease (PD). AlphaSyn is a natively unfolded protein with unknown function and unspecified conformational he...

journal_title：Biochemistry

authors： Jiang C,Chang JY

更新日期：2007-01-16 00:00:00

abstract：:One way to improve the economic feasibility of biomass conversion is to enhance the catalytic efficiency of cellulases through protein engineering. This requires that high-resolution structures of cellulases be available. Here we present the structure of E2cd, the catalytic domain of the thermophilic endocellulase E2 ...

journal_title：Biochemistry

authors： Spezio M,Wilson DB,Karplus PA

更新日期：1993-09-28 00:00:00

abstract：:The SfiI restriction enzyme binds to DNA as a tetramer holding two usually distant DNA recognition sites together before cleavage of the four DNA strands. To elucidate structural properties of the SfiI-DNA complex, atomic force microscopy (AFM) imaging of the complexes under noncleaving conditions (Ca2+ instead of Mg2...

journal_title：Biochemistry

authors： Lushnikov AY,Potaman VN,Oussatcheva EA,Sinden RR,Lyubchenko YL

更新日期：2006-01-10 00:00:00

abstract：:The empoyment of a novel method of affinity chromatography, which makes use of antibodies that specifically bind DNA/RNA hybrids, has made it possible to enrich for rat rDNA molecules which contain R loops formed with the 18S and 28S rRNAs. An approximately 150-fold enrichment of the ratrRNA coding sequences was obtai...

journal_title：Biochemistry

authors： Stumph WE,Wu JR,Bonner J

更新日期：1979-06-26 00:00:00

abstract：:The active site topography of rabbit CYP4B1 has been studied relative to CYP2B1 and CYP102 using a variety of aromatic probe substrates. Oxidation of the prochiral substrate cumene by CYP4B1, but not CYP2B1 or CYP102, resulted in the formation of the thermodynamically disfavored omega-hydroxy metabolite, 2-phenyl-1-pr...

journal_title：Biochemistry

authors： Henne KR,Fisher MB,Iyer KR,Lang DH,Trager WF,Rettie AE

更新日期：2001-07-24 00:00:00

abstract：:Escherichia coli tyrosine kinase (Etk) regulates the export of pathogenic capsular polysaccharide (CPS) by intermolecularly autophosphorylating its C-terminal tyrosine cluster. The kinase Etk, however, needs to be first activated by the intramolecular phosphorylation of a tyrosine residue, Y574, next to the active sit...

journal_title：Biochemistry

authors： Lu T,Tan H,Lee D,Chen G,Jia Z

更新日期：2009-08-25 00:00:00

abstract：:A model cosolvent, ethanol, has profound and diversified effects on the amyloidogenic self-assembly of insulin, yielding spectroscopically and morphologically distinguishable forms of beta-aggregates. The alcohol reduces hydrodynamic radii of insulin molecules, decreases enthalpic costs associated with aggregation-pro...

journal_title：Biochemistry

authors： Dzwolak W,Grudzielanek S,Smirnovas V,Ravindra R,Nicolini C,Jansen R,Loksztejn A,Porowski S,Winter R

更新日期：2005-06-28 00:00:00

abstract：:Nucleosome assembly proteins (Naps) influence chromatin dynamics by directly binding to histones. Here we provide a comprehensive structural and biochemical analysis of a Nap protein from Caenorhabditis elegans (CeNap1). CeNap1 naturally lacks the acidic N-terminal tail and has a short C-terminal tail compared to many...

journal_title：Biochemistry

authors： Sarkar P,Zhang N,Bhattacharyya S,Salvador K,D'Arcy S

更新日期：2019-01-15 00:00:00

abstract：:We have studied the hydrogen-exchange kinetics of hemoglobin A0 as a function of ligand, CO, saturation. In the noncooperative system, azide binding to methemoglobin, the alterations in exchange kinetics are proportional to the average degree of ligation. However, in the case of CO binding to deoxyhemoglobin the chang...

journal_title：Biochemistry

authors： Hallaway PE,Hallaway BE,Rosenberg A

更新日期：1984-01-17 00:00:00

abstract：:The repair of the endogenous lesion 8-oxo-7,8-dihydrodeoxyguanosine (8-oxodG) was investigated in the nucleotide excision repair mutant xeroderma pigmentosum D (XPD), using human normal or transformed XPD fibroblasts and the Chinese hamster XPD cell line UV5. In vivo repair of 8-oxodG induced by hydrogen peroxide trea...

journal_title：Biochemistry

authors： Cappelli E,Degan P,Thompson LH,Frosina G

更新日期：2000-08-29 00:00:00

abstract：:The mechanisms by which multisubunit histone acetyltransferase (HAT) complexes recognize and perform efficient acetylation on nucleosome substrates are largely unknown. Here, we use a variety of biochemical approaches and compare histone-based substrates of increasing complexity to determine the critical components of...

journal_title：Biochemistry

authors： Berndsen CE,Selleck W,McBryant SJ,Hansen JC,Tan S,Denu JM

更新日期：2007-02-27 00:00:00