Abstract:
:We report nuclear magnetic resonance (NMR) data indicating that the Rieske protein from the cytochrome bc complex of Thermus thermophilus (TtRp) undergoes modest redox-state-dependent and ligand-dependent conformational changes. To test models concerning the mechanism by which TtRp transfers between different sites on the complex, we monitored (1)H, (15)N, and (13)C NMR signals as a function of the redox state and molar ratio of added ligand. Our studies of full-length TtRp were conducted in the presence of dodecyl phosphocholine micelles to solvate the membrane anchor of the protein and the hydrophobic tail of the ligand (hydroubiquinone). NMR data indicated that hydroubiquinone binds to TtRp and stabilizes an altered protein conformation. We utilized a truncated form of the Rieske protein lacking the membrane anchor (trunc-TtRp) to investigate redox-state-dependent conformational changes. Local chemical shift perturbations suggested possible conformational changes at prolyl residues. Detailed investigations showed that all observable prolyl residues of oxidized trunc-TtRp have trans peptide bond configurations but that two of these peptide bonds (Cys151-Pro152 and Gly169-Pro170 located near the iron-sulfur cluster) become cis in the reduced protein. Changes in the chemical shifts of backbone signals provided evidence of redox-state- and ligand-dependent conformational changes localized near the iron-sulfur cluster. These structural changes may alter interactions between the Rieske protein and the cytochrome b and c sites and provide part of the driving force for movement of the Rieske protein between these two sites.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Hsueh KL,Tonelli M,Cai K,Westler WM,Markley JLdoi
10.1021/bi400296csubject
Has Abstractpub_date
2013-04-30 00:00:00pages
2862-73issue
17eissn
0006-2960issn
1520-4995journal_volume
52pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract::The structural domains of human apolipoprotein(a) (apo(a)) in the lipoprotein(a) (Lp(a)) particle have been recently investigated by limited proteolysis [Huby, T., Doucet, C., Dieplinger, H., Chapman, J., & Thillet, J. (1994) Biochemistry 33, 3335-3341]. We have shown that apo(a) can be cleaved into two structural dom...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00022a011
更新日期:1995-06-06 00:00:00
abstract::The murine urokinase-type plasminogen activator (uPA) gene has been isolated from a BALB/c liver DNA cosmid library and its nucleotide sequence established. The gene is organized into 11 exons comprising 34.7% of the 6710 base pair (bp) region spanning the interval between the presumed transcription initiation and pol...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00399a038
更新日期:1987-12-15 00:00:00
abstract::Homoserine kinase, an enzyme in the aspartate pathway of amino acid biosynthesis in Escherichia coli, catalyzes the conversion of L-homoserine to L-homoserine phosphate. This enzyme has been found to have broad substrate specificity, including the phosphorylation of L-homoserine analogs where the carboxyl functional g...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi962203z
更新日期:1996-12-17 00:00:00
abstract::A metabolite of vitamin D has been isolated in pure form from incubation of 25-hydroxyvitamin D3 with embryonic chick calvarial cells that had been grown on Cytodex 1 microcarrier beads. The isolation involved dichloromethane extraction of the cells and incubation medium, followed by Sephadex LH-20 column chromatograp...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00274a012
更新日期:1983-03-01 00:00:00
abstract::Glutamine 143 in human manganese superoxide dismutase (MnSOD) forms a hydrogen bond with the manganese-bound solvent molecule and is investigated by replacement using site-specific mutagenesis. Crystal structures showed that the replacement of Gln 143 with Ala made no significant change in the overall structure of the...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi9929958
更新日期:2000-06-20 00:00:00
abstract::The present study was undertaken for the purpose of evaluating the solvent perturbation technique as a method to identify enzyme catalytic residues. For establishment of expected directions and sizes of pKa perturbations for different types of acids in different classes of solvents, a study of the pKa of a series of a...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00287a013
更新日期:1983-08-30 00:00:00
abstract::The plasma membrane serotonin transporter (SERT) has an important role in terminating serotonergic neurotransmission by re-uptake of 5-HT from the synaptic cleft. The expression of SERT on the cell surface is therefore a critical factor. In this study, we examined the role of the carboxyl terminus of SERT in trafficki...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi0508688
更新日期:2006-01-31 00:00:00
abstract::The data and approach reported in paper I (Hanlon et al., 1975, preceding paper) have been used to calculate the fractional changes in secondary structure of calf thymus deoxyribonucleic acid which occur in aqueous solutions as a function of the concentration of NaCl, KCl, LiCl, CsCl, and NH4Cl. There is a continuous ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00679a018
更新日期:1975-04-22 00:00:00
abstract::The chemical mechanism of the phosphoribosyltransferases (PRTases), although largely unknown, may proceed either via a concerted direct-transfer mechanism or with a two-step mechanism involving a carboxonium-like intermediate. To study this question, we have cloned the Salmonella typhimurium pyrE gene, coding for the ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00498a009
更新日期:1990-11-20 00:00:00
abstract::We have studied the effect of the binding of ribosomal protein S1 and initiation factor IF3 on the accessibility of nucleotide residues 584-1506 in the small subunit of the Escherichia coli ribosome. Protein S1 strongly decreases RNase V1 attack at G1164, in hairpin 40 of the 3' major domain, and weakly decreases DMS ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00112a007
更新日期:1991-12-03 00:00:00
abstract::A 16-mer deoxyribonucleotide was labeled at the 5'-end with x-rhodamine and at the 3'-end with fluorescein. Förster resonance energy transfer was used to determine the distribution, P(R), of donor-acceptor distances for the oligomer in three duplex structures (hybridized to complementary strands having 10, 16, and 24 ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00001a036
更新日期:1995-01-10 00:00:00
abstract::Proton nuclear magnetic resonance spectra of human hemoglobins in water reveal several exchangeable protons which are indicators of the quaternary structures of both the liganded and unliganded molecules. A comparison of the spectra of normal human adult hemoglobin with those of mutant hemoglobins Chesapeake (FG4alpha...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00682a036
更新日期:1975-06-03 00:00:00
abstract::By classical competitive antagonism, a substrate and competitive inhibitor must bind mutually exclusively to the active site. The competitive inhibition of O-acetyl serine sulfhydrylase (OASS) by the C-terminus of serine acetyltransferase (SAT) presents a paradox, because the C-terminus of SAT binds to the active site...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.7b00500
更新日期:2017-09-19 00:00:00
abstract::The red pigments in meat products, including cooked cured ham, arise from the reaction of myoglobin with nitric oxide generated from exogenous nitrite. Since carcinogenic nitrosoamines may be generated by the treatment of meats with nitrite, the production of nitrite-free meat products is an attractive alternative. Ra...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi701460x
更新日期:2007-12-25 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
pub_type: 杂志文章
doi:10.1021/acs.biochem.8b01033
更新日期:2019-01-15 00:00:00
abstract::Eukaryotic transfer RNA precursors (pre-tRNAs) contain a 5' leader preceding the aminoacyl acceptor stem and a 3' trailer extending beyond this stem. An early step in pre-tRNA maturation is removal of the 5' leader by the endoribonuclease, RNase P. Extensive pairing between leader and trailer sequences has previously ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi000603n
更新日期:2000-08-15 00:00:00
abstract::Thermal unfolding of discoidal complexes of apolipoprotein (apo) C-1 with dimyristoyl phosphatidylcholine (DMPC) reveals a novel mechanism of lipoprotein stabilization that is based on kinetics rather than thermodynamics. Far-UV CD melting curves recorded at several heating/cooling rates from 0.047 to 1.34 K/min show ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi025588w
更新日期:2002-06-11 00:00:00
abstract::The catalytically competent active-site structure of a true acylenzyme reaction intermediate of TEM-1 beta-lactamase formed with the kinetically specific spin-labeled substrate 6-N-(2,2,5,5-tetramethyl-1-oxypyrrolinyl-3-carboxyl)-penicillanic acid isolated under cryoenzymologic conditions has been determined by angle-...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi0021075
更新日期:2001-02-27 00:00:00
abstract::Thermobifida fusca Cel9A-90, an unusual family 9 enzyme, is a processive endoglucanase containing a catalytic domain closely linked to a family 3c cellulose binding domain (Cel9A-68) followed by a fibronectin III-like domain and a family 2 cellulose binding domain. To study its catalytic mechanism, 12 mutant genes wit...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi049394n
更新日期:2004-08-03 00:00:00
abstract::Nine monoclonal antibodies were used to test calcium and EDTA effects on the molecular conformation of ventricular VLC2 within myosin. Antibody epitopes were located in six domains of VLC2 using recombinant proteins. The apparent association constants of these antibodies were measured in solution in the presence of ca...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00208a005
更新日期:1994-10-25 00:00:00
abstract::Calmodulin-dependent protein phosphatase, one of the major calmodulin-binding proteins in bovine brain, dephosphorylates casein with a specific activity of 15 nmol mg-1 min-1 at 30 degrees C. The stimulation of phosphatase activity by calmodulin is reversed by ethylene glycol bis (beta-aminoethyl ether)-N,N,N',N'-tetr...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00284a014
更新日期:1983-07-19 00:00:00
abstract::Gemcitabine 5'-diphosphate (F(2)CDP) is a potent inhibitor of ribonucleotide reductases (RNRs), enzymes that convert nucleotides (NDPs) to deoxynucleotides and are essential for DNA replication and repair. The Escherichia coli RNR, an alpha2beta2 complex, when incubated with 1 equiv of F(2)CDP catalyzes the release of...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi901590q
更新日期:2009-12-15 00:00:00
abstract::The temperature dependence of the hydrogen-tritium and deuterium-hydrogen exchange reactions in poly(DL-alanine) has been reexamined. The results indicate a significant contribution to the observed exchange rates from the water-catalyzed reaction at pD values near pDmin. The activation enthalpy for water-catalyzed deu...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00273a031
更新日期:1983-02-15 00:00:00
abstract::Native calf thymus DNA was reacted with N-acetoxy-N-2-acetylaminofluorene (N-AcO-AAF) and its 7-fluoro and 7-iodo derivatives. Different ways of purification of the fluorene modified DNA samples were checked in order ot obtain a nucleic acid free from all noncovalently bound fluorene residues. The decrease in melting ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00660a027
更新日期:1976-07-27 00:00:00
abstract::A member of the SF2 family of helicases, Escherichia coli RecQ, is involved in the recombination and repair of double-stranded DNA breaks and single-stranded DNA (ssDNA) gaps. Although the unwinding activity of this helicase has been studied biochemically, the mechanism of translocation remains unclear. To this end, u...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi3000676
更新日期:2012-04-03 00:00:00
abstract::Fibronectin is composed of multiple homologous repeats and contains many functional domains. Two major heparin-binding domains have previously been identified: the Hep I site near the amino terminus and the Hep II site near the carboxyl terminus. The Hep II site has been considered the high-affinity heparin-binding si...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi991624o
更新日期:2000-03-28 00:00:00
abstract::Steady-state and transient-state analysis of Coprinus cinereus peroxidase, CIP (identical to Arthromyces ramosus peroxidase), was used to characterize the kinetics of the three fundamental steps in heme peroxidase catalysis: compound I (cpd I) formation, cpd I reduction, and compound II (cpd II) reduction. The rate co...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi970387r
更新日期:1997-08-05 00:00:00
abstract::To address the targeting of G protein-coupled receptors to caveolae-related lipid rafts (CLR), we studied the human B2 (B2R) and B1 (B1R) bradykinin receptor subtypes in HEK293 cells. CLR were enriched on the basis of their unique buoyant density and composition of cholesterol, caveolin-1, and flotillin-1 but not clat...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi020231d
更新日期:2002-12-03 00:00:00
abstract::The pivotal role of the Arg-Gly-Asp (RGD) peptide motif in integrin-mediated cell adhesive interactions with extracellular matrix and plasma proteins stimulated the present design of nonpeptidic mimetics of this sequence. To probe the structural requirements for RGD recognition by integrins, we designed various struct...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00055a002
更新日期:1993-02-02 00:00:00
abstract::Coiled coils are simple models for studying the association of two polypeptide chains to form a folded protein. Previous work has shown that the folding of a coiled coil can be described by a two-state transition between two unfolded monomeric peptide chains and a folded coiled coil dimer. Here we report the thermodyn...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi002161l
更新日期:2001-03-27 00:00:00