Thermodynamic investigation into the mechanisms of proton-coupled electron transfer events in heme protein maquettes.

Abstract:

:To study the engineering requirements for proton pumping in energy-converting enzymes such as cytochrome c oxidase, the thermodynamics and mechanisms of proton-coupled electron transfer in two designed heme proteins are elucidated. Both heme protein maquettes chosen, heme b-[H10A24]2 and heme b-[delta7-His]2, are four-alpha-helix bundles that display pH-dependent heme midpoint potential modulations, or redox-Bohr effects. Detailed equilibrium binding studies of ferric and ferrous heme b with these maquettes allow the individual contributions of heme-protein association, iron-histidine ligation, and heme-protein electrostatics to be elucidated. These data demonstrate that the larger, less well-structured [H10A24]2 binds heme b in both oxidation states tighter than the smaller and more well-structured [Delta7-His]2 due to a stronger porphyrin-protein hydrophobic interaction. The 66 mV (1.5 kcal/mol) difference in their heme reduction potentials observed at pH 8.0 is due mostly to stabilization of ferrous heme in [H10A24]2 relative to [delta7-His]2. The data indicate that porphyrin-protein hydrophobic interactions and heme iron coordination are responsible for the Kd value of 37 nM for the heme b-[delta7-His]2 scaffold, while the affinity of heme b for [H10A24]2 is 20-fold tighter due to a combination of porphyrin-protein hydrophobic interactions, iron coordination, and electrostatic effects. The data also illustrate that the contribution of bis-His coordination to ferrous heme protein affinity is limited, <3.0 kcal/mol. The 1H+/1e- redox-Bohr effect of heme b-[H10A24]2 is due to the greater absolute stabilization of the ferric heme (4.1 kcal/mol) compared to the ferrous heme (1.4 kcal/mol) binding upon glutamic acid deprotonation, i.e., an electrostatic response mechanism. The 2H+/1e- redox-Bohr effect observed for heme b-[delta7-His]2 is due to histidine protonation and histidine dissociation of ferrous heme b upon reduction, i.e., a ligand loss mechanism. These results indicate that the contribution of porphyrin-protein hydrophobic interactions to heme affinity is critical to maintaining the heme bound in both oxidation states and eliciting an electrostatic response from these designed heme protein scaffolds.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Reddi AR,Reedy CJ,Mui S,Gibney BR

doi

10.1021/bi061607g

subject

Has Abstract

pub_date

2007-01-09 00:00:00

pages

291-305

issue

1

eissn

0006-2960

issn

1520-4995

journal_volume

46

pub_type

杂志文章
  • Regulated unmasking of the cryptic binding site for integrin alpha M beta 2 in the gamma C-domain of fibrinogen.

    abstract::Fibrinogen is a ligand for leukocyte integrin alpha(M)beta2 (CD11b/CD18, Mac-1) and mediates adhesion and migration of leukocytes during the immune-inflammatory responses. The binding site for alpha(M)beta2 resides in gammaC, a constituent subdomain in the D-domain of fibrinogen. The sequence gamma383-395 (P2-C) in ga...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi026324c

    authors: Lishko VK,Kudryk B,Yakubenko VP,Yee VC,Ugarova TP

    更新日期:2002-10-29 00:00:00

  • Characterization of a genomic and cDNA clone coding for the thioesterase domain and 3' noncoding region of the chicken liver fatty acid synthase gene.

    abstract::The fatty acid synthase (FAS) of animal tissue is a dimer of two identical subunits, each with a Mr of 260,000. The subunit is a single multifunctional protein having seven catalytic activities and a site for binding of the prosthetic group 4'-phosphopantetheine. The mRNA coding for the subunit has an estimated size o...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00420a029

    authors: Kasturi R,Chirala S,Pazirandeh M,Wakil SJ

    更新日期:1988-10-04 00:00:00

  • Purification of bovine thymus cytosolic C-terminal Src kinase (CSK) and demonstration of differential efficiencies of phosphorylation and inactivation of p56lyn and pp60c-src by CSK.

    abstract::The C-terminal src kinase (CSK) is a ubiquitously expressed, cytosolic enzyme capable of phosphorylating and inactivating several plasma membrane-bound src-family protein tyrosine kinases in vitro [Nada, S., Okada, M., MacAuley, A., Cooper, J.A., & Nakagawa, H. (1990) Nature 351, 69-72; Bergman, M., Mustelin, T., Oetk...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9603940

    authors: Cheng HC,Bjorge JD,Aebersold R,Fujita DJ,Wang JH

    更新日期:1996-09-10 00:00:00

  • Differential scanning calorimetry of the unfolding of myosin subfragment 1, subfragment 2, and heavy meromyosin.

    abstract::The thermal unfolding of rabbit skeletal heavy meromyosin (HMM), myosin subfragment 1, and subfragment 2 has been studied by differential scanning calorimetry (DSC). Two distinct endotherms are observed in the DSC scan of heavy meromyosin. The first endotherm, with a Tm of 41 degrees C at pH 7.9 in 0.1 M KCl, is assig...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00462a018

    authors: Shriver JW,Kamath U

    更新日期:1990-03-13 00:00:00

  • Structure of glucagon-like peptide (7-36) amide in a dodecylphosphocholine micelle as determined by 2D NMR.

    abstract::We have used 2D 1H NMR to determine the structure of glucagon-like peptide-1-(7-36) amide bound to a dodecylphosphocholine micelle. In this membranelike environment, the peptide hormone is shown to have a structure similar to that observed for glucagon. It consists of an N-terminal random coil segment (residues 1-7), ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00178a009

    authors: Thornton K,Gorenstein DG

    更新日期:1994-03-29 00:00:00

  • Membrane topology of the di- and tripeptide transport protein of Lactococcus lactis.

    abstract::Transport of hydrophilic di- and tripeptides into Lactococcus lactis is mediated by a proton motive force-driven peptide transport protein (DtpT) that shares similarity with eukaryotic peptide transporters, e.g., from kidney and small intestine of rabbit, man, and rat. Hydropathy profiling in combination with the "pos...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi963068t

    authors: Hagting A,vd Velde J,Poolman B,Konings WN

    更新日期:1997-06-03 00:00:00

  • Probing the dark state tertiary structure in the cytoplasmic domain of rhodopsin: proximities between amino acids deduced from spontaneous disulfide bond formation between Cys316 and engineered cysteines in cytoplasmic loop 1.

    abstract::A dark state tertiary structure in the cytoplasmic domain of rhodopsin is presumed to be the key to the restriction of binding of transducin and rhodopsin kinase to rhodopsin. Upon light-activation, this tertiary structure undergoes a conformational change to form a new structure, which is recognized by the above prot...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi010746p

    authors: Klein-Seetharaman J,Hwa J,Cai K,Altenbach C,Hubbell WL,Khorana HG

    更新日期:2001-10-23 00:00:00

  • Physical mechanism for regulation of phosphoenolpyruvate-dependent glucose transport activity in Escherichia coli.

    abstract::The activity of the phosphoenolpyruvate-dependent glucose phosphotransferase system (PTS) in Escherichia coli is coupled to the oxidation-reduction potential. It is inhibited when the redox potential is increased above -300 mV either via substrate oxidation or via direct addition of oxidizing agents. Depending on the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00520a032

    authors: Robillard GT,Konings WN

    更新日期:1981-08-18 00:00:00

  • Human alpha-fetoprotein primary structure: a mass spectrometric study.

    abstract::The amino acid sequence of human alpha-fetoprotein, a 67-kDa protein present in mammalian embryonic serum, was verified by fast atom bombardment mass spectrometric (FAB/MS) analyses of three different enzymatic digests of the protein. Human alpha-fetoprotein obtained from a large-scale cell culture was digested with t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00234a032

    authors: Pucci P,Siciliano R,Malorni A,Marino G,Tecce MF,Ceccarini C,Terrana B

    更新日期:1991-05-21 00:00:00

  • Substrate-induced conformational changes in Escherichia coli taurine/alpha-ketoglutarate dioxygenase and insight into the oligomeric structure.

    abstract::The enzymes in the alpha-ketoglutarate (alphaKG) dependent dioxygenase superfamily represent the largest class of non-heme iron oxidases and have important medical, ecological, and biotechnological roles. One such enzyme, taurine/alpha-ketoglutarate dioxygenase (TauD), catalyzes the conversion of 2-aminoethanesulfonat...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0341096

    authors: O'Brien JR,Schuller DJ,Yang VS,Dillard BD,Lanzilotta WN

    更新日期:2003-05-20 00:00:00

  • Sequence-selective targeting of long stretches of the DNA minor groove by a novel dimeric bis-benzimidazole.

    abstract::A dimeric bis-benzimidazole molecule has been designed by computer modeling to bind to a DNA sequence via the DNA minor groove that covers a complete turn of B-DNA. A series of bis-benzimidazole dimers incorporating a -O-(CH(2))(n)()-X-CH(2))(n)()-O- linker, with n = 2 or 3 and X = O or N(+)H(Me), were screened for th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi026926w

    authors: Joubert A,Sun XW,Johansson E,Bailly C,Mann J,Neidle S

    更新日期:2003-05-27 00:00:00

  • Multiple binding with identical linkage: a mechanism that explains the effect of lipoprotein(a) on fibrinolysis.

    abstract::We have previously shown that both recombinant apo(a) and native Lp(a) inhibit the binding of Glu-plasminogen to fibrin surfaces [Fleury & Anglés-Cano (1991) Biochemistry 30, 7630-7638; Rouy et al. (1992) Biochemistry 31, 6332-6339]. The aim of the present study was to characterize the mechanism of this inhibition and...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00041a011

    authors: Hervio L,Durlach V,Girard-Globa A,Anglés-Cano E

    更新日期:1995-10-17 00:00:00

  • Insulin regulation of hepatic glycogen synthase and phosphorylase.

    abstract::The relative roles of insulin and glucose in the regulation of hepatic glycogen synthase and phosphorylase were studied in hepatocytes from fed rats. Elevation of extra-cellular glucose led to a rapid decrease in phosphorylase a activity followed by a slower increase in glycogen synthase I activity. A reciprocal and c...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00596a004

    authors: Witters LA,Avruch J

    更新日期:1978-02-07 00:00:00

  • Direct evidence for multifacial contacts between high molecular weight kininogen and plasma prekallikrein.

    abstract::HK31 (S565-K595) has previously been shown to encompass the binding domain for plasma prekallikrein (PK) within domain 6 of high molecular weight kininogen (HK). The complementary binding domain for HK within PK is mapped to PK56 (F56-G86), in the apple 1 domain, and to PK266 (K266-C295), in the apple 4 domain. Isothe...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi960547j

    authors: Lin Y,Shenoy SS,Harris RB,Colman RW

    更新日期:1996-10-01 00:00:00

  • The EcoRI-DNA complex as a model for investigating protein-DNA interactions by atomic force microscopy.

    abstract::Atomic force microscopy (AFM) is a technique widely used to image protein-DNA complexes, and its application has now been extended to the measurements of protein-DNA binding constants and specificities. However, the spreading of the protein-DNA complexes on a flat substrate, generally mica, is required prior to AFM im...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi060293u

    authors: Sorel I,Piétrement O,Hamon L,Baconnais S,Cam EL,Pastré D

    更新日期:2006-12-12 00:00:00

  • Single-molecule studies of bacterial protein translocation.

    abstract::In prokaryotes, a large share of the proteins are secreted from the cell through a process that requires their translocation across the cytoplasmic membrane. This process is mediated by the universally conserved Sec system with homologues in the endoplasmic reticulum and thylakoid membranes of eukaryotes. The Sec syst...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi400913x

    authors: Kedrov A,Kusters I,Driessen AJ

    更新日期:2013-10-01 00:00:00

  • Detergent solubilization of the endocytic Ca(2+)-independent hyaluronan receptor from rat liver endothelial cells and separation from a Ca(2+)-dependent hyaluronan-binding activity.

    abstract::Rat liver sinusoidal endothelial cells (LECs) mediate the removal of hyaluronan (HA) from the circulation via a specific Ca(2+)-independent endocytic receptor. To characterize the receptor biochemically, detergent-soluble extracts were prepared from crude LEC membranes. Using a dot blot assay to quantitate 125I-HA bin...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00117a039

    authors: Yannariello-Brown J,Weigel PH

    更新日期:1992-01-21 00:00:00

  • Studies on the hydrolytic properties of (serine) carboxypeptidase Y.

    abstract::The activity of serine carboxypeptidases is dependent on a catalytic triad, an oxyanion hole, and a binding site equivalent to those found in the serine endopeptidases. The action of carboxypeptidase Y on substrates containing amino acids, alcohols, and amines as leaving groups is described. It is demonstrated that th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi952758e

    authors: Stennicke HR,Mortensen UH,Breddam K

    更新日期:1996-06-04 00:00:00

  • Purification and characteristics of photoreceptor light-activated guanosinetriphosphatase.

    abstract::We describe a reconstitution of light-activated vertebrate photoreceptor GTPase and a purification of the GTP-binding protein (G protein), which is a component of the GTPase and modulates the light-activated phosphodiesterase (PDE) enzyme system. Rod outer segments (ROS) of bull frogs were treated with ethylenediamine...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00528a003

    authors: Shinozawa T,Bitensky MW

    更新日期:1981-12-08 00:00:00

  • The carboxyl-terminal region of factor IX is essential for its secretion.

    abstract::The carboxyl-terminal region of factor IX (residues 403-415) contains several natural mutations which result in mild to severe forms of hemophilia B. A battery of factor IX minigene expression vectors carrying various mutations in the C-terminal region were constructed and studied by transient expression assay using H...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi962002v

    authors: Kurachi S,Pantazatos DP,Kurachi K

    更新日期:1997-04-08 00:00:00

  • Catalysis at the interface: the anatomy of a conformational change in a triglyceride lipase.

    abstract::The crystal structure of an extracellular triglyceride lipase (from a fungus Rhizomucor miehei) inhibited irreversibly by diethyl p-nitrophenyl phosphate (E600) was solved by X-ray crystallographic methods and refined to a resolution of 2.65 A. The crystals are isomorphous with those of n-hexylphosphonate ethyl ester/...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00120a034

    authors: Derewenda U,Brzozowski AM,Lawson DM,Derewenda ZS

    更新日期:1992-02-11 00:00:00

  • Molecular insights into the metal selectivity of the copper(I)-sensing repressor CsoR from Bacillus subtilis.

    abstract::Bacillus subtilis CsoR (Bsu CsoR) is a copper-sensing transcriptional repressor that regulates the expression of the copZA operon encoding a copper chaperone and a Cu efflux P-type ATPase, respectively. Bsu CsoR is a homologue of Mycobacterium tuberculosis CsoR (Mtb CsoR), representative of a large Cu(I)-sensing regul...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi900115w

    authors: Ma Z,Cowart DM,Scott RA,Giedroc DP

    更新日期:2009-04-21 00:00:00

  • Rat kidney L-alpha-hydroxy acid oxidase: isolation of enzyme with one flavine coenzyme per two subunits.

    abstract::L-alpha-Hydroxy acid oxidase (listed as EC 1.4.3.2, L-amino acid: O2 oxidoreductase) has been purified 100-fold from rat kidney to apparent homogeneity by gel electrophoresis. A subunit molecular weight of 47,500 was found by sodium dodecyl sulfate gel electrophoresis, but in contrast to previous reports, the enzyme h...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00683a005

    authors: Cromartie TH,Walsh CT

    更新日期:1975-06-17 00:00:00

  • Conformationally restricted thrombin inhibitors resistant to proteolytic digestion.

    abstract::A new type of thrombin exo-site inhibitor has been designed with enhanced inhibitory potency and increased metabolic stability. With the aid of the model of the structure of the thrombin-hirudin fragment complex [Yue, S.-Y., DiMaio, J., Szewczuk, Z., Purisima, E. O., Ni, F., & Konishi, Y. (1992) Protein Eng. 5, 77-85]...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00153a004

    authors: Szewczuk Z,Gibbs BF,Yue SY,Purisima EO,Konishi Y

    更新日期:1992-09-29 00:00:00

  • Translesional synthesis on DNA templates containing an estrogen quinone-derived adduct: N2-(2-hydroxyestron-6-yl)-2'-deoxyguanosine and N6-(2-hydroxyestron-6-yl)-2'-deoxyadenosine.

    abstract::Miscoding properties induced by estrogen quinone-derived DNA adducts were analyzed using an in vitro experimental system to quantify base substitutions and deletions. Site-specifically modified oligodeoxynucleotides containing a single N2-(2-hydroxyestron-6-yl)-2'-deoxyguanosine (2-OHE1-N2-dG) or N6-(2-hydroxyestron-6...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi981235e

    authors: Terashima I,Suzuki N,Dasaradhi L,Tan CK,Downey KM,Shibutani S

    更新日期:1998-09-29 00:00:00

  • Comparative studies on the 7-iodo and 7-fluoro derivatives of N-acetoxy-N-2-acetylaminofluorene: binding sites on DNA and conformational change of modified deoxytrinucleotides.

    abstract::GMP and native DNA were reacted with 7-iodo and 7-fluoro derivatives of N-acetoxy-N-2-acetylaminofluorene. It was shown that the 7-halogeno derivatives react on C-8 of guanine. Furthermore the respective amount of arylamidation (covalent linkage on the C-8 of guanine) and arylation (covalent linkage on 2-NH2 groups of...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00606a016

    authors: Lefèvre JF,Fuchs RP,Daune MP

    更新日期:1978-06-27 00:00:00

  • Effects of oxidation on the structure and stability of human low-density lipoprotein.

    abstract::Oxidation of low-density lipoprotein (LDL), the major cholesterol carrier in plasma, is thought to promote atherogenesis via several mechanisms. One proposed mechanism involves fusion of oxidized LDL in the arterial wall; another involves oxidation-induced amyloid formation by LDL apolipoprotein B. To test these mecha...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi700225a

    authors: Jayaraman S,Gantz DL,Gursky O

    更新日期:2007-05-15 00:00:00

  • Acetaldehyde--enkephalins: structure proof and some conformational deductions from one- and two-dimensional proton nuclear magnetic resonance spectra.

    abstract::The structure of the adduct formed by reaction of acetaldehyde and Met5-enkephalin has been determined by analysis of 400-MHz proton spectra: two-dimensional J spectroscopy was used to resolve and measure virtually all the overlapping resonances, and decoupling difference spectroscopy was used to assign the resonances...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00516a033

    authors: Gidley MJ,Hall LD,Sanders JK,Summers MC

    更新日期:1981-06-23 00:00:00

  • Calorimetric studies of ligands binding to glutathione S-transferase from the malarial parasite Plasmodium falciparum.

    abstract::Glutathione S-transferase, from the malarial parasite Plasmodium falciparum (PfGST), exerts a protective role in the organism and is thus considered an interesting target for antimalarial drug development. In contrast to other GSTs, it is present in solution as a tetramer and a dimer in equilibrium, which is induced b...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi400007g

    authors: Quesada-Soriano I,Barón C,García-Maroto F,Aguilera AM,García-Fuentes L

    更新日期:2013-03-19 00:00:00

  • Calmodulin-dependent autophosphorylation of smooth muscle myosin light chain kinase: intermolecular reaction mechanism via dimerization of the kinase and potentiation of the catalytic activity following activation.

    abstract::In the presence of Ca2+ and calmodulin (CM), purified smooth muscle myosin light chain kinase (MLCKase) was found to undergo autophosphorylation at a rate that was about 200-fold slower than its catalytic activity. Up to 1.7 mol of phosphate were incorporated per mole of kinase. Lower levels of incorporation could be ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00037a025

    authors: Sobieszek A

    更新日期:1995-09-19 00:00:00