Identification by proton nuclear magnetic resonance of the histidines in cytochrome b5 modified by diethyl pyrocarbonate.

Abstract:

:Diethyl pyrocarbonate (DEP) is an electrophilic reagent that is used to modify reversibly the histidine residues of proteins. Unfortunately, the lability of the acylated histidine adduct usually does not permit the isolation and identification of the modified histidine. By use of 500-MHz proton NMR spectroscopy, it has been possible to identify the C-H resonances of the nonaxial histidines of trypsin-solubilized bovine, rabbit, and porcine cytochrome b5 and therefore observe the interaction of DEP with specific histidine residues of cytochrome b5. In addition, the pKa of the peripheral histidines of bovine and rabbit cytochrome b5 have been measured in D2O. In the bovine protein it was found that the histidines are modified sequentially with increasing DEP concentration in the order His-26 greater than His-15 greater than His-80. This order is maintained in the rabbit protein with the following additions: His-26 approximately His-27 greater than His-15 greater than or equal to His-17 greater than His-80. The relative reactivity of the peripheral histidines with DEP was rationalized by considering three of their characteristics: (1) the pKa of the histidine, (2) the fraction of the side chain exposed to the solvent, and (3) the hydrogen-bond interactions of the imidazole ring.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Altman J,Lipka JJ,Kuntz I,Waskell L

doi

10.1021/bi00445a004

subject

Has Abstract

pub_date

1989-09-19 00:00:00

pages

7516-23

issue

19

eissn

0006-2960

issn

1520-4995

journal_volume

28

pub_type

杂志文章
  • An inhibitor of ribosomal peptidyl transferase using transition-state analogy.

    abstract::The phosphoramidate of CCdAp and puromycin (CCdApPuro) is a potent inhibitor of ribosomal peptidyl transferase, as assayed by the fragment reaction. Inhibition is competitive at the ribosomal A-site. CCdApPuro protects P-site-associated bases in the peptidyl transferase loop region of 23S rRNA from carbodiimide modifi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00002a001

    authors: Welch M,Chastang J,Yarus M

    更新日期:1995-01-17 00:00:00

  • Structural Analysis of Cj1427, an Essential NAD-Dependent Dehydrogenase for the Biosynthesis of the Heptose Residues in the Capsular Polysaccharides of Campylobacter jejuni.

    abstract::Many strains of Campylobacter jejuni display modified heptose residues in their capsular polysaccharides (CPS). The precursor heptose was previously shown to be GDP-d-glycero-α-d-manno-heptose, from which a variety of modifications of the sugar moiety have been observed. These modifications include the generation of 6...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00096

    authors: Huddleston JP,Anderson TK,Spencer KD,Thoden JB,Raushel FM,Holden HM

    更新日期:2020-04-07 00:00:00

  • Identification of a lysine residue at a nucleotide binding site in the firefly luciferase with p-fluorosulfonyl[14C]benzoyl-5'-adenosine.

    abstract::Firefly luciferase is 80-90% inactivated within 3 h upon incubation with the adenine nucleotide analogue p-fluorosulfonylbenzoyl-5'-adenosine (FSBA). Although 4 mol of 14C-FSBA/mol of enzyme is irreversibly bound during inactivation, only 1 mol of 14C-FSBA appears to be specifically directed to an adenine nucleotide b...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00508a031

    authors: Lee Y,Esch FS,DeLuca MA

    更新日期:1981-03-03 00:00:00

  • Large activation energy barriers to chaperone-peptide complex formation and dissociation.

    abstract::To probe the mechanism of chaperone substrate selection, we have investigated the kinetics of complex formation and dissociation between the molecular chaperone DnaK and a short peptide (Cro, representing amino acids 1-12 of the cro repressor protein). The Cro protein was N-terminally labeled with the environmentally ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00047a024

    authors: Farr CD,Galiano FJ,Witt SN

    更新日期:1995-11-28 00:00:00

  • Membrane fusion activity of the influenza virus hemagglutinin: interaction of HA2 N-terminal peptides with phospholipid vesicles.

    abstract::We have investigated the interaction of a number of synthetic 20-residue peptides, corresponding to the HA2 N-terminus of the influenza virus hemagglutinin (X31 strain), with phospholipid vesicles and monolayers. Besides the wild-type sequence, two peptides were studied with mutations corresponding to those previously...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00106a020

    authors: Rafalski M,Ortiz A,Rockwell A,van Ginkel LC,Lear JD,DeGrado WF,Wilschut J

    更新日期:1991-10-22 00:00:00

  • Selective inhibition by methoxyamine of the apurinic/apyrimidinic endonuclease activity associated with pyrimidine dimer-DNA glycosylases from Micrococcus luteus and bacteriophage T4.

    abstract::The UV endonucleases [endodeoxyribonuclease (pyrimidine dimer), EC 3.1.25.1] from Micrococcus luteus and bacteriophage T4 possess two catalytic activities specific for the site of cyclobutane pyrimidine dimers in UV-irradiated DNA: a DNA glycosylase that cleaves the 5'-glycosyl bond of the dimerized pyrimidines and an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00386a011

    authors: Liuzzi M,Weinfeld M,Paterson MC

    更新日期:1987-06-16 00:00:00

  • Expression and characterization of the two flavodoxin proteins of Bacillus subtilis, YkuN and YkuP: biophysical properties and interactions with cytochrome P450 BioI.

    abstract::The two flavodoxins (YkuN and YkuP) from Bacillus subtilis have been cloned, overexpressed in Escherichia coli and purified. DNA sequencing, mass spectrometry, and flavin-binding properties showed that both YkuN and YkuP were typical short-chain flavodoxins (158 and 151 amino acids, respectively) and that an error in ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi049131t

    authors: Lawson RJ,von Wachenfeldt C,Haq I,Perkins J,Munro AW

    更新日期:2004-10-05 00:00:00

  • Substrate-induced conformational changes of melibiose permease from Escherichia coli studied by infrared difference spectroscopy.

    abstract::Fourier transform infrared difference spectroscopy has been used to obtain information about substrate-induced structural changes of the melibiose permease (MelB) from Escherichia coli reconstituted into liposomes. Binding of the cosubstrate Na(+) gives rise to several peaks in the amide I and II regions of the differ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi048301z

    authors: León X,Lórenz-Fonfría VA,Lemonnier R,Leblanc G,Padrós E

    更新日期:2005-03-08 00:00:00

  • Phospholipid vesicle solubilization and reconstitution by detergents. Symmetrical analysis of the two processes using octaethylene glycol mono-n-dodecyl ether.

    abstract::The processes of liposome solubilization and reconstitution were studied by using n-dodecyl octaethylene glycol monoether (C12E8). The solubilization of large unilamellar liposomes prepared by reverse-phase evaporation was systematically investigated by turbidity, 31P nuclear magnetic resonance, and centrifugation exp...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00492a022

    authors: Levy D,Gulik A,Seigneuret M,Rigaud JL

    更新日期:1990-10-09 00:00:00

  • Unique guanine nucleotide binding properties of the human placental GTP-binding protein Gp.

    abstract::Gp is a major GTP-binding protein of human placenta and platelets [Evans, T., Brown, M. L., Fraser, E. D., & Northup, J. K. (1986) J. Biol. Chem. 261, 7052-7059]. High-affinity guanine nucleotide binding is associated with a polypeptide migrating identically with H-ras on SDS-PAGE. We have characterized the interactio...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00482a002

    authors: Tamir A,Fawzi AB,Northup JK

    更新日期:1990-07-31 00:00:00

  • Resonance energy transfer between the active sites of myocardial-type creatine kinase (isozyme MB).

    abstract::The single reactive sulfhydryl group, located in the active site of each subunit of dimeric creatine kinase from rabbit muscle (isozyme MM), was selectively labeled with 3-(4-maleimidylphenyl)-7-(diethylamino)-4-methylcoumarin (CPM). Isozyme BB, purified to homogeneity from rabbit brain, was conjugated with the sulfhy...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00292a018

    authors: Grossman SH

    更新日期:1983-11-08 00:00:00

  • A large solvent isotope effect on protein association thermodynamics.

    abstract::Solvent reorganization can contribute significantly to the energetics of protein-protein interactions. However, our knowledge of the magnitude of the energetic contribution is limited, in part, by a dearth of quantitative experimental measurements. The biotin repressor forms a homodimer as a prerequisite to DNA bindin...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi400952m

    authors: Eginton C,Beckett D

    更新日期:2013-09-24 00:00:00

  • Thermal unfolding and aggregation of human complement protein C9: a differential scanning calorimetry study.

    abstract::The thermotropic behavior of purified human complement protein C9 was investigated by high-sensitivity differential scanning calorimetry. When dissolved in physiological buffers (pH 7.2, 150 mM NaCl), C9 underwent three endothermic transitions with transition temperatures (Tm) centered at about 32, 48, and 53 degrees ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00240a035

    authors: Lohner K,Esser AF

    更新日期:1991-07-02 00:00:00

  • Presence of divalent cation is not mandatory for the formation of intramolecular purine-motif triplex containing human c-jun protooncogene target.

    abstract::Modulation of endogenous gene function, through sequence-specific recognition of double helical DNA via oligonucleotide-directed triplex formation, is a promising approach. Compared to the formation of pyrimidine motif triplexes, which require relatively low pH, purine motif appears to be the most gifted for their sta...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi1012589

    authors: Kaushik S,Kaushik M,Svinarchuk F,Malvy C,Fermandjian S,Kukreti S

    更新日期:2011-05-17 00:00:00

  • Activation of the dynein adenosinetriphosphatase by microtubules.

    abstract::Previous work has indicated that following the rapid adenosine 5'-triphosphate (ATP) induced dissociation of the microtubule-dynein complex, the rate-limiting step in the ATPase cycle is product release [Johnson, K. A. (1983) J. Biol. Chem. 258, 13825-13832], which occurs at a rate of approximately 2-6 s-1. In this re...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00350a022

    authors: Omoto CK,Johnson KA

    更新日期:1986-01-28 00:00:00

  • Coupling factor 1 from Escherichia coli lacking subunits delta and epsilon: preparation and specific binding to depleted membranes, mediated by subunits delta or epsilon.

    abstract::A procedure for the preparation of coupling factor 1 (F1) from Escherichia coli lacking subunits delta and epsilon is described. Using chloroform and dimethyl sulfoxide, we can isolate F1 containing only subunits alpha, beta, and gamma [F1(alpha beta gamma)] directly from membrane vesicles in 10-mg quantities. Pure an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00438a030

    authors: Tuttas-Dörschug R,Hanstein WG

    更新日期:1989-06-13 00:00:00

  • Tubulin Binding and Polymerization Promoting Properties of Tubulin Polymerization Promoting Proteins Are Evolutionarily Conserved.

    abstract::Tubulin polymerization promoting proteins (TPPPs) constitute a eukaryotic protein family. There are three TPPP paralogs in the human genome, denoted as TPPP1-TPPP3. TPPP1 and TPPP3 are intrinsically unstructured proteins (IUPs) that bind and polymerize tubulin and stabilize microtubules, but TPPP2 does not. Vertebrate...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.6b00902

    authors: Oláh J,Szénási T,Szabó A,Kovács K,Lőw P,Štifanić M,Orosz F

    更新日期:2017-02-21 00:00:00

  • Natural mutagenesis study of the human steroid 5 alpha-reductase 2 isozyme.

    abstract::The enzyme steroid 5 alpha-reductase utilizes NADPH to reduce the double bonds of a variety of steroid substrates with generalized 3-oxo, delta 4,5 structures. One substrate for this membrane-bound enzyme is testosterone, whose reduction to dihydrotestosterone is required for the embryonic differentiation of the exter...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00171a029

    authors: Wigley WC,Prihoda JS,Mowszowicz I,Mendonca BB,New MI,Wilson JD,Russell DW

    更新日期:1994-02-08 00:00:00

  • Rapid kinetics of dehalogenation promoted by iodotyrosine deiodinase from human thyroid.

    abstract::Reductive dehalogenation such as that catalyzed by iodotyrosine deiodinase (IYD) is highly unusual in aerobic organisms but necessary for iodide salvage from iodotyrosine generated during thyroxine biosynthesis. Equally unusual is the dependence of this process on flavin. Rapid kinetics have now been used to define th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00410

    authors: Bobyk KD,Ballou DP,Rokita SE

    更新日期:2015-07-28 00:00:00

  • Binding of metal cyanide complexes to bovine liver rhodanese in the crystalline state.

    abstract::Bovine liver rhodanese, which catalyzes the transfer of sulfur atoms between a variety of sulfur donor and sulfur acceptor substrates, is inhibited by metal cyanide complexes [Volini, M., Van Sweringen, B., & Chen, F.-Sh. (1978) Arch. Biochem. Biophys. 191, 205-215]. Crystallographic studies are described which reveal...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00281a026

    authors: Lijk LJ,Kalk KH,Brandenburg NP,Hol WG

    更新日期:1983-06-07 00:00:00

  • Picosecond tryptophan fluorescence of thioredoxin: evidence for discrete species in slow exchange.

    abstract::The steady-state tryptophan fluorescence and time-resolved tryptophan fluorescence of Escherichia coli thioredoxin, calf thymus thioredoxin, and yeast thioredoxin have been studied. In all proteins, the tryptophan residues undergo strong static and dynamic quenching, probably due to charge-transfer interactions with t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00434a038

    authors: Mérola F,Rigler R,Holmgren A,Brochon JC

    更新日期:1989-04-18 00:00:00

  • Purification and properties of nuclease SP.

    abstract::Single-strand-specific nucleases are a diverse and important group of enzymes that are able to cleave a variety of DNA structures present in duplex molecules. Nuclease SP, an enzyme from spinach, has been purified to apparent homogeneity, allowing for the unambiguous characterization of a number of its physical proper...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00104a026

    authors: Strickland JA,Marzilli LG,Puckett JM Jr,Doetsch PW

    更新日期:1991-10-08 00:00:00

  • Folding of an unfolded protein by macromolecular crowding in vitro.

    abstract::Protein folding in vivo takes place in a highly crowded environment. The resulting excluded volume forces are thought to stabilize folded forms of proteins. In agreement, many in vitro studies have shown that the presence of macromolecular crowding agents increases the stability of folded proteins but often by only a ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi500222g

    authors: Adén J,Wittung-Stafshede P

    更新日期:2014-04-15 00:00:00

  • Plant Translation Initiation Complex eIFiso4F Directs Pokeweed Antiviral Protein to Selectively Depurinate Uncapped Tobacco Etch Virus RNA.

    abstract::Pokeweed antiviral protein (PAP) is a ribosome inactivating protein (RIP) that depurinates the sarcin/ricin loop (SRL) of rRNA, inhibiting protein synthesis. PAP depurinates viral RNA, and in doing so, lowers the infectivity of many plant viruses. The mechanism by which PAP accesses uncapped viral RNA is not known, im...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.7b00598

    authors: Domashevskiy AV,Williams S,Kluge C,Cheng SY

    更新日期:2017-11-14 00:00:00

  • Assembly of dimeric variants of coumermycins by tandem action of the four biosynthetic enzymes CouL, CouM, CouP, and NovN.

    abstract::Coumermycin A(1) is a member of the aminocoumarin family of antibiotics. Unlike its structural relatives, novobiocin and clorobiocin, coumermycin A(1) is a dimer built on a 3-methyl-2,4-dicarboxypyrrole scaffold and bears two decorated noviose sugar components which are the putative target binding motifs for DNA gyras...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi048457z

    authors: Freel Meyers CL,Oberthür M,Heide L,Kahne D,Walsh CT

    更新日期:2004-11-30 00:00:00

  • Polymorphism of F-actin assembly. 2. Effects of barbed end capping on F-actin assembly.

    abstract::In the accompanying paper [Suzuki, A., Yamazaki, M., & Ito, T. (1996) Biochemistry 35, 5238-5244], we presented a quantitative phase diagram of actin filament ( (F-actin) described with the F-actin concentration and delta chi value which characterizes the affinity of F-actin with solvent. The phase diagram shows that ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9526948

    authors: Suzuki A,Ito T

    更新日期:1996-04-23 00:00:00

  • The R163K mutant of human thymidylate synthase is stabilized in an active conformation: structural asymmetry and reactivity of cysteine 195.

    abstract::Loop 181-197 of human thymidylate synthase (hTS) populates two conformational states. In the first state, Cys195, a residue crucial for catalytic activity, is in the active site (active conformer); in the other conformation, it is about 10 A away, outside the active site (inactive conformer). We have designed and expr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi7019386

    authors: Gibson LM,Lovelace LL,Lebioda L

    更新日期:2008-04-22 00:00:00

  • Angular scattering analysis of the circular dichroism of biological cells. 2. The red blood cell.

    abstract::A detailed interpretation of the grossly distorted ultraviolet absorption and circular dichroism spectra of the intact red blood cell is given, including an evaluation of the effects of protein conformation, detector geometry, cell hemoglobin content, and refractive index on the calculated cell spectra. The origins of...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00659a030

    authors: Gitter-Amir A,Schneider AS,Rosenheck K

    更新日期:1976-07-13 00:00:00

  • Substitutions of coenzyme-binding, nonpolar residues improve the low-temperature activity of thermophilic dehydrogenases.

    abstract::Although enzymes of thermophilic organisms are often very resistant to thermal denaturation, they are usually less active than their mesophilic or psychrophilic homologues at moderate or low temperatures. To explore the structural features that would improve the activity of a thermophilic enzyme at less than optimal t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi200925f

    authors: Hayashi S,Akanuma S,Onuki W,Tokunaga C,Yamagishi A

    更新日期:2011-10-11 00:00:00

  • Effect of β,γ-CHF- and β,γ-CHCl-dGTP halogen atom stereochemistry on the transition state of DNA polymerase β.

    abstract::Recently, we synthesized the first individual β,γ-CHX-dGTP diastereomers [(R)- or (S)-CHX, where X is F or Cl] and determined their structures in ternary complexes with DNA polymerase β (pol β). We now report stereospecificity by pol β on the mixed β,γ-CHX diastereomer pairs using nuclear magnetic resonance and on the...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi3010335

    authors: Oertell K,Wu Y,Zakharova VM,Kashemirov BA,Shock DD,Beard WA,Wilson SH,McKenna CE,Goodman MF

    更新日期:2012-10-30 00:00:00