Influence of an extrinsic cross-link on the folding pathway of ribonuclease A. Kinetics of folding-unfolding.

Abstract:

:The kinetics of folding/unfolding of cross-linked Lys7-dinitrophenylene-Lys41-ribonuclease A were studied and compared to those of unmodified ribonuclease A (RNase A) at various concentrations of guanidine hydrochloride. The folding of the denatured cross-linked protein involved one fast-folding species (22 +/- 4%) and two slow-folding species, as observed in unmodified ribonuclease A. Also, a nativelike intermediate, analogous to that reported previously for unmodified ribonuclease A [Cook, K. H., Schmid, F. X., & Baldwin, R. L. (1979) Proc. Natl. Acad. Sci. U.S.A. 76, 6157], has been detected on the folding pathway of cross-linked ribonuclease A. The extrinsic cross-link between Lys7 and Lys41 did not affect the rate constants for the folding kinetics of these three species. The cross-link did, however, significantly affect the rate constant for unfolding of the native protein. The conformation of the protein in the transition state of the unfolding pathway was deduced from an analysis of the kinetic data. It appears that the 41 N-terminal residues are unfolded in the transition state of the unfolding pathway. Thus, the unfolding pathway of RNase A is sequential in that further unfolding (after the transition state) follows the unfolding of the 41 N-terminal residues. Also, the conformation of the 41 N-terminal residues does not play a role in the folding pathway. Presumably, if the cross-link were introduced instead between two other residues that are in the segment(s) involved in the rate-limiting step(s), it could increase the refolding rate constants and possibly the concentration of fast-folding species.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Lin SH,Konishi Y,Nall BT,Scheraga HA

doi

10.1021/bi00332a013

subject

Has Abstract

pub_date

1985-05-21 00:00:00

pages

2680-6

issue

11

eissn

0006-2960

issn

1520-4995

journal_volume

24

pub_type

杂志文章
  • Purification and characterization of corn glutathione S-transferase.

    abstract::Two glutathione S-transferase (GST) activities have been identified and purified from etiolated corn tissue. The first, designated GST I enzyme, is constitutively present in corn tissue, and the second, designated GST II enzyme, is present only in tissue which has been treated with chemical antidotes which protect cor...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00274a011

    authors: Mozer TJ,Tiemeier DC,Jaworski EG

    更新日期:1983-03-01 00:00:00

  • Inactivation of steroid sulfatase by an active site-directed inhibitor, estrone-3-O-sulfamate.

    abstract::Steroid sulfatases are responsible for the hydrolysis of 3beta-hydroxy steroid sulfates, such as cholesterol and pregnenolone sulfate, and have an important role in regulating the synthesis of estrogenic steroids, from estrone sulfate and dehydroepiandrosterone sulfate, in endocrine-dependent tumors. Although little i...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00036a025

    authors: Purohit A,Williams GJ,Howarth NM,Potter BV,Reed MJ

    更新日期:1995-09-12 00:00:00

  • Distance between the visible copper and cytochrome a in bovine heart cytochrome oxidase.

    abstract::Electron paramagnetic resonance (EPR) at 15 K was used to probe the magnetic interaction between the visible copper CuA2+ and ferric cytochrome a in the carbon monoxide compound of beef heart cytochrome oxidase. At pH 8.6, the midpoint potentials (Em's) for one-electron oxidation of CuA+ and cytochrome a2+ were found ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00330a028

    authors: Goodman G,Leigh JS Jr

    更新日期:1985-04-23 00:00:00

  • E6*, the 50 amino acid product of the most abundant spliced transcript of the e6 oncoprotein in high-risk human papillomavirus, is a promiscuous folder and binder.

    abstract::High-risk human papillomavirus E6 participates in tumorigenic progression, mainly by its ability to promote p53 degradation. HPV transcripts show a complex splicing pattern, where E6* is the most abundant transcript in high-risk HPV types, comprising the first 50 amino acids of E6. No structural or biochemical informa...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi101941c

    authors: Heer A,Alonso LG,de Prat-Gay G

    更新日期:2011-03-01 00:00:00

  • Analysis of substrate access to active sites in bacterial multicomponent monooxygenase hydroxylases: X-ray crystal structure of xenon-pressurized phenol hydroxylase from Pseudomonas sp. OX1.

    abstract::In all structurally characterized bacterial multicomponent monooxygenase (BMM) hydroxylase proteins, a series of hydrophobic cavities in the α-subunit trace a conserved path from the protein exterior to the carboxylate-bridged diiron active site. This study examines these cavities as a potential route for transport of...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi201248b

    authors: McCormick MS,Lippard SJ

    更新日期:2011-12-27 00:00:00

  • Influence of the calcium-induced gel phase on the behavior of small molecules in phosphatidylserine and phosphatidylserine-phosphatidylcholine multilamellar vesicles.

    abstract::The behavior of fluorescent and spin-label probes is examined in several fluid and gel phospholipid phases, with particular focus on the Ca2+-induced gel phase in phosphatidylserine (PS). These probes have behavior characteristic of the type of probe and of the type of lipid environment. Anthroyloxy- and doxyl-labeled...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00380a039

    authors: Florine KI,Feigenson GW

    更新日期:1987-03-24 00:00:00

  • Inactivation of photoexcited rhodopsin in retinal rods: the roles of rhodopsin kinase and 48-kDa protein (arrestin).

    abstract::The inactivation of excited rhodopsin in the presence of ATP, rhodopsin kinase, and/or arrestin has been studied from its effect on the two subsequent steps in the light-induced enzymatic cascade: metarhodopsin II catalyzed activation of G-protein and G-protein-dependent activation of cGMP phosphodiesterase. The inact...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00405a049

    authors: Bennett N,Sitaramayya A

    更新日期:1988-03-08 00:00:00

  • High-yield cleavage of tryptophanyl peptide bonds by o-iodosobenzoic acid.

    abstract::A new procedure to cleave tryptophanyl peptide bonds in high yield is reported. The method involves treatment of the S-alkylated protein with o-iodosobenzoic acid. The procedure is highly selective for tryptophan and does not modify tyrosine or histidine, but may convert methionine to its sulfoxide derivative. The yie...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00584a026

    authors: Mahoney WC,Hermodson MA

    更新日期:1979-08-21 00:00:00

  • Structure and polymorphism of saturated monoacid 1,2-diacyl-sn-glycerols.

    abstract::The 1,2-diacyl-sn-glycerols (1,2-DGs) are the predominant naturally occurring isomer found in cell membranes, lipid droplets, and lipoproteins. They are involved in the metabolism of monoacylglycerols, triacylglycerols, and phospholipids. The 1,2-DGs participate in the activation of protein kinase C, in phosphorylatio...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00500a008

    authors: Kodali DR,Fahey DA,Small DM

    更新日期:1990-12-04 00:00:00

  • Comparative mutagenesis of O6-methylguanine and O4-methylthymine in Escherichia coli.

    abstract::The qualitative and quantitative features of mutagenesis by two DNA adducts of carcinogenic alkylating agents, O6-methylguanine (m6G) and O4-methylthymine (m4T), were examined in vivo. The deoxyhexanucleotides 5'-GCTAGC-3' and 5'-GCTAGC-3' were synthesized, where the underlined bases are the positions of m4T or m6G, r...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00242a031

    authors: Dosanjh MK,Singer B,Essigmann JM

    更新日期:1991-07-16 00:00:00

  • Insights into the inhibition of the p90 ribosomal S6 kinase (RSK) by the flavonol glycoside SL0101 from the 1.5 Å crystal structure of the N-terminal domain of RSK2 with bound inhibitor.

    abstract::The p90 ribosomal S6 family of kinases (RSK) are potential drug targets, due to their involvement in cancer and other pathologies. There are currently only two known selective inhibitors of RSK, but the basis for selectivity is not known. One of these inhibitors is a naturally occurring kaempferol-α-L-diacetylrhamnosi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi300620c

    authors: Utepbergenov D,Derewenda U,Olekhnovich N,Szukalska G,Banerjee B,Hilinski MK,Lannigan DA,Stukenberg PT,Derewenda ZS

    更新日期:2012-08-21 00:00:00

  • Sulfotransferase 1A1 Substrate Selectivity: A Molecular Clamp Mechanism.

    abstract::The human cytosolic sulfotransferases (SULTs) regulate hundreds, perhaps thousands, of small molecule metabolites and xenobiotics via transfer of a sulfuryl moiety (-SO3) from PAPS (3'-phosphoadenosine 5'-phosphosulfate) to the hydroxyls and primary amines of the recipients. In liver, where it is abundant, SULT1A1 eng...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00406

    authors: Cook I,Wang T,Leyh TS

    更新日期:2015-10-06 00:00:00

  • Three-dimensional structure of chymotrypsin inactivated with (2S)-N-acetyl-L-alanyl-L-phenylalanyl alpha-chloroethane: implications for the mechanism of inactivation of serine proteases by chloroketones.

    abstract::The reaction of enantiomerically pure (2S)-N-acetyl-L-alanyl-L-phenylalanyl alpha-chloroethane with gamma-chymotrypsin was studied as a probe of the mechanism of inactivation of serine proteases by peptidyl chloroalkanes. It was determined crystallographically that the peptidyl chloroethane alkylates His57 with retent...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00250a033

    authors: Kreutter K,Steinmetz AC,Liang TC,Prorok M,Abeles RH,Ringe D

    更新日期:1994-11-22 00:00:00

  • Structure of an active soluble mutant of the membrane-associated (S)-mandelate dehydrogenase.

    abstract::The structure of an active mutant of (S)-mandelate dehydrogenase (MDH-GOX2) from Pseudomonas putida has been determined at 2.15 A resolution. The membrane-associated flavoenzyme (S)-mandelate dehydrogenase (MDH) catalyzes the oxidation of (S)-mandelate to give a flavin hydroquinone intermediate which is subsequently r...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi010938k

    authors: Sukumar N,Xu Y,Gatti DL,Mitra B,Mathews FS

    更新日期:2001-08-21 00:00:00

  • Solution structure of the DNA methyl phosphotriester repair domain of Escherichia coli Ada.

    abstract::The Escherichia coli Ada protein repairs methyl phosphotriesters in DNA by direct, irreversible methyl transfer to one of its own cysteine residues. The methyl-transfer process appears to be autocatalyzed by coordination of the acceptor residue, Cys-69, to a tightly bound zinc ion. Upon methyl transfer, Ada acquires t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00214a003

    authors: Myers LC,Verdine GL,Wagner G

    更新日期:1993-12-28 00:00:00

  • Conservation of electrostatic properties within enzyme families and superfamilies.

    abstract::Electrostatic interactions play a key role in enzyme catalytic function. At long range, electrostatics steer the incoming ligand/substrate to the active site, and at short distances, electrostatics provide the specific local interactions for catalysis. In cases in which electrostatics determine enzyme function, orthol...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi026918f

    authors: Livesay DR,Jambeck P,Rojnuckarin A,Subramaniam S

    更新日期:2003-04-01 00:00:00

  • Biochemical characterization of the tetrodotoxin binding protein from Electrophorus electricus.

    abstract::Biochemical properties of a detergent-solubilized tetrodotoxin binding component from Electrophorus electricus have been examined and compared with those found for the membrane-bound protein. The toxin binding component was solubilized with high efficiency by a variety of nonionic detergents and with lower efficiency ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00267a029

    authors: Moore AC,Agnew WS,Raftery MA

    更新日期:1982-11-23 00:00:00

  • Molecular Basis for Fe(III)-Independent Curcumin Potentiation of Cystic Fibrosis Transmembrane Conductance Regulator Activity.

    abstract::Curcumin potentiates the phosphorylation-dependent activity of human cystic fibrosis transmembrane conductance regulator (CFTR) in Fe(3+)-dependent and Fe(3+)-independent manners. Although the Fe(3+)-dependent curcumin potentiation results from removal of endogenous inhibitory Fe(3+) at the interface of the regulatory...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00219

    authors: Wang G

    更新日期:2015-05-12 00:00:00

  • Thermodynamics of bovine spleen galectin-1 binding to disaccharides: correlation with structure and its effect on oligomerization at the denaturation temperature.

    abstract::Isothermal titration calorimetry (ITC) measurements of the binding 1-beta carbohydrate-substituted galactopyranoside derivatives to galectin-1 from bovine spleen, a dimer with one binding site per subunit, were performed at 283-285 and 298 K. The disaccharides were lactose, methyl beta-lactoside, lactulose, 4-O-beta-D...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9716478

    authors: Schwarz FP,Ahmed H,Bianchet MA,Amzel LM,Vasta GR

    更新日期:1998-04-28 00:00:00

  • Properties of tRNA species modified in the 3'-terminal ribose moiety in an eukaryotic ribosomal system.

    abstract::Phe-tRNAPhe species modified on the 3'-terminal ribose residue were investigated for their ability to participate in individual steps of the elongation cycle using eukaryotic ribosomes from reticulocytes. None of the Phe-tRNAs used, namely Phe-tRNAPhe-C-C-3'dA, Phe-tRNAPhe-C-C-3'-NH2A, and Phe-tRNAPhe-C-C-Aoxi-red, ca...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00661a035

    authors: Baksht E,de Groot N,Sprinzl M,Cramer F

    更新日期:1976-08-10 00:00:00

  • Modeling the three-dimensional structures of bacterial aminotransferases.

    abstract::The refined crystallographic structure of the "closed" conformation of chicken mitochondrial aspartate aminotransferase has been used as a template for the construction of models of the two Escherichia coli aminotransferases encoded by the tyrB and aspC genes. The main results are as follows: (1) Only minor changes ar...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00422a009

    authors: Seville M,Vincent MG,Hahn K

    更新日期:1988-11-01 00:00:00

  • Enzymatic incorporation in DNA of 1,5-anhydrohexitol nucleotides.

    abstract::The ability of several DNA polymerases to catalyze the template-directed synthesis of duplex oligonucleotides containing a base pair between a nucleotide with anhydrohexitol ring and its natural complement has been investigated. All DNA polymerases were able to accept the chemically synthesized anhydrohexitol triphosp...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001297g

    authors: Vastmans K,Pochet S,Peys A,Kerremans L,Van Aerschot A,Hendrix C,Marlière P,Herdewijn P

    更新日期:2000-10-24 00:00:00

  • Pulse radiolysis studies on cytochrome cd1 nitrite reductase from Thiosphaera pantotropha: evidence for a fast intramolecular electron transfer from c-heme to d1-heme.

    abstract::Electron transfer within cytochrome cd1 from Thiosphaera pantotropha was investigated by the technique of pulse radiolysis. The reduction of the heme centers in this nitrite reductase occurred in two phases as judged from kinetic difference spectra. In the faster phase, radiolytically generated N-methylnicotinamide (N...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi971045o

    authors: Kobayashi K,Koppenhöfer A,Ferguson SJ,Tagawa S

    更新日期:1997-11-04 00:00:00

  • 1H NMR observation of redox potential in liver.

    abstract::1H NMR spectral editing techniques can select the distinct signals of lactate, pyruvate, beta-hydroxybutyrate, and acetoacetate and provide a unique way to monitor the biochemical processes in vivo. These metabolite levels reflect the near-equilibrium dehydrogenase activity and therefore the cellular redox state. The ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00160a029

    authors: Chung Y,Jue T

    更新日期:1992-11-17 00:00:00

  • Electrostatic control of the rate-determining step of the copper, zinc superoxide dismutase catalytic reaction.

    abstract::The dependence of the activity of bovine Cu,Zn superoxide dismutase on pH and ionic strength was extensively investigated in the ranges of pH 7.4-pH 12.3 and of ionic strength of 0.02-0.25 M. The results obtained indicate that two positively charged groups having pK values of approximately 10.1 and 10.8 are involved i...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00385a043

    authors: Argese E,Viglino P,Rotilio G,Scarpa M,Rigo A

    更新日期:1987-06-02 00:00:00

  • Purification and characterization of a transmembrane domain-deleted form of lecithin retinol acyltransferase.

    abstract::Lecithin retinol acyltransferase (LRAT) catalyzes the esterification of all-trans-retinol into all-trans-retinyl ester, an essential reaction in the vertebrate visual cycle. Since all-trans-retinyl esters are the substrates for the isomerization reaction that generates 11-cis-retinoids, this esterification reaction is...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0342416

    authors: Bok D,Ruiz A,Yaron O,Jahng WJ,Ray A,Xue L,Rando RR

    更新日期:2003-05-27 00:00:00

  • Phosphorus-31 nuclear magnetic resonance studies of the binding of nucleotides to NADP+-specific isocitrate dehydrogenase.

    abstract::The interaction of the 2'-phosphate-containing nucleotides (NADP+, NADPH, 2'-phosphoadenosine 5'-diphosphoribose, and adenosine 2',5'-bisphosphate) with NADP+ -specific isocitrate dehydrogenase was studied by using 31P NMR spectroscopy. The separate resonances corresponding to free and bound nucleotides, characteristi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00303a015

    authors: Mas MT,Colman RF

    更新日期:1984-04-10 00:00:00

  • Stereochemical outcome and kinetic effects of Rp- and Sp-phosphorothioate substitutions at the cleavage site of vaccinia type I DNA topoisomerase.

    abstract::To probe the mechanism of the reversible DNA phosphodiester bond cleavage and religation mechanism of the type I topoisomerase from vaccinia virus, we have synthesized DNA substrates carrying a single nonbridging Rp- or Sp-phosphorothioate (Ps) modification at the scissile phosphodiester (Pd) bond. Analysis of the ste...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi992429c

    authors: Stivers JT,Jagadeesh GJ,Nawrot B,Stec WJ,Shuman S

    更新日期:2000-05-09 00:00:00

  • Electron paramagnetic resonance imaging of rat heart with nitroxide and polynitroxyl-albumin.

    abstract::Electron paramagnetic resonance (EPR) imaging utilizing stable nitroxyl radicals is a promising technique for measuring free radical distribution, metabolism, and tissue oxygenation in organs and tissues [Kuppusamy, P., Chzhan, M., Vij, K., Shteynbuk, M., Lefer, D. J., Giannella, E., & Zweier, J. L. (1994) Proc. Natl....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi952857s

    authors: Kuppusamy P,Wang P,Zweier JL,Krishna MC,Mitchell JB,Ma L,Trimble CE,Hsia CJ

    更新日期:1996-06-04 00:00:00

  • NH3 Binding to the S2 State of the O2-Evolving Complex of Photosystem II: Analogue to H2O Binding during the S2 → S3 Transition.

    abstract::Ammonia binds directly to the oxygen-evolving complex of photosystem II (PSII) upon formation of the S2 intermediate, as evidenced by electron paramagnetic resonance spectroscopy. We explore the binding mode by using quantum mechanics/molecular mechanics methods and simulations of extended X-ray absorption fine struct...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00974

    authors: Askerka M,Vinyard DJ,Brudvig GW,Batista VS

    更新日期:2015-09-29 00:00:00