Cryoenzymology of chymotrypsin: the detection of intermediates in the catalysis of a specific anilide substrate.

Abstract:

:The reaction between chymotrypsin and N-acetyl-L-phenylalanine p-nitroanilide has been studied at subzero temperatures in fluid aqueous dimethyl sulfoxide solvent. Following initiation of the reaction at temperatures as low as -90 degrees C, a series of four reactions prior to the normal rate-limiting step (acylation) was detected spectrophotometrically. Various experimental observations have led to the following interpretation of these reactions. Reaction 1 corresponds to the binding of substrate yielding the initial Michaelis complex. Reactions 2 and 3 are two pH-independent reactions, ascribed to substrate-induced changes in the positions of active-site groups. Reaction 4 is a pH-dependent reaction (pK = 5.9) which involves the imidazole of His-57 but which is not the formation of a tetrahedral intermediate, oxazolinone, or acyl enzyme. The slowest detected step corresponded to the acylation reaction. No evidence for the accumulation of a tetrahedral intermediate was obtained. Spectral, kinetic, and thermodynamic data for these reactions are presented, as is justification for the relevance of these findings to the reaction under physiological conditions. These results demonstrate the utility of subzero temperatures in enzyme mechanism studies, especially with regard to allowing the accumulation of intermediates which may be quite stable at appropriate values of pH and low temperature.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Fink AL

doi

10.1021/bi00652a031

subject

Has Abstract

pub_date

1976-04-06 00:00:00

pages

1580-6

issue

7

eissn

0006-2960

issn

1520-4995

journal_volume

15

pub_type

杂志文章
  • Characterization of human glucocorticoid receptor complexes formed with DNA fragments containing or lacking glucocorticoid response elements.

    abstract::Sucrose density gradient shift assays were used to study the interactions of human glucocorticoid receptors (GR) with small DNA fragments either containing or lacking glucocorticoid response element (GRE) DNA consensus sequences. When crude cytoplasmic extracts containing [3H]triamcinolone acetonide [( 3H]TA) labeled ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00431a003

    authors: Tully DB,Cidlowski JA

    更新日期:1989-03-07 00:00:00

  • Structure-function relationship of a recombinant human galactoside-binding protein.

    abstract::A galactoside-binding lectin (hL-31) containing a collagen-like sequence was identified in human tumor cells. It was found to be the homologue of the IgE-binding protein, the macrophage cell-surface Mac-2 antigen, and the murine CBP35, RL-29, and mL-34 lectins. Here we report on the expression in Escherichia coli and ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00067a038

    authors: Ochieng J,Platt D,Tait L,Hogan V,Raz T,Carmi P,Raz A

    更新日期:1993-04-27 00:00:00

  • Picosecond dynamics of tyrosine side chains in proteins.

    abstract::To probe the details of small amplitude motions in proteins, a dynamical analysis of the orientation fluctuations of two tyrosine side chains in the bovine pancreatic trypsin inhibitor is presented. Detailed results are given for the time history and correlation functions obtained for the ring motion from a molecular ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00573a001

    authors: McCammon JA,Wolynes PG,Karplus M

    更新日期:1979-03-20 00:00:00

  • Phosphoryl oxime inhibition of acetylcholinesterase during oxime reactivation is prevented by edrophonium.

    abstract::Reactivation of organophosphate (OP)-inhibited acetylcholinesterase (AChE) is a key objective in the treatment of OP poisoning. This study with native, wild-type, and mutant recombinant DNA-expressed AChEs, each inhibited by representative OP compounds, establishes a relationship between edrophonium acceleration of ox...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9905720

    authors: Luo C,Saxena A,Smith M,Garcia G,Radić Z,Taylor P,Doctor BP

    更新日期:1999-08-03 00:00:00

  • Structure of pseudobactin A214, a siderophore from a bean-deleterious Pseudomonas.

    abstract::Bean-deleterious Pseudomonas A214 produced the extracellular yellow-green, fluorescent siderophore [microbial iron(III) transport agent] pseudobactin A214 under iron-limiting conditions. Pseudobactin A214 has a molecular formula of C46H64N13O22 and a molecular mass of 1151 g/mol. Pseudobactin A214 contained an N-block...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00367a022

    authors: Buyer JS,Wright JM,Leong J

    更新日期:1986-09-23 00:00:00

  • A Simple Colorimetric System for Detecting Target Antigens by a Three-Stage Signal Transformation-Amplification Strategy.

    abstract::Inexpensive, straightforward, and rapid medical diagnostics are becoming increasingly important for disease identification in time- and resource-limited settings. Previous attempts to link oligonucleotide-based aptamers and hammerhead ribozymes to form ligand-induced ribozymes have been successful in identifying a var...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b00523

    authors: Liao AM,Pan W,Benson JC,Wong AD,Rose BJ,Caltagirone GT

    更新日期:2018-08-28 00:00:00

  • Subunit dissociation as a possible mechanism of glucocorticoid receptor activation.

    abstract::For the elucidation of the mechanism of steroid hormone receptor activation, the hydrodynamic properties of the unactivated and activated forms of the nonproteolyzed glucocorticoid receptor from the mouse AtT-20 pituitary tumor cell line were determined. The unactivated, molybdate-stabilized receptor has the following...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00277a038

    authors: Vedeckis WV

    更新日期:1983-04-12 00:00:00

  • Global Profiling of Cellular Substrates of Human Dcp2.

    abstract::Decapping is the first committed step in 5'-to-3' RNA decay, and in the cytoplasm of human cells, multiple decapping enzymes regulate the stabilities of distinct subsets of cellular transcripts. However, the complete set of RNAs regulated by any individual decapping enzyme remains incompletely mapped, and no consensus...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.0c00069

    authors: Luo Y,Schofield JA,Simon MD,Slavoff SA

    更新日期:2020-11-03 00:00:00

  • An unusual catalytic subunit for the cAMP-dependent protein kinase of Dictyostelium discoideum.

    abstract::The cAMP-dependent protein kinase (cAPK) plays an essential role during differentiation and fruit morphogenesis in Dictyostelium discoideum. The presence of an open reading frame on the gene, pkaC (previously named either Dd PK2 or Dd PK3 by different groups), predicts a 73-kDa polypeptide with 54% similarity to the c...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00088a003

    authors: Anjard C,Etchebehere L,Pinaud S,Véron M,Reymond CD

    更新日期:1993-09-21 00:00:00

  • Optical and resonance Raman spectroscopy of the heme groups of the quinol-oxidizing cytochrome aa3 of Bacillus subtilis.

    abstract::The cytochrome aa3-type terminal quinol oxidase of Bacillus subtilis catalyzes the four-electron reduction of dioxygen to water. It resembles the aa3-type cytochrome-c oxidase in using heme A as its active-site chromophores but lacks the CuA center and the cytochrome-c oxidizing activity of the mitochondrial enzyme. W...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00156a027

    authors: Lauraeus M,Wikström M,Varotsis C,Tecklenburg MM,Babcock GT

    更新日期:1992-10-20 00:00:00

  • Using Tetracysteine-Tagged TDP-43 with a Biarsenical Dye To Monitor Real-Time Trafficking in a Cell Model of Amyotrophic Lateral Sclerosis.

    abstract::TAR DNA-binding protein 43 (TDP-43) has been identified as the major constituent of the proteinaceous inclusions that are characteristic of most forms of amyotrophic lateral sclerosis (ALS) and ubiquitin positive frontotemporal lobar degeneration (FTLD). Wild type TDP-43 inclusions are a pathological hallmark of >95% ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.9b00592

    authors: Ng JSW,Hanspal MA,Matharu NS,Barros TP,Esbjörner EK,Wilson MR,Yerbury JJ,Dobson CM,Kumita JR

    更新日期:2019-10-01 00:00:00

  • Cofactor-directed reversible denaturation pathways: the cofactor-stabilized Escherichia coli aspartate aminotransferase homodimer unfolds through a pathway that differs from that of the apoenzyme.

    abstract::While the urea-mediated unfolding pathway of the Escherichia coli aspartate aminotransferase (eAATase) homodimer proceeds through a reversible three-state process with a partially folded dimeric intermediate, D D* 2U (E. Deu and J. F. Kirsch, accompanying paper), that of a cofactor-stabilized form differs. Pyridoxal p...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi602632d

    authors: Deu E,Kirsch JF

    更新日期:2007-05-15 00:00:00

  • Expression of cytochrome P-450 and albumin genes in rat liver: effect of xenobiotics.

    abstract::Thioacetamide, a hepatocarcinogen and an inhibitor of heme synthesis, blocks the phenobarbitone-mediated increase in the transcription of cytochrome P-450b+e messenger RNA in rat liver. This property is also shared by CoCl2 and 3-amino-1,2,4-triazole, two other inhibitors of heme synthesis. Thus, it appears feasible t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00364a009

    authors: Satyabhama S,Seelan RS,Padmanaban G

    更新日期:1986-08-12 00:00:00

  • Structure-activity relationships for the interaction of bovine pancreatic trypsin inhibitor with an intracellular site on a large conductance Ca(2+)-activated K(+) channel.

    abstract::Large conductance Ca(2+)-activated K(+) channels (BK(Ca)) contain an intracellular binding site for bovine pancreatic trypsin inhibitor (BPTI), a well-known inhibitor of various serine proteinase (SerP) enzymes. To investigate the structural basis of this interaction, we examined the activity of 11 BPTI mutants using ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi992140v

    authors: Favre I,Moss GW,Goldenberg DP,Otlewski J,Moczydlowski E

    更新日期:2000-02-29 00:00:00

  • Anomalous electrophoresis of deoxyribonucleic acid restriction fragments on polyacrylamide gels.

    abstract::A detailed study has been made of the polyacrylamide gel electrophoresis of DNA restriction fragments obtained from two plasmids, pBR322 and p82-6B. Variables studied were molecular weight, gel concentration, temperature, and electric field strength. The retardation coefficients of the larger fragments (greater than 8...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00295a023

    authors: Stellwagen NC

    更新日期:1983-12-20 00:00:00

  • Ionization of zwitterionic amine substrates bound to monomeric sarcosine oxidase.

    abstract::Monomeric sarcosine oxidase (MSOX) binds the L-proline zwitterion (pKa = 10.6). The reactive substrate anion is generated by ionization of the ES complex (pKa = 8.0). Tyr317 was mutated to Phe to determine whether this step might involve proton transfer to an active site base. The mutation does not eliminate the ioniz...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi051898d

    authors: Zhao G,Jorns MS

    更新日期:2005-12-27 00:00:00

  • A model for oxidative modification of glutamine synthetase, based on crystal structures of mutant H269N and the oxidized enzyme.

    abstract::Proteolytic degradation of glutamine synthetase (GS) in Escherichia coli is known to follow "marking" by oxidative modification. At an early stage of the degradative pathway, oxidation of His 269 and Arg 344 abolishes GS enzymatic activity. We propose a mechanism for the early stage of oxidative inactivation of GS on ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00082a022

    authors: Liaw SH,Villafranca JJ,Eisenberg D

    更新日期:1993-08-10 00:00:00

  • Regulation of plasminogen activation by components of the extracellular matrix.

    abstract::The kinetics of activation of Glu-plasminogen (Glu-Pg) and Lys77-Pg by two-chain recombinant tissue plasminogen activator (t-PA) were determined in the presence of isolated protein components of the extracellular matrix (ECM) and compared to activation in the presence of fibrinogen and fibrinogen fragments and in the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00472a029

    authors: Stack S,Gonzalez-Gronow M,Pizzo SV

    更新日期:1990-05-22 00:00:00

  • Formation and function of the Manganese(IV)/Iron(III) cofactor in Chlamydia trachomatis ribonucleotide reductase.

    abstract::The beta(2) subunit of a class Ia or Ib ribonucleotide reductase (RNR) is activated when its carboxylate-bridged Fe(2)(II/II) cluster reacts with O(2) to oxidize a nearby tyrosine (Y) residue to a stable radical (Y(*)). During turnover, the Y(*) in beta(2) is thought to reversibly oxidize a cysteine (C) in the alpha(2...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi8017625

    authors: Jiang W,Yun D,Saleh L,Bollinger JM Jr,Krebs C

    更新日期:2008-12-30 00:00:00

  • Post-translational phosphorylation of serine 74 of human deoxycytidine kinase favors the enzyme adopting the open conformation making it competent for nucleoside binding and release.

    abstract::Deoxycytidine kinase (dCK) uses either ATP or UTP as a phosphoryl donor to catalyze the phosphorylation of nucleoside acceptors. The kinetic properties of human dCK are modulated in vivo by phosphorylation of serine 74. This residue is a part of the insert region and is distant from the active site. Replacing the seri...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi2001032

    authors: Hazra S,Szewczak A,Ort S,Konrad M,Lavie A

    更新日期:2011-04-12 00:00:00

  • Identification of phosphorylation sites of TOPORS and a role for serine 98 in the regulation of ubiquitin but not SUMO E3 ligase activity.

    abstract::TOPORS is the first example of a protein that possesses both ubiquitin and SUMO E3 ligase activity. The ubiquitination activity maps to a conserved RING domain in the N-terminal region of the protein, which is not required for sumoylation activity. Similar to other E3 ligases, it is likely that the ubiquitin and sumoy...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi801904q

    authors: Park HJ,Zheng H,Kulkarni D,Kerrigan J,Pungaliya P,Saleem A,Rubin EH

    更新日期:2008-12-30 00:00:00

  • Cooperative binding of R17 coat protein to RNA.

    abstract::The binding of the R17 coat protein to synthetic RNAs containing one or two coat protein binding sites was characterized by using nitrocellulose filter and gel-retention assays. RNAs with two available sites bound coat protein in a cooperative manner, resulting in a higher affinity and reduced sensitivity to pH, ionic...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00502a006

    authors: Witherell GW,Wu HN,Uhlenbeck OC

    更新日期:1990-12-18 00:00:00

  • Sp1-targeted inhibition of gene transcription by WP631 in transfected lymphocytes.

    abstract::The binding of Sp1 transcription factor to DNA is considered a potential target for small ligands designed to interfere with gene transcription. We attempted to distinguish the direct inhibition of the Sp1-binding to DNA in vivo (cell culture) from more indirect effects due to the network of pathways that modulate cel...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi036185e

    authors: Mansilla S,Priebe W,Portugal J

    更新日期:2004-06-15 00:00:00

  • Enzyme-catalyzed condensation reactions which initiate rapid peptic cleavage of substrates. 1. How the structure of an activating peptide determines its efficiency.

    abstract::The addition of a small peptide can significantly increase the rate at which pepsin cleaves a substrate at pH 4.5. Why? In order to find out, we have determined spectrophotometrically the relative ability of over a dozen peptides to speed the initial rate of disappearance of Phe-Trp-NH2 and Leu-Trp-Met-Arg. Here are s...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00514a029

    authors: Silver MS,James SL

    更新日期:1981-05-26 00:00:00

  • Trapping conformational intermediate states in the reaction center protein from photosynthetic bacteria.

    abstract::In protein, conformational changes are often crucial for function but not easy to observe. Two functionally relevant conformational intermediate states of photosynthetic reaction center protein (RCs) are trapped and characterized at low temperature. RCs frozen in the dark do not allow electron transfer from the reduce...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi002326q

    authors: Xu Q,Gunner MR

    更新日期:2001-03-13 00:00:00

  • Interfacial and lipid transfer properties of human phospholipid transfer protein: implications for the transfer mechanism of phospholipids.

    abstract::In circulation the phospholipid transfer protein (PLTP) facilitates the transfer of phospholipid-rich surface components from postlipolytic chylomicrons and very low density lipoproteins (VLDL) to HDL and thereby regulates plasma HDL levels. To study the molecular mechanisms involved in PLTP-mediated lipid transfer, w...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0621866

    authors: Setälä NL,Holopainen JM,Metso J,Wiedmer SK,Yohannes G,Kinnunen PK,Ehnholm C,Jauhiainen M

    更新日期:2007-02-06 00:00:00

  • Purification and properties of an aminoglycoside acetyltransferase from Pseudomonas aeruginosa.

    abstract::An aminoglycoside 3-acetyltransferase [AAC(3)], possibly a new isoenzymic species of the 3-N-acetyltransferase group, was purified to apparent homogeneity from a crude extract of Pseudomonas aeruginosa, a gentamicin-resistant clinical isolate. The method of purification was consecutive column chromatography--(i) gel f...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00534a009

    authors: Coombe RG,George AM

    更新日期:1982-03-02 00:00:00

  • Catalytic roles of the distal site asparagine-histidine couple in peroxidases.

    abstract::There are highly conserved hydrogen bonds between the distal His and the adjacent Asn in many peroxidases. Although the crystal structure of horseradish peroxidase C (HRP) is not available, comparison of the amino acid sequence with cytochrome c peroxidase indicates that Asn70 is making the hydrogen bond with the dist...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi961740g

    authors: Nagano S,Tanaka M,Ishimori K,Watanabe Y,Morishima I

    更新日期:1996-11-12 00:00:00

  • X-ray structure of ornithine decarboxylase from Trypanosoma brucei: the native structure and the structure in complex with alpha-difluoromethylornithine.

    abstract::Ornithine decarboxylase (ODC) is a pyridoxal 5'-phosphate (PLP) dependent homodimeric enzyme. It is a recognized drug target against African sleeping sickness, caused by Trypanosoma brucei. One of the currently used drugs, alpha-difluoromethylornithine (DFMO), is a suicide inhibitor of ODC. The structure of the T. bru...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9915115

    authors: Grishin NV,Osterman AL,Brooks HB,Phillips MA,Goldsmith EJ

    更新日期:1999-11-16 00:00:00

  • Consequences of single-site mutations in the intestinal fatty acid binding protein.

    abstract::The intestinal fatty acid binding protein (IFABP) is a small (15 kDa) protein consisting mostly of 10 antiparallel beta-strands (A-J) and a small helical region that serves as a portal for the ligand. Two beta-sheet structures (strands A-E and F-J) surround a cavity into which the ligand binds. In this work, we invest...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0301688

    authors: Rajabzadeh M,Kao J,Frieden C

    更新日期:2003-10-28 00:00:00