Kinetic and Titration Methods for Determination of Active Site Contents of Enzyme and Catalytic Antibody Preparations

Methods ◽  
2001 ◽  
Vol 24 (2) ◽  
pp. 153-167 ◽  
Author(s):  
Keith Brocklehurst ◽  
Marina Resmini ◽  
Christopher M. Topham
Keyword(s):  
Active Site ◽  
Catalytic Antibody ◽  
Antibody Preparations

scholarly journals A general kinetic approach to investigation of active-site availability in macromolecular catalysts

2000 ◽  
Vol 346 (1) ◽  
pp. 117-125 ◽  
Author(s):  
Marina RESMINI ◽  
Sheraz GUL ◽  
Steve CARTER ◽  
Sanjiv SONKARIA ◽  
Christopher M. TOPHAM ◽  
...  
Keyword(s):  
Active Site ◽  
Kinetic Method ◽  
Order Rate Constant ◽  
Catalytic Antibody ◽  
Binding Model ◽  
Antibody Preparation ◽  
Single Turnover ◽  
Step Model ◽  
Catalytic Material ◽  
Antibody Preparations

A potentially general kinetic method for the investigation of active-site availability in preparations of macromolecular catalysts was developed. Three kinetic models were considered: (a) the conventional two-step model of enzyme catalysis, where the preparation contains only active catalyst (Ea) and inert (i.e. non-binding, non-catalytic) material (Ei); (b) an extension of the conventional model (a) involving only Ea and Ei, but with non-productive binding to Ea (in addition to productive binding); (c) a model in which the preparation contains also binding but non-catalytic material (Eb), predicted to be present in polyclonal catalytic antibody preparations. The method involves comparing the parameters Vmax and Km obtained under catalytic conditions where substrate concentrations greatly exceed catalyst concentration with those (k, the limiting value of the first-order rate constant, kobs, at saturating concentrations of catalyst; and K) for single-turnover kinetics, in which the reverse situation obtains. The active-site contents of systems that adhere to model (a) or extensions that also lack Eb, such as the non-productive binding model (b), may be calculated using [Ea]T = Vmax/k. This was validated by showing that, for α-chymotrypsin, identical values of [Ea]T were obtained by the kinetic method using Suc-Ala-Ala-Pro-Phe-4-nitroanilide as substrate and the well-known ‘all-or-none’ spectroscopic assay using N-trans-cinnamoylimidazole as titrant. For systems that contain Eb, such as polyclonal catalytic antibody preparations, Vmax/k is more complex, but provides an upper limit to [Ea]T. Use of the kinetic method to investigate PCA 271-22, a polyclonal catalytic antibody preparation obtained from the antiserum of sheep 271 in week 22 of the immunization protocol, established that [Ea]T is less than approx. 8% of [IgG], and probably less than approx. 1% of [IgG].

Statistical Description of Isotope Exchange Processes: A Multisite Model for the 18O Exchange

1982 ◽  
Vol 37 (11-12) ◽  
pp. 1161-1169 ◽  
Author(s):  
Paul Rösch
Keyword(s):  
Active Site ◽  
Isotope Exchange ◽  
Analytical Procedure ◽  
Matrix Formalism ◽  
Model Calculations ◽  
Exchange Processes ◽  
Reaction Solution ◽  
Different Types ◽  
Refinement Procedure

Abstract An analytical procedure has been developed for the determination of isotope exchange processes as exemplified by the 18O exchange catalysed by enzyme-nucleotide complexes. The model is able to handle more than one type of active site per reaction solution and is also able to distinguish between different types of inequivalence of the oxygens of enzyme bound Pi. Use of transition matrix formalism and basic statistical considerations lead directly to the simple model. A data refinement procedure is introduced and model calculations are shown.

Nonlinear Vibrations in a 2-Dimensional Protein Cluster Model with Linear Bonds

2000 ◽  
Vol 214 (1) ◽  
Author(s):  
E.G. Shidlovskaya ◽  
L. Schimansky-Geier ◽  
Yu.M. Romanovsky
Keyword(s):  
Active Site ◽  
Internal Resonance ◽  
Cluster Model ◽  
Active Sites ◽  
Nonlinear Vibrations ◽  
Nonlinear Phenomena ◽  
Two Dimensional ◽  
Dimensional Model ◽  
Two Dimensional Model

A two dimensional model for the substrate inside a pocket of an active site of an enzyme is presented and investigated as a vibrational system. The parameters of the system are evaluated for α-chymotrypsin. In the case of internal resonance it is analytically and numerically shown that the energy concentrated on a certain degree of freedom might be several times larger than in the non-resonant case. Additionally, the system is driven by harmonic excitations and again energy due to nonlinear phenomena is redistributed inhomogeneously. These results may be of importance for the determination of the rates of catalytic events of substrates bound in pockets of active sites.

Potentiometric determination of ionizations at the active site of papain

Biochemistry ◽  
1976 ◽  
Vol 15 (23) ◽  
pp. 5009-5017 ◽  
Author(s):  
Sidney D. Lewis ◽  
Frederick A. Johnson ◽  
Jules A. Shafer
Keyword(s):  
Active Site ◽  
Potentiometric Determination

Spectroscopic studies on plastocyanin single crystals: a detailed electronic structure determination of the blue copper active site

1981 ◽  
Vol 103 (15) ◽  
pp. 4382-4388 ◽  
Author(s):  
K. W. Penfield ◽  
R. R. Gay ◽  
R. S. Himmelwright ◽  
N. C. Eickman ◽  
V. A. Norris ◽  
...  
Keyword(s):  
Electronic Structure ◽  
Single Crystals ◽  
Structure Determination ◽  
Active Site ◽  
Spectroscopic Studies ◽  
Blue Copper

scholarly journals Improvement in hydrolytic antibody activity by change in haptenic structure from phosphate to phosphonate with retention of a common leaving-group determinant: evidence for the ‘flexibility’ hypothesis

2003 ◽  
Vol 376 (3) ◽  
pp. 813-821 ◽  
Author(s):  
Sheraz GUL ◽  
Sanjiv SONKARIA ◽  
Surapong PINITGLANG ◽  
José FLOREZ-ALVAREZ ◽  
Syeed HUSSAIN ◽  
...  
Keyword(s):  
Structural Motif ◽  
Catalytic Antibody ◽  
Antibody Activity ◽  
Reaction Centre ◽  
Binding Characteristics ◽  
Leaving Group ◽  
Catalytic Mechanisms ◽  
Leaving Groups ◽  
Antibody Preparations ◽  
Ester Substrate

To investigate the hypothesis that decreased hapten flexibility may lead to increased catalytic antibody activity, we used two closely related immunogens differing only in the flexibility of the atomic framework around the structural motif of the haptens, analogous to the reaction centre of the corresponding substrates. Identical leaving-group determinants in the haptens and identical leaving groups in the substrates removed the ambiguity inherent in some data reported in the literature. Anti-phosphate and anti-phosphonate kinetically homogeneous polyclonal catalytic antibody preparations were compared by using carbonate and ester substrates respectively, each containing a 4-nitrophenolate leaving group. Synthetic routes to a new phosphonate hapten and new ester substrate were developed. The kinetic advantage of the more rigid anti-phosphonate/ester system was demonstrated at pH 8.0 by a 13-fold advantage in kcat/knon-cat and a 100-fold advantage in the proficiency constant, kcat/knon-cat·Km. Despite these differences, the pH-dependences of the kinetic and binding characteristics and the results of chemical modification studies suggest closely similar catalytic mechanisms. The possible origin of the kinetic advantage of the more rigid hapten/substrate system is discussed.

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