The objective of this project is to study the mechanism of action of the enzyme aspartate aminotransferase by site-directed mutagenesis. About 6 different amino acids at the active site will be replaced in separate experiments. The mutated enzymes will be examined by an appropriate combination of spectroscopic and kinetic methods. The results will provide information on the relative barrier heights facing the intermediates along the reaction pathway, will help to assign the ionizable groups which are responsible for the inflections in the kinetic pH profiles, and will provide information about the roles of several amino acids in stabilizing intermediates or transition states. A significant aspect of this choice of enzyme is the variety of probes that can be used in combination to examine each mutant. The ubiquity of PLP-dependent coenzymes in amino acid metabolism makes it likely that many of the results of this study will have bearing on the broader problem of the mechanism of action of the entire class. An additional goal of this research that is unrelated to the above, is to design a so-called suicide inhibitor for Beta-lactamase, based on the interaction of a postulated active site enzyme carboxylate moiety with the side-chain of Alpha-cyano benzylpenicillin. The ketenimine formed by general base catalyzed abstraction of the Alpha-proton is a very active electrophilic trapping agent. Success with this inhibitor might lead to a new class of pharmacologically useful inhibitors of Beta-lactamases that could be used in conjunction with penicillins or cephalosporins to increase the efficacy of penicillin-based chemotherapy.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM035393-02
Application #
3288047
Study Section
Physical Biochemistry Study Section (PB)
Project Start
1985-07-01
Project End
1988-06-30
Budget Start
1986-07-01
Budget End
1987-06-30
Support Year
2
Fiscal Year
1986
Total Cost
Indirect Cost
Name
University of California Berkeley
Department
Type
Schools of Arts and Sciences
DUNS #
094878337
City
Berkeley
State
CA
Country
United States
Zip Code
94704
Muratore, Kathryn E; Engelhardt, Barbara E; Srouji, John R et al. (2013) Molecular function prediction for a family exhibiting evolutionary tendencies toward substrate specificity swapping: recurrence of tyrosine aminotransferase activity in the I? subfamily. Proteins 81:1593-609
Shultzaberger, Ryan K; Maerkl, Sebastian J; Kirsch, Jack F et al. (2012) Probing the informational and regulatory plasticity of a transcription factor DNA-binding domain. PLoS Genet 8:e1002614
Deu, Edgar; Kirsch, Jack F (2011) Engineering homooligomeric proteins to detect weak intersite allosteric communication: aminotransferases, a case study. Protein Sci 20:1991-2003
Hanes, Melinda S; Reynolds, Kimberly A; McNamara, Case et al. (2011) Specificity and cooperativity at ?-lactamase position 104 in TEM-1/BLIP and SHV-1/BLIP interactions. Proteins 79:1267-76
Sankararaman, Sriram; Sha, Fei; Kirsch, Jack F et al. (2010) Active site prediction using evolutionary and structural information. Bioinformatics 26:617-24
Deu, Edgar; Dhoot, Jashdeep; Kirsch, Jack F (2009) The partially folded homodimeric intermediate of Escherichia coli aspartate aminotransferase contains a ""molten interface"" structure. Biochemistry 48:433-41
Muratore, Kathryn E; Srouji, John R; Chow, Margaret A et al. (2008) Recombinant expression of twelve evolutionarily diverse subfamily Ialpha aminotransferases. Protein Expr Purif 57:34-44
Yin, Yifeng; Kirsch, Jack F (2007) Identification of functional paralog shift mutations: conversion of Escherichia coli malate dehydrogenase to a lactate dehydrogenase. Proc Natl Acad Sci U S A 104:17353-7
Deu, Edgar; Kirsch, Jack F (2007) Cofactor-directed reversible denaturation pathways: the cofactor-stabilized Escherichia coli aspartate aminotransferase homodimer unfolds through a pathway that differs from that of the apoenzyme. Biochemistry 46:5819-29
Reynolds, Kimberly A; Thomson, Jodi M; Corbett, Kevin D et al. (2006) Structural and computational characterization of the SHV-1 beta-lactamase-beta-lactamase inhibitor protein interface. J Biol Chem 281:26745-53

Showing the most recent 10 out of 72 publications