How Do Preorganized Electric Fields Function in Catalytic Cycles? The Case of the Enzyme Tyrosine Hydroxylase

被引:55
作者
Peng, Wei [1 ,2 ,3 ]
Yan, Shengheng [1 ,2 ,3 ]
Zhang, Xuan [1 ,2 ,3 ]
Liao, Langxing [1 ,2 ,3 ]
Zhang, Jinyan [1 ,2 ,3 ]
Shaik, Sason [4 ]
Wang, Binju [1 ,2 ,3 ]
机构
[1] Xiamen Univ, Coll Chem & Chem Engn, State Key Lab Phys Chem Solid Surfaces, Xiamen 361005, Peoples R China
[2] Xiamen Univ, Coll Chem & Chem Engn, Fujian Prov Key Lab Theoret & Computat Chem, Xiamen 361005, Peoples R China
[3] Xiamen Univ, Innovat Lab Sci & Technol Energy Mat Fujian Prov, Xiamen 361005, Peoples R China
[4] Hebrew Univ Jerusalem, Inst Chem, IL-9190407 Jerusalem, Israel
基金
以色列科学基金会; 中国国家自然科学基金;
关键词
MOLECULAR-DYNAMICS; NONCOVALENT INTERACTIONS; BENZENE HYDROXYLATION; MECHANISM; ACTIVATION; PROTEIN; ENERGY; THERMOCHEMISTRY; SPECTROSCOPY; SELECTIVITY;
D O I
10.1021/jacs.2c09263
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
Nature has devised intrinsic electric fields (IEFs) that are engaged in electrostatic catalysis of enzymes. But, how does the IEF target its function in enzymes that involve several reaction steps in catalytic cycles? To decipher the impact of the IEF on the catalytic cycle of an enzyme system, we have performed molecular dynamics and quantum-mechanical/molecular-mechanical (QM/MM) simulations on tyrosine hydroxylase (TyrH). The catalytic cycle of TyrH involves two reaction stages: the activation of H2O2 to form the active species of compound I (Cpd I), in the first stage, and the Cpd I-mediated hydroxylation of L-tyrosine to L-DOPA, in the second stage. For the first stage, the QM/MM calculations show that a heme-propionate group functions as a base to catalyze the O-O heterolysis reaction. For the second stage, the study reveals that the reaction is initiated by the His88-mediated proton-coupled electron transfer followed by the oxygen atom transfer from compound II (Cpd II) to the L-Tyr substrate. Importantly, our calculations demonstrate that the IEF in TyrH is optimized to promote the O-O bond heterolysis that generates the active species of the enzyme, Cpd I. However, the same IEF slows down the subsequent aromatic hydroxylation. Thus, the IEF in the TyrH enzymes does not catalyze the product formation step, but will selectively boost one or more challenging steps in the catalytic cycle. These findings have general implications on O-2/H2O2-dependent metalloenzymes, which can expand our understanding of how nature has used electric fields as "smart reagents" in modulating the catalytic reactivity.
引用
收藏
页码:20484 / 20494
页数:11
相关论文
共 119 条
[1]   How Do Electrostatic Perturbations of the Protein Affect the Bifurcation Pathways of Substrate Hydroxylation versus Desaturation in the Nonheme Iron-Dependent Viomycin Biosynthesis Enzyme? [J].
Ali, Hafiz Saqib ;
Henchman, Richard H. ;
Warwicker, Jim ;
de Visser, Sam P. .
JOURNAL OF PHYSICAL CHEMISTRY A, 2021, 125 (08) :1720-1737
[2]  
Allen M.P., 1989, Computer simulation of liquids
[3]   Hybrid models for combined quantum mechanical and molecular mechanical approaches [J].
Bakowies, D ;
Thiel, W .
JOURNAL OF PHYSICAL CHEMISTRY, 1996, 100 (25) :10580-10594
[4]   Regioselective hydroxylation of diverse flavonoids by an aromatic peroxygenase [J].
Barkova, Katerina ;
Kinne, Matthias ;
Ullrich, Rene ;
Hennig, Lothar ;
Fuchs, Annett ;
Hofrichter, Martin .
TETRAHEDRON, 2011, 67 (26) :4874-4878
[5]   Proton coupled electron transfer and redox active tyrosines in Photosystem II [J].
Barry, Bridgette A. .
JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY, 2011, 104 (1-2) :60-71
[6]   QM/MM Modeling of Benzene Hydroxylation in Human Cytochrome P450 2C9 [J].
Bathelt, Christine M. ;
Mulholland, Adrian J. ;
Harvey, Jeremy N. .
JOURNAL OF PHYSICAL CHEMISTRY A, 2008, 112 (50) :13149-13156
[7]   A WELL-BEHAVED ELECTROSTATIC POTENTIAL BASED METHOD USING CHARGE RESTRAINTS FOR DERIVING ATOMIC CHARGES - THE RESP MODEL [J].
BAYLY, CI ;
CIEPLAK, P ;
CORNELL, WD ;
KOLLMAN, PA .
JOURNAL OF PHYSICAL CHEMISTRY, 1993, 97 (40) :10269-10280
[8]   DENSITY-FUNCTIONAL THERMOCHEMISTRY .2. THE EFFECT OF THE PERDEW-WANG GENERALIZED-GRADIENT CORRELATION CORRECTION [J].
BECKE, AD .
JOURNAL OF CHEMICAL PHYSICS, 1992, 97 (12) :9173-9177
[9]   DENSITY-FUNCTIONAL THERMOCHEMISTRY .3. THE ROLE OF EXACT EXCHANGE [J].
BECKE, AD .
JOURNAL OF CHEMICAL PHYSICS, 1993, 98 (07) :5648-5652
[10]   The Importance of the Scaffold for de Novo Enzymes: A Case Study with Kemp Eliminase [J].
Bhowmick, Asmit ;
Sharma, Sudhir C. ;
Head-Gordon, Teresa .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2017, 139 (16) :5793-5800