Direct measurement of the protein response to an electrostatic perturbation that mimics the catalytic cycle in ketosteroid isomerase

被引:45
作者
Jha, Santosh Kumar [2 ]
Ji, Minbiao [1 ]
Gaffney, Kelly J. [1 ]
Boxer, Steven G. [2 ]
机构
[1] Stanford Univ, SLAC Natl Accelerator Lab, PULSE Inst, Stanford, CA 94305 USA
[2] Stanford Univ, SLAC Natl Accelerator Lab, Dept Chem, Stanford, CA 94305 USA
基金
美国国家卫生研究院;
关键词
enzyme catalysis; electrostatic preorganization; Stark effect; visible-pump IR probe; time-resolved anisotropy; ENZYME CATALYSIS; ACTIVE-SITE; OXYANION HOLE; FORMATE DEHYDROGENASE; SOLVATION DYNAMICS; TRANSITION-STATE; ELECTRIC-FIELDS; CHARGE-TRANSFER; ATOMIC DETAIL; SPECTROSCOPY;
D O I
10.1073/pnas.1113874108
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Understanding how electric fields and their fluctuations in the active site of enzymes affect efficient catalysis represents a critical objective of biochemical research. We have directly measured the dynamics of the electric field in the active site of a highly proficient enzyme, Delta(5)-3-ketosteroid isomerase (KSI), in response to a sudden electrostatic perturbation that simulates the charge displacement that occurs along the KSI catalytic reaction coordinate. Photoexcitation of a fluorescent analog (coumarin 183) of the reaction intermediate mimics the change in charge distribution that occurs between the reactant and intermediate state in the steroid substrate of KSI. We measured the electrostatic response and angular dynamics of four probe dipoles in the enzyme active site by monitoring the time-resolved changes in the vibrational absorbance (IR) spectrum of a spectator thiocyanate moiety (a quantitative sensor of changes in electric field) placed at four different locations in and around the active site, using polarization-dependent transient vibrational Stark spectroscopy. The four different dipoles in the active site remain immobile and do not align to the changes in the substrate electric field. These results indicate that the active site of KSI is preorganized with respect to functionally relevant changes in electric fields.
引用
收藏
页码:16612 / 16617
页数:6
相关论文
共 58 条
[1]   Network of coupled promoting motions in enzyme catalysis [J].
Agarwal, PK ;
Billeter, SR ;
Rajagopalan, PTR ;
Benkovic, SJ ;
Hammes-Schiffer, S .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (05) :2794-2799
[2]   Vibrational stark effects of nitriles I. Methods and experimental results [J].
Andrews, SS ;
Boxer, SG .
JOURNAL OF PHYSICAL CHEMISTRY A, 2000, 104 (51) :11853-11863
[3]   Time-dependent vibration Stokes shift during solvation: Experiment and theory [J].
Asbury, JB ;
Wang, YQ ;
Lian, TQ .
BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN, 2002, 75 (05) :973-983
[4]   Ultrafast Vibrational Stark-Effect Spectroscopy: Exploring Charge-Transfer Reactions by Directly Monitoring the Solvation Shell Response [J].
Baiz, Carlos R. ;
Kubarych, Kevin J. .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2010, 132 (37) :12784-12785
[5]   Fast enzyme dynamics at the active site of formate dehydrogenase [J].
Bandaria, Jigar N. ;
Dutta, Samrat ;
Hill, Sarah E. ;
Kohen, Amnon ;
Cheatum, Christopher M. .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2008, 130 (01) :22-+
[6]   Characterizing the dynamics of functionally relevant complexes of formate dehydrogenase [J].
Bandaria, Jigar N. ;
Dutta, Samrat ;
Nydegger, Michael W. ;
Rock, William ;
Kohen, Amnon ;
Cheatum, Christopher M. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2010, 107 (42) :17974-17979
[7]   How enzyme dynamics helps catalyze a reaction in atomic detail: A transition path sampling study [J].
Basner, JE ;
Schwartz, SD .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2005, 127 (40) :13822-13831
[8]   Transition path sampling: Throwing ropes over rough mountain passes, in the dark [J].
Bolhuis, PG ;
Chandler, D ;
Dellago, C ;
Geissler, PL .
ANNUAL REVIEW OF PHYSICAL CHEMISTRY, 2002, 53 :291-318
[9]   A view at the millennium: The efficiency of enzymatic catalysis [J].
Bruice, TC .
ACCOUNTS OF CHEMICAL RESEARCH, 2002, 35 (03) :139-148
[10]   Solvation, reorganization energy, and biological catalysis [J].
Cannon, WR ;
Benkovic, SJ .
JOURNAL OF BIOLOGICAL CHEMISTRY, 1998, 273 (41) :26257-26260