scholarly journals Solvation Response along the Reaction Coordinate in the Active Site of Ketosteroid Isomerase

2010 ◽  
Vol 132 (18) ◽  
pp. 6474-6480 ◽  
Author(s):  
William Childs ◽  
Steven G. Boxer
1982 ◽  
Vol 257 (21) ◽  
pp. 12589-12593
Author(s):  
T M Penning ◽  
D N Heller ◽  
T M Balasubramanian ◽  
C C Fenselau ◽  
P Talalay

Author(s):  
Dominik M. Behrens ◽  
Bernd Hartke

AbstractWe demonstrate how a full QM/MM derivatization of the recently developed GOCAT model can be utilized in the global optimization of molecular embeddings. To this end, we provide two distinct examples: An $$\text {S}_\text {N}2$$ S N 2 reaction, and one enzymatic example of recent interest, the ketosteroid isomerase. These serve us to highlight the advantages of such an approach and sketch the roadmap for further improvements.


Biochemistry ◽  
1999 ◽  
Vol 38 (42) ◽  
pp. 13810-13819 ◽  
Author(s):  
Do-Hyung Kim ◽  
Gyu Hyun Nam ◽  
Do Soo Jang ◽  
Gildon Choi ◽  
Soyoung Joo ◽  
...  

Biochemistry ◽  
1991 ◽  
Vol 30 (20) ◽  
pp. 4991-4997 ◽  
Author(s):  
Liang Xue ◽  
Athan Kuliopulos ◽  
Albert S. Mildvan ◽  
Paul Talalay

2013 ◽  
Vol 110 (28) ◽  
pp. E2552-E2561 ◽  
Author(s):  
P. A. Sigala ◽  
A. T. Fafarman ◽  
J. P. Schwans ◽  
S. D. Fried ◽  
T. D. Fenn ◽  
...  

Biochemistry ◽  
2010 ◽  
Vol 49 (12) ◽  
pp. 2725-2731 ◽  
Author(s):  
William Childs ◽  
Steven G. Boxer

2020 ◽  
Author(s):  
Yufan Wu ◽  
Stephen Fried ◽  
Steven Boxer

<div><p>Electrostatic interactions play a pivotal role in enzymatic catalysis and are increasingly modeled explicitly in computational enzyme design; nevertheless, they are challenging to measure experimentally. Using vibrational Stark effect (VSE) spectroscopy, we have measured electric fields inside the active site of the enzyme ketosteroid isomerase (KSI). These studies have shown that these fields can be unusually large, but it has been unclear to what extent they specifically stabilize the transition state (TS) relative to a ground state (GS). In the following, we use crystallography and computational modeling to show that KSI’s intrinsic electric field is nearly perfectly oriented to stabilize the geometry of its reaction’s TS. Moreover, we find that this electric field adjusts the orientation of its substrate in the ground state so that the substrate needs to only undergo minimal structural changes upon activation to its TS. This work provides evidence that the active site electric field in KSI is preorganized to facilitate catalysis and provides a template for how electrostatic preorganization can be measured in enzymatic systems. <br></p></div>


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