Transition state-finding strategies for use with the growing string method.

Efficient identification of transition states is important for understanding reaction mechanisms. Most transition state search algorithms require long computational times and a good estimate of the transition state structure in order to converge, particularly for complex reaction systems. The growing string method (GSM) [B. Peters et al., J. Chem. Phys. 120, 7877 (2004)] does not require an initial guess of the transition state; however, the calculation is still computationally intensive due to repeated calls to the quantum mechanics code. Recent modifications to the GSM [A. Goodrow et al., J. Chem. Phys. 129, 174109 (2008)] have reduced the total computational time for converging to a transition state by a factor of 2 to 3. In this work, three transition state-finding strategies have been developed to complement the speedup of the modified-GSM: (1) a hybrid strategy, (2) an energy-weighted strategy, and (3) a substring strategy. The hybrid strategy initiates the string calculation at a low level of theory (HF/STO-3G), which is then refined at a higher level of theory (B3LYP/6-31G(*)). The energy-weighted strategy spaces points along the reaction pathway based on the energy at those points, leading to a higher density of points where the energy is highest and finer resolution of the transition state. The substring strategy is similar to the hybrid strategy, but only a portion of the low-level string is refined using a higher level of theory. These three strategies have been used with the modified-GSM and are compared in three reactions: alanine dipeptide isomerization, H-abstraction in methanol oxidation on VO(x)/SiO(2) catalysts, and C-H bond activation in the oxidative carbonylation of toluene to p-toluic acid on Rh(CO)(2)(TFA)(3) catalysts. In each of these examples, the substring strategy was proved most effective by obtaining a better estimate of the transition state structure and reducing the total computational time by a factor of 2 to 3 compared to the modified-GSM. The applicability of the substring strategy has been extended to three additional examples: cyclopropane rearrangement to propylene, isomerization of methylcyclopropane to four different stereoisomers, and the bimolecular Diels-Alder condensation of 1,3-butadiene and ethylene to cyclohexene. Thus, the substring strategy used in combination with the modified-GSM has been demonstrated to be an efficient transition state-finding strategy for a wide range of types of reactions.

[1]  M. Head‐Gordon,et al.  Development and application of a hybrid method involving interpolation and ab initio calculations for the determination of transition states. , 2008, The Journal of chemical physics.

[2]  G. Henkelman,et al.  Optimization methods for finding minimum energy paths. , 2008, The Journal of chemical physics.

[3]  Antoni Aguilar-Mogas,et al.  Finding reaction paths using the potential energy as reaction coordinate. , 2008, The Journal of chemical physics.

[4]  Alexis T. Bell,et al.  Theoretical Analysis of the Mechanism for the Oxidative Carbonylation of Toluene to p-Toluic Acid by Rhodium Complexes , 2008 .

[5]  Steven K. Burger,et al.  Sequential quadratic programming method for determining the minimum energy path. , 2007, The Journal of chemical physics.

[6]  A. Bell,et al.  Oxidative carbonylation of toluene to p-toluic acid catalyzed by rhodium in the presence of vanadium and oxygen , 2007 .

[7]  Wolfgang Quapp,et al.  Finding the transition state without initial guess: The growing string method for Newton trajectory to isomerization and enantiomerization reaction of alanine dipeptide and poly(15)alanine , 2007, J. Comput. Chem..

[8]  Alexis T. Bell,et al.  Mechanistic Studies of Methanol Oxidation to Formaldehyde on Isolated Vanadate Sites Supported on Mcm-48 , 2007 .

[9]  Eric Vanden-Eijnden,et al.  Simplified and improved string method for computing the minimum energy paths in barrier-crossing events. , 2007, The Journal of chemical physics.

[10]  Shawn T. Brown,et al.  Advances in methods and algorithms in a modern quantum chemistry program package. , 2006, Physical chemistry chemical physics : PCCP.

[11]  Steven K. Burger,et al.  Quadratic string method for determining the minimum-energy path based on multiobjective optimization. , 2006, The Journal of chemical physics.

[12]  A. Bell,et al.  Efficient methods for finding transition states in chemical reactions: comparison of improved dimer method and partitioned rational function optimization method. , 2005, The Journal of chemical physics.

[13]  J. Sauer,et al.  Oxidation of methanol to formaldehyde on supported vanadium oxide catalysts compared to gas phase molecules. , 2005, Journal of the American Chemical Society.

[14]  Michael A. Collins,et al.  Interpolated potential energy surface for abstraction and exchange reactions of NH3 + H and deuterated analogues , 2005 .

[15]  Gloria E Moyano,et al.  Molecular potential energy surfaces by interpolation: strategies for faster convergence. , 2004, The Journal of chemical physics.

[16]  A. Chakraborty,et al.  A growing string method for determining transition states: comparison to the nudged elastic band and string methods. , 2004, The Journal of chemical physics.

[17]  Alexis T. Bell,et al.  Challenges for the application of quantum chemical calculations to problems in catalysis , 2004 .

[18]  D. Wales,et al.  A doubly nudged elastic band method for finding transition states. , 2004, The Journal of chemical physics.

[19]  B. Brooks,et al.  A super-linear minimization scheme for the nudged elastic band method , 2003 .

[20]  H. Bernhard Schlegel,et al.  Exploring potential energy surfaces for chemical reactions: An overview of some practical methods , 2003, J. Comput. Chem..

[21]  ANDRÁS PERCZEL,et al.  Peptide models. XXXIII. Extrapolation of low‐level Hartree–Fock data of peptide conformation to large basis set SCF, MP2, DFT, and CCSD(T) results. The Ramachandran surface of alanine dipeptide computed at various levels of theory , 2003, J. Comput. Chem..

[22]  Michael A. Collins,et al.  Molecular potential-energy surfaces for chemical reaction dynamics , 2002 .

[23]  W. E,et al.  Finite temperature string method for the study of rare events. , 2002, The journal of physical chemistry. B.

[24]  Chun Huang,et al.  Dual-Level Direct Dynamics Study on the Diels−Alder Reaction of Ethylene and 1,3-Butadiene , 2001 .

[25]  I. Wachs,et al.  The Origin of the Ligand Effect in Metal Oxide Catalysts: Novel Fixed-Bed in Situ Infrared and Kinetic Studies during Methanol Oxidation , 2001 .

[26]  G. Henkelman,et al.  A climbing image nudged elastic band method for finding saddle points and minimum energy paths , 2000 .

[27]  G. Henkelman,et al.  Improved tangent estimate in the nudged elastic band method for finding minimum energy paths and saddle points , 2000 .

[28]  Donald G. Truhlar,et al.  Transition State Modeling for Catalysis , 1999 .

[29]  B. L. Kalra,et al.  KINETICS OF THE THERMAL ISOMERIZATION OF METHYLCYCLOPROPANE , 1999 .

[30]  F. Jensen Introduction to Computational Chemistry , 1998 .

[31]  G. A. Petersson,et al.  Transition states for chemical reactions I. Geometry and classical barrier height , 1998 .

[32]  Michael A. Collins,et al.  Molecular potential energy surfaces by interpolation in Cartesian coordinates , 1998 .

[33]  Michael A. Collins,et al.  POLYATOMIC MOLECULAR POTENTIAL ENERGY SURFACES BY INTERPOLATION IN LOCAL INTERNAL COORDINATES , 1998 .

[34]  A. Lifshitz,et al.  Structural and Geometrical Isomerizations of Cyclopropane. Quantum Chemical and RRKM Calculations , 1998 .

[35]  K. Houk,et al.  Density Functional Theory Prediction of the Relative Energies and Isotope Effects for the Concerted and Stepwise Mechanisms of the Diels−Alder Reaction of Butadiene and Ethylene , 1996 .

[36]  Michael A. Collins,et al.  Molecular Potential Energy Surfaces by Interpolation , 1994, International Conference on Computational Science.

[37]  B. C. Garrett,et al.  Current status of transition-state theory , 1983 .

[38]  W. Miller,et al.  ON FINDING TRANSITION STATES , 1981 .

[39]  K. Müller,et al.  Location of saddle points and minimum energy paths by a constrained simplex optimization procedure , 1979 .

[40]  B. Rabinovitch,et al.  Competitive thermal unimolecular reactions of trans-cyclopropane-d2. Collisional energy transfer , 1972 .

[41]  S. Ho Isomerization of Chemically Activated Methylcyclopropane and the Ratio of Trans‐ to Cis‐2‐Butene , 1969 .

[42]  B. Rabinovitch,et al.  Kinetics of the Thermal Unimolecular Isomerization Reactions of Cyclopropane-d21 , 1960 .

[43]  J. P. Chesick The Kinetics of Thermal Isomerization of Methylcyclopropane , 1960 .

[44]  J. Langrish,et al.  Secondary Effects in the Thermal Decompositions of Cyclopropane and Cyclobutane , 1958 .

[45]  B. Rabinovitch,et al.  Geometrical and Structural Unimolecular Isomerization of Sym‐Cyclopropane‐d2 , 1958 .

[46]  D. Truhlar Chemical Reaction Theory: Summarizing Remarks , 1998 .

[47]  Ron Elber,et al.  A method for determining reaction paths in large molecules: application to myoglobin , 1987 .

[48]  R. C. Weast CRC Handbook of Chemistry and Physics , 1973 .

[49]  D. Rowley,et al.  Kinetics of diene reactions at high temperatures , 1951 .