Literature DB >> 11908087

Improved semiempirical heats of formation through the use of bond and group equivalents.

Matthew P Repasky1, Jayaraman Chandrasekhar, William L Jorgensen.   

Abstract

Deficiencies in energetics obtained using the common semiempirical methods, AM1, PM3, and MNDO, may partly be traced to the use of pseudoatomic equivalents for conversion of molecular energies to heats of formation at 298 K. We present an alternative scheme based on the use of bond and group equivalents. Values for the 61 bond and group equivalents necessary for treatment of molecules containing the common organic elements, hydrogen, carbon, nitrogen, and oxygen have been derived. For a set of 583 neutral, closed-shell molecules mean absolute errors in AM1, PM3, and MNDO heats of formation are reduced from 6.6, 4.2, and 8.2 kcal/mol to 2.3, 2.2, and 3.0 kcal/mol, respectively. Several systematic problems are overcome in the present scheme including relative stabilities of branched hydrocarbons, energetics of conjugated systems, heats of formation of long chain hydrocarbons, and enthalpies of molecules containing multiple heteroatoms. Although the approach is restricted to molecules with well-defined functional groups, the equivalents are easy to incorporate and are chemically relevant. This revised procedure allows semiempirical methods to be used for far more reliable evaluations of heats of reactions. Estimates are made of the errors inherent in these semiempirical formalisms, arising from integral approximations and the neglect of explicit treatment of electron correlation effects, while excluding those from inadequate parameterization.

Entities:  

Year:  2002        PMID: 11908087     DOI: 10.1002/jcc.10023

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  1 in total

1.  Structure-guided development of deoxycytidine kinase inhibitors with nanomolar affinity and improved metabolic stability.

Authors:  Julian Nomme; Zheng Li; Raymond M Gipson; Jue Wang; Amanda L Armijo; Thuc Le; Soumya Poddar; Tony Smith; Bernard D Santarsiero; Hien-Anh Nguyen; Johannes Czernin; Anastassia N Alexandrova; Michael E Jung; Caius G Radu; Arnon Lavie
Journal:  J Med Chem       Date:  2014-11-07       Impact factor: 7.446

  1 in total

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