Literature DB >> 12594794

Transferable atom equivalent multicentered multipole expansion method.

C E Whitehead1, C M Breneman, N Sukumar, M D Ryan.   

Abstract

The transferability of atomic and functional group properties is an implicit concept in chemistry. The work presented here describes the use of Transferable Atom Equivalents (TAE) to represent molecular electrostatic potential fields through the use of integrated atomic multipole moments that are associated with each TAE atom type used in the reconstruction. TAE molecular surface distributions of electrostatic potentials are compared with analytical ab initio and empirical (Gasteiger) partial charge reference models for several conformations of test peptides. Surface electrostatic potential distributions computed using TAE multipole representations were found to converge at the octopole level, with incremental improvement observed when hexadecapoles were included. Molecular electrostatic potential fields that were produced using the TAE method were observed to be responsive to conformational changes and to compare well with ab initio reference distributions. Generation of TAE atom types and their associated multipoles does not involve fitting to sample electrostatic potential fields, but rather utilizes integrated AIM atomic electron density distributions within representative chemical environments. The RECON program was used for TAE reconstruction. RECON is capable of processing 5,000 drug-sized molecules or 25 proteins per minute per 1.7 GHz P4 Linux processor. Copyright 2003 Wiley Periodicals, Inc. J Comput Chem 24: 512-529, 2003

Entities:  

Mesh:

Substances:

Year:  2003        PMID: 12594794     DOI: 10.1002/jcc.10240

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


  3 in total

1.  Rank order entropy: why one metric is not enough.

Authors:  Margaret R McLellan; M Dominic Ryan; Curt M Breneman
Journal:  J Chem Inf Model       Date:  2011-08-29       Impact factor: 4.956

2.  Predicting protein-membrane interfaces of peripheral membrane proteins using ensemble machine learning.

Authors:  Alexios Chatzigoulas; Zoe Cournia
Journal:  Brief Bioinform       Date:  2022-03-10       Impact factor: 11.622

Review 3.  The importance of discerning shape in molecular pharmacology.

Authors:  Sandhya Kortagere; Matthew D Krasowski; Sean Ekins
Journal:  Trends Pharmacol Sci       Date:  2009-01-31       Impact factor: 14.819

  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.