Literature DB >> 11863858

Global optimization by energy landscape paving.

Ulrich H E Hansmann1, Luc T Wille.   

Abstract

We introduce a novel heuristic global optimization method, energy landscape paving (ELP), which combines core ideas from energy surface deformation and tabu search. In appropriate limits, ELP reduces to existing techniques. The approach is very general and flexible and is illustrated here on two protein folding problems. For these examples, the technique gives faster convergence to the global minimum than previous approaches.

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Year:  2002        PMID: 11863858     DOI: 10.1103/PhysRevLett.88.068105

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  20 in total

1.  Hybrid global optimization algorithms for protein structure prediction: alternating hybrids.

Authors:  J L Klepeis; M J Pieja; C A Floudas
Journal:  Biophys J       Date:  2003-02       Impact factor: 4.033

2.  Determination of low-energy structures of a small RNA hairpin using Monte Carlo-based techniques.

Authors:  Sudhanshu Shanker; Pradipta Bandyopadhyay
Journal:  J Biosci       Date:  2012-07       Impact factor: 1.826

3.  Folding thermodynamics of peptides.

Authors:  Anders Irbäck; Sandipan Mohanty
Journal:  Biophys J       Date:  2004-12-21       Impact factor: 4.033

4.  Efficient sampling of protein structures by model hopping.

Authors:  Wooseop Kwak; Ulrich H E Hansmann
Journal:  Phys Rev Lett       Date:  2005-09-22       Impact factor: 9.161

5.  Conformational study of Met-enkephalin based on the ECEPP force fields.

Authors:  Lixin Zhan; Jeff Z Y Chen; Wing-Ki Liu
Journal:  Biophys J       Date:  2006-07-07       Impact factor: 4.033

6.  An evolutionary strategy for all-atom folding of the 60-amino-acid bacterial ribosomal protein l20.

Authors:  A Schug; W Wenzel
Journal:  Biophys J       Date:  2006-03-24       Impact factor: 4.033

7.  An all-atom force field for tertiary structure prediction of helical proteins.

Authors:  T Herges; W Wenzel
Journal:  Biophys J       Date:  2004-11       Impact factor: 4.033

Review 8.  Understanding protein folding: small proteins in silico.

Authors:  Olav Zimmermann; Ulrich H E Hansmann
Journal:  Biochim Biophys Acta       Date:  2007-11-06

9.  Generalized pattern search algorithm for Peptide structure prediction.

Authors:  Giuseppe Nicosia; Giovanni Stracquadanio
Journal:  Biophys J       Date:  2008-05-16       Impact factor: 4.033

10.  Structure optimization of the two-dimensional off-lattice hydrophobic-hydrophilic model.

Authors:  Jingfa Liu; Shengjun Xue; Duanbing Chen; Huantong Geng; Zhaoxia Liu
Journal:  J Biol Phys       Date:  2009-06-11       Impact factor: 1.365

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