Literature DB >> 15703287

Putting the pathway back into protein folding.

Jeffrey Skolnick1.   

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Year:  2005        PMID： 15703287      PMCID： PMC549015          DOI： 10.1073/pnas.0500128102

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


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  18 in total

1.  Topological and energetic factors: what determines the structural details of the transition state ensemble and "en-route" intermediates for protein folding? An investigation for small globular proteins.

Authors:  C Clementi; H Nymeyer; J N Onuchic
Journal:  J Mol Biol       Date:  2000-05-19       Impact factor: 5.469

2.  Folding funnels: the key to robust protein structure prediction.

Authors:  Corey Hardin; Michael P Eastwood; Michael Prentiss; Z Luthey-Schulten; Peter G Wolynes
Journal:  J Comput Chem       Date:  2002-01-15       Impact factor: 3.376

3.  Long-range interactions within a nonnative protein.

Authors:  Judith Klein-Seetharaman; Maki Oikawa; Shaun B Grimshaw; Julia Wirmer; Elke Duchardt; Tadashi Ueda; Taiji Imoto; Lorna J Smith; Christopher M Dobson; Harald Schwalbe
Journal:  Science       Date:  2002-03-01       Impact factor: 47.728

4.  Simulation of folding of a small alpha-helical protein in atomistic detail using worldwide-distributed computing.

Authors:  Bojan Zagrovic; Christopher D Snow; Michael R Shirts; Vijay S Pande
Journal:  J Mol Biol       Date:  2002-11-08       Impact factor: 5.469

5.  Rosetta predictions in CASP5: successes, failures, and prospects for complete automation.

Authors:  Philip Bradley; Dylan Chivian; Jens Meiler; Kira M S Misura; Carol A Rohl; William R Schief; William J Wedemeyer; Ora Schueler-Furman; Paul Murphy; Jack Schonbrun; Charles E M Strauss; David Baker
Journal:  Proteins       Date:  2003

6.  The PDB is a covering set of small protein structures.

Authors:  Daisuke Kihara; Jeffrey Skolnick
Journal:  J Mol Biol       Date:  2003-12-05       Impact factor: 5.469

7.  Automated structure prediction of weakly homologous proteins on a genomic scale.

Authors:  Yang Zhang; Jeffrey Skolnick
Journal:  Proc Natl Acad Sci U S A       Date:  2004-05-04       Impact factor: 11.205

8.  Simulations of the role of water in the protein-folding mechanism.

Authors:  Young Min Rhee; Eric J Sorin; Guha Jayachandran; Erik Lindahl; Vijay S Pande
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-16       Impact factor: 11.205

9.  Ab initio simulations of protein-folding pathways by molecular dynamics with the united-residue model of polypeptide chains.

Authors:  Adam Liwo; Mey Khalili; Harold A Scheraga
Journal:  Proc Natl Acad Sci U S A       Date:  2005-01-26       Impact factor: 11.205

Review 10.  Hydrogen exchange methods to study protein folding.

Authors:  Mallela M G Krishna; Linh Hoang; Yan Lin; S Walter Englander
Journal:  Methods       Date:  2004-09       Impact factor: 3.608
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  4 in total

1.  The effect of long-range interactions on the secondary structure formation of proteins.

Authors:  Daisuke Kihara
Journal:  Protein Sci       Date:  2005-06-29       Impact factor: 6.725

2.  Modification and optimization of the united-residue (UNRES) potential energy function for canonical simulations. I. Temperature dependence of the effective energy function and tests of the optimization method with single training proteins.

Authors:  Adam Liwo; Mey Khalili; Cezary Czaplewski; Sebastian Kalinowski; Staniłsaw Ołdziej; Katarzyna Wachucik; Harold A Scheraga
Journal:  J Phys Chem B       Date:  2007-01-11       Impact factor: 2.991

3.  Two-stage folding of HP-35 from ab initio simulations.

Authors:  Hongxing Lei; Yong Duan
Journal:  J Mol Biol       Date:  2007-04-20       Impact factor: 5.469

4.  Simulating protein folding initiation sites using an alpha-carbon-only knowledge-based force field.

Authors:  Patrick M Buck; Christopher Bystroff
Journal:  Proteins       Date:  2009-08-01
  4 in total

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