References and Further Reading

  1. Theory of protein folding: the energy landscape perspective
    Onuchic JN, Luthey-Schulten Z, Wolynes PG
    Annu Rev Phys Chem - 1997 - [pdf]

  2. Spin glasses and the statistical mechanics of protein folding
    Bryngelson JD, Wolynes PG
    Proc Natl Acad Sci USA - 1987 - [pdf]

  3. 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
    Clementi C, Nymeyer H, Onuchic JN
    J Mol Biol - 2000 - [pdf]

  4. Roles of native topology and chain-length scaling in protein folding: a simulation study with a Go-like model
    Koga N, Takada S
    J Mol Biol - 2001 - [pdf]

  5. Quantifying the roughness on the free energy landscape: entropic bottlenecks and protein folding rates
    Chavez LL, Onuchic JN, Clementi C
    J Am Chem Soc - 2004 - [pdf]

  6. The energy landscape of modular repeat proteins: topology determines folding mechanism in the ankyrin family
    Ferreiro DU, Cho SS, Komives EA, Wolynes PG
    J Mol Biol - 2005 - [pdf]

  7. Protein topology determines binding mechanism
    Levy Y, Wolynes PG, Onuchic JN
    Proc Natl Acad Sci USA - 2004 - [pdf]

  8. Domain swapping is a consequence of minimal frustration
    Yang S, Cho SS, Levy Y, Cheung MS, Levine H, Wolynes PG, Onuchic JN
    Proc Natl Acad Sci USA - 2004 - [pdf]

  9. The Energy Lanscapes and Motions of Poteins
    Frauenfelder H, Sligar SG, Wolynes PG
    Science - 1991 - [pdf]

  10. The spectrum of biomolecular states and motions
    Hegler JA, Weinkam P , Wolynes PG
    HFSP Journal - 2008 - [pdf]

  11. Localizing frustration in native proteins and protein assemblies
    Ferreiro DU, Hegler JA, Komives EA, Wolynes PG
    Proc Natl Acad Sci USA - 2007 - [pdf]

  12. Supplementary Methods to reference 11 [pdf]

  13. Water in protein structure prediction
    Papoian GA, Ulander J, Eastwood MP, Luthey-Schulten Z, Wolynes PG
    Proc Natl Acad Sci USA - 2003 - [pdf]

  14. Consequences of localized frustration for the folding mechanism of the IM7 protein
    Sutto L, Latzer J, Hegler JA, Ferreiro DU, Wolynes PG
    Proc Natl Acad Sci USA - 2007 - [pdf]

  15. The capillarity picture and the kinetics of one-dimensional protein folding
    Ferreiro DU, Wolynes PG
    Proc Natl Acad Sci USA - 2008 - [pdf]

  16. On the role of frustration in the energy landscapes of allosteric proteins
    Ferreiro DU, Hegler JA, Komives EA, Wolynes PG
    Proc Natl Acad Sci USA - 2011 - [pdf]


How to cite this application

Protein frustratometer: a tool to localize energetic frustration in protein molecules.
Michael Jenik; R. Gonzalo Parra; Leandro G. Radusky; Adrian Turjanski; Peter G. Wolynes; Diego U. Ferreiro.
Nucleic Acids Research 2012; doi: 10.1093/nar/gks447
[Abstract] [Full Text] [pdf]

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