Frustration in biomolecules

Ferreiro, Diego U., Komives, Elizabeth A., Wolynes, Peter G.·2014·Quarterly Reviews of Biophysics

Cites (248)

Items 201–248 of 248

  1. Chapter 4 Analysis of Repeat‐Protein Folding Using Nearest‐Neighbor Statistical Mechanical Models
    Tural Aksel, Doug Barrick · 2009 · Methods in enzymology on CD-ROM/Methods in enzymology
  2. Exploring the folding energy landscape of a series of designed consensus tetratricopeptide repeat proteins
    Yalda Javadi, Ewan R.G. Main · 2009 · Proceedings of the National Academy of Sciences
  3. Detecting Repetitions and Periodicities in Proteins by Tiling the Structural Space
    R. Gonzalo Parra, Rocío Espada, Ignacio Enrique Sanchez, Manfred J. Sippl, Diego Ulises Ferreiro · 2013 · The Journal of Physical Chemistry B
  4. Correlated Motions and Residual Frustration in Thrombin
    Brian Fuglestad, Paul M. Gasper, James Andrew McCammon · 2013 · The Journal of Physical Chemistry B
  5. Weak Frustration Regulates Sliding and Binding Kinetics on Rugged Protein–DNA Landscapes
    Amir Marcovitz, Yaakov Levy · 2013 · The Journal of Physical Chemistry B
  6. Separating the effects of internal friction and transition state energy to explain the slow, frustrated folding of spectrin domains
    Beth G. Wensley, Lee Gyan Kwa, Sarah L. Shammas, Joseph M. Rogers, Stuart J. Browning, Ziqi Yang, Jane Clarke · 2012 · Proceedings of the National Academy of Sciences
  7. Bypassing the kinetic trap of serpin protein folding by loop extension
    Hana Im, Hee‐Young Ahn, Myeong‐Hee Yu · 2000 · Protein Science
  8. Competing interaction in magnets: the root of ordered disorder or only frustration?
    Per Nordblad · 2013 · Physica Scripta
  9. The Structural Basis of Serpin Polymerization Studied by Hydrogen/Deuterium Exchange and Mass Spectrometry
    Yuko Tsutsui, Barbara A. Kuri, Tanusree Sengupta · 2008 · Journal of Biological Chemistry
  10. The spectrum of biomolecular states and motions
    Joseph A. Hegler, Patrick Weinkam, Peter Guy Wolynes · 2008 · HFSP journal
  11. Latest folding game results: Protein A barely frustrates computationalists
    Peter Guy Wolynes · 2004 · Proceedings of the National Academy of Sciences
  12. Protein Folding and Metal Ions
    Cláudio M. Gomes, Pernilla Wittung‐Stafshede · 2010 · CRC Press eBooks
  13. Function and Dynamics of Myoglobina
    Hans Frauenfelder · 1987 · Annals of the New York Academy of Sciences
  14. Scanning Malleable Transition State Ensembles: Comparing Theory and Experiment for Folding Protein U1A
    Tongye Shen, Christoph P. Hofmann, Mikael Oliveberg · 2005 · Biochemistry
  15. Folding of electrostatically charged beads-on-a-string as an experimental realization of a theoretical model in polymer science
    Meital Reches, Phillip W. Snyder, George M. Whitesides · 2009 · Proceedings of the National Academy of Sciences
  16. Transition state for protein–DNA recognition
    Diego Ulises Ferreiro, Ignacio Enrique Sanchez, Gonzalo de Prat Gay · 2008 · Proceedings of the National Academy of Sciences
  17. The capillarity picture and the kinetics of one-dimensional protein folding
    Diego Ulises Ferreiro, Peter Guy Wolynes · 2008 · Proceedings of the National Academy of Sciences
  18. Funneling and frustration in the energy landscapes of some designed and simplified proteins
    Ha H. Truong, Bobby L. Kim, Nicholas P. Schafer, Peter Guy Wolynes · 2013 · The Journal of Chemical Physics
  19. Analysis of 15N–1H NMR Relaxation in Proteins by a Combined Experimental and Molecular Dynamics Simulation Approach: Picosecond–Nanosecond Dynamics of the Rho GTPase Binding Domain of Plexin-B1 in the Dimeric State Indicates Allosteric Pathways
    Mirco Zerbetto, Ross W. Anderson, Sabine Bouguet‐Bonnet · 2012 · The Journal of Physical Chemistry B
  20. The plastic landscape of repeat proteins
    Diego Ulises Ferreiro, Elizabeth A. Komives · 2007 · Proceedings of the National Academy of Sciences
  21. Methionine and Alanine Substitutions Show That the Formation of Wild-Type-like Structure in the Carboxy-Terminal Domain of T4 Lysozyme Is a Rate-Limiting Step in Folding
    Nadine C. Gassner, Walter A. Baase, J.D. Lindstrom, Jirong Lu, Frederick W. Dahlquist, Brian W. Matthews · 1999 · Biochemistry
  22. Thermodynamic Properties of BPTI Variants with Highly Simplified Amino Acid Sequences
    Atsushi Kato, Munetaka Yamada, Shigeyoshi Nakamura · 2007 · Journal of Molecular Biology
  23. Mutant sequences as probes of protein folding mechanisms
    C. Robert Matthews, Mark R. Hurle · 1987 · BioEssays
  24. β-Bulge triggers route-switching on the functional landscape of interleukin-1β
    Dominique T. Capraro, Melinda Roy, José N. Onuchic · 2012 · Proceedings of the National Academy of Sciences
  25. The shape-shifting quasispecies of RNA: one sequence, many functional folds
    Matthew Sean Marek, Alexander E. Johnson-Buck, Nils G. Walter · 2011 · Physical Chemistry Chemical Physics
  26. φ-Value Analysis of Apo-Azurin Folding: Comparison between Experiment and Theory
    Chenghang Zong, Corey J. Wilson, Tongye Shen · 2006 · Biochemistry
  27. De novo Proteins From Binary-Patterned Combinatorial Libraries
    Luke H. Bradley, Peter P. Thumfort, Michael H. Hecht · 2006 · Humana Press eBooks
  28. Activation-energy landscape for metastable RNA folding
    Ariel Fernández, Eugene I. Shakhnovich · 1990 · Physical Review A
  29. NMR Characterisation of the Relationship between Frustration and the Excited State of Im7
    Sara B.‐M. Whittaker, Nigel J. Clayden, Geoffrey R. Moore · 2011 · Journal of Molecular Biology
  30. Towards more meaningful hierarchical classification of amino acid scoring matrices
    Alex C.W. May · 1999 · Protein Engineering Design and Selection
  31. Experimental snapshots of a protein-DNA binding landscape
    Ignacio Enrique Sanchez, Diego Ulises Ferreiro, Mariano Dellarole, Gonzalo de Prat Gay · 2010 · Proceedings of the National Academy of Sciences
  32. Modulation of Folding Kinetics of Repeat Proteins: Interplay between Intra- and Interdomain Interactions
    Tzachi Hagai, Ariel Azia, Emmanuel Trizac, Yaakov Levy · 2012 · Biophysical Journal
  33. Discrete Kinetic Models from Funneled Energy Landscape Simulations
    Nicholas P. Schafer, Ryan M. B. Hoffman, Anat Burger, Patricio Oliver Craig, Elizabeth A. Komives, Peter Guy Wolynes · 2012 · PLoS ONE
  34. Structural and kinetic characterization of the simplified SH3 domain FP1
    Yi Qian, Ponni Rajagopal, Rachel E. Klevit · 2003 · Protein Science
  35. Predicting repeat protein folding kinetics from an experimentally determined folding energy landscape
    Timothy O. Street, Doug Barrick · 2008 · Protein Science
  36. Sequence ‘minimization’: exploring the sequence landscape with simplified sequences
    Neil D. Clarke · 1995 · Current Opinion in Biotechnology
  37. Chemical Frustration in the Protein Folding Landscape: Grand Canonical Ensemble Simulations of Cytochrome c
    Patrick Weinkam, Floyd E. Romesberg, Peter Guy Wolynes · 2009 · Biochemistry
  38. NMR Structures of Two Variants of Bovine Pancreatic Trypsin Inhibitor (BPTI) Reveal Unexpected Influence of Mutations on Protein Structure and Stability
    Tomasz Cierpicki, Jacek Otlewski · 2002 · Journal of Molecular Biology
  39. Designing cooperativity into the designed protein Top7
    Shilpa Yadahalli, Shachi Gosavi · 2013 · Proteins Structure Function and Bioinformatics
  40. From Artificial Antibodies to Nanosprings
    Laura S. Itzhaki, Alan R. Lowe · 2012 · Advances in experimental medicine and biology
  41. 15N NMR Relaxation Data Reveal Significant Chemical Exchange Broadening in the α-Domain of Human α-Lactalbumin
    Gilles Bruylants, Christina Redfield · 2009 · Biochemistry
  42. A helix initiation signal in T4 lysozyme identified by polyalanine mutagenesis
    Xuejun Zhang, Walter A. Baase, Brian W. Matthews · 2002 · Biophysical Chemistry
  43. Mutational analysis of kinetic partitioning in protein folding and protein–DNA binding
    Ignacio Enrique Sanchez, Diego Ulises Ferreiro, Gonzalo de Prat Gay · 2010 · Protein Engineering Design and Selection
  44. Conformational dynamics is more important than helical propensity for the folding of the all α‐helical protein Im7
    Angelo Miguel Figueiredo, Sara B.‐M. Whittaker, Stuart Knowling, Sheena E. Radford, Geoffrey R. Moore · 2013 · Protein Science
  45. Structure and Speciation in Hydrous Silica Melts. 1. Temperature and Composition Effects
    Kelly E. Anderson, M. M. Hirschmann, Joern Ilja Siepmann · 2008 · The Journal of Physical Chemistry B
  46. Another Way to Take the Ocean's Pulse
    Richard A. Kerr · 2003 · Science
  47. Beyond Reductionism Twice: No Laws Entail Biosphere Evolution, Formal Cause Laws Beyond Efficient Cause Laws
    Stuart Alan Kauffman · 2013 · arXiv (Cornell University)
  48. Zinc and p53 Misfolding
    Claudio M. Gomes, Pernilla Wittung-Stafshede · 2010 · CRC Press eBooks