scholarly journals Prediction of Native-State Hydrogen Exchange from Perfectly Funneled Energy Landscapes

2011 ◽  
Vol 133 (43) ◽  
pp. 17463-17472 ◽  
Author(s):  
Patricio O. Craig ◽  
Joachim Lätzer ◽  
Patrick Weinkam ◽  
Ryan M. B. Hoffman ◽  
Diego U. Ferreiro ◽  
...  
Keyword(s):  
Hydrogen Exchange ◽  
Energy Landscapes ◽  
Native State

Relationship between the Native-State Hydrogen Exchange and Folding Pathways of a Four-Helix Bundle Protein

Biochemistry ◽  
2002 ◽  
Vol 41 (25) ◽  
pp. 7998-8003 ◽  
Author(s):  
Ruiai Chu ◽  
Wuhong Pei ◽  
Jiro Takei ◽  
Yawen Bai
Keyword(s):  
Hydrogen Exchange ◽  
Native State ◽  
Helix Bundle ◽  
Folding Pathways ◽  
Four Helix Bundle ◽  
Bundle Protein

scholarly journals Detection of Native-State Nonadditivity in Double Mutant Cycles via Hydrogen Exchange

2010 ◽  
Vol 132 (23) ◽  
pp. 8010-8019 ◽  
Author(s):  
Joshua A. Boyer ◽  
Cristina J. Clay ◽  
K. Scott Luce ◽  
Marshall H. Edgell ◽  
Andrew L. Lee
Keyword(s):  
Double Mutant ◽  
Hydrogen Exchange ◽  
Native State

scholarly journals Protein folding intermediates: native-state hydrogen exchange

Science ◽  
1995 ◽  
Vol 269 (5221) ◽  
pp. 192-197 ◽  
Author(s):  
Y Bai ◽  
T. Sosnick ◽  
L Mayne ◽  
S. Englander
Keyword(s):  
Protein Folding ◽  
Hydrogen Exchange ◽  
Native State ◽  
Folding Intermediates

KINETIC ANALYSIS OF PROTEIN FOLDING LATTICE MODELS

2004 ◽  
Vol 18 (04) ◽  
pp. 163-172 ◽  
Author(s):  
HU CHEN ◽  
XIN ZHOU ◽  
CHIH YOUNG LIAW ◽  
CHAN GHEE KOH
Keyword(s):  
Kinetic Model ◽  
Molten Globule ◽  
Lattice Models ◽  
Random Coil ◽  
Square Lattice ◽  
Energy Landscapes ◽  
Native State ◽  
Folding Process ◽  
Hp Model ◽  
Go Model

Based on two-dimensional square lattice models of proteins, the relation between folding time and temperature is studied by Monte Carlo simulation. The results can be represented by a kinetic model with three states — random coil, molten globule, and native state. The folding process is composed of nonspecific collapse and final searching for the native state. At high temperature, it is easy to escape from local traps in the folding process. With decreasing temperature, because of the trapping in local traps, the final searching speed decreases. Then the folding shows chevron rollover. Through the analysis of the fitted parameters of the kinetic model, it is found that the main difference between the energy landscapes of the HP model and the Go model is that the number of local minima of the Go model is less than that of the HP model.

Hydrogen exchange and structural dynamics of proteins and nucleic acids

1983 ◽  
Vol 16 (4) ◽  
pp. 521-655 ◽  
Author(s):  
S. Walter Englander ◽  
Neville R. Kallenbach
Keyword(s):  
Free Energy ◽  
Nucleic Acids ◽  
Structural Dynamics ◽  
Hydrogen Exchange ◽  
Native State ◽  
Structural Work

Though the structures presented in crystallographic models of macromolecules appear to possess rock-like solidity, real proteins and nucleic acids are not particularly rigid. Most structural work to date has centred upon the native state of macromolecules, the most probable macromolecular form. But the native state of a molecule is merely its most abundant form, certainly not its only form. Thermodynamics requires that all other possible structural forms, however improbable, must also exist, albeit with representation corresponding to the factor exp( — Gi/RT) for each state of free energy Gi (see Moelwyn-Hughes, 1961), and one appreciates that each molecule within a population of molecules will in time explore the vast ensemble of possible structural states.

scholarly journals Cytochrome c folding pathway: Kinetic native-state hydrogen exchange

2002 ◽  
Vol 99 (19) ◽  
pp. 12173-12178 ◽  
Author(s):  
L. Hoang ◽  
S. Bedard ◽  
M. M. G. Krishna ◽  
Y. Lin ◽  
S. W. Englander
Keyword(s):  
Cytochrome C ◽  
Hydrogen Exchange ◽  
Folding Pathway ◽  
Native State

Microsecond Protein Folding Kinetics from Native-State Hydrogen Exchange†

Biochemistry ◽  
1997 ◽  
Vol 36 (29) ◽  
pp. 8686-8691 ◽  
Author(s):  
Cammon B. Arrington ◽  
Andrew D. Robertson
Keyword(s):  
Protein Folding ◽  
Hydrogen Exchange ◽  
Folding Kinetics ◽  
Native State
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