scholarly journals Protein Folding, Structure Prediction and the Principle of Protein Architecture

2010 ◽  
Vol 50 (5) ◽  
pp. 210-211 ◽  
Author(s):  
George CHIKENJI
Keyword(s):  
Protein Folding ◽  
Structure Prediction ◽  
Protein Architecture ◽  
Folding Structure

Protein folding, structure prediction and design

2014 ◽  
Vol 42 (2) ◽  
pp. 225-229 ◽  
Author(s):  
David Baker
Keyword(s):  
Protein Folding ◽  
Protein Structure ◽  
Protein Design ◽  
Structure Prediction ◽  
Experimental Studies ◽  
Folding Rate ◽  
Contact Order ◽  
Folding Structure ◽  
Protein Folding Rate ◽  
Rate Correlation

I describe how experimental studies of protein folding have led to advances in protein structure prediction and protein design. I describe the finding that protein sequences are not optimized for rapid folding, the contact order–protein folding rate correlation, the incorporation of experimental insights into protein folding into the Rosetta protein structure production methodology and the use of this methodology to determine structures from sparse experimental data. I then describe the inverse problem (protein design) and give an overview of recent work on designing proteins with new structures and functions. I also describe the contributions of the general public to these efforts through the Rosetta@home distributed computing project and the FoldIt interactive protein folding and design game.

Backbone dihedral angles prediction servers for protein early-stage structure prediction

2019 ◽  
Vol 15 (4) ◽  
Author(s):  
Tomasz Smolarczyk ◽  
Katarzyna Stapor ◽  
Irena Roterman-Konieczna
Keyword(s):  
Protein Folding ◽  
Secondary Structure ◽  
Protein Function ◽  
Structure Prediction ◽  
Secondary Structure Prediction ◽  
Early Stage ◽  
Three Dimensional ◽  
Stage Structure ◽  
Dihedral Angles ◽  
Starting Point

AbstractThree-dimensional protein structure prediction is an important task in science at the intersection of biology, chemistry, and informatics, and it is crucial for determining the protein function. In the two-stage protein folding model, based on an early- and late-stage intermediates, we propose to use state-of-the-art secondary structure prediction servers for backbone dihedral angles prediction and devise an early-stage structure. Early-stage structures are used as a starting point for protein folding simulations, and any errors in this stage affect the final predictions. We have shown that modern secondary structure prediction servers could increase the accuracy of early-stage predictions compared to previously reported models.

RNA Folding: Structure Prediction, Folding Kinetics and Ion Electrostatics

2014 ◽  
pp. 143-183 ◽  
Author(s):  
Zhijie Tan ◽  
Wenbing Zhang ◽  
Yazhou Shi ◽  
Fenghua Wang
Keyword(s):  
Structure Prediction ◽  
Rna Folding ◽  
Folding Kinetics ◽  
Folding Structure
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