scholarly journals Memory effects in a random walk description of protein structure ensembles

2019 ◽  
Vol 150 (6) ◽  
pp. 064911
Author(s):  
Gerald R. Kneller ◽  
Konrad Hinsen
Keyword(s):  
Random Walk ◽  
Protein Structure ◽  
Memory Effects

TWISTING: A QUANTITY DESCRIBING THE TOPOLOGICAL RELATION OF TWO PEPTIDE FRAGMENTS IN PROTEIN STRUCTURES

2004 ◽  
Vol 03 (04) ◽  
pp. 521-526
Author(s):  
ZONG-HAO ZENG
Keyword(s):  
Random Walk ◽  
Statistical Analysis ◽  
Protein Structure ◽  
Protein Structures ◽  
Relative Rotation ◽  
Peptide Fragments ◽  
Topological Relation ◽  
One Dimensional ◽  
Internal Rotations ◽  
Writhe Number

A method for analyzing the topological relation of any two peptide fragments in a protein structure is given by making analogy of the two fragments with a braid. Knotted relations are analyzed by calculating polynomials for the two fragments separately and for the two as a whole, respectively. Twisting is calculated from the writhe number, which is a measure to the internal relative rotation during formation of the protein structure. Statistical analysis on the internal rotations of all known structures found that the relative rotation like a one-dimensional random walk with decreasing step lengths.

Elements of the Random Walk

2004 ◽  
Author(s):  
Joseph Rudnick ◽  
George Gaspari
Keyword(s):  
Random Walk
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