scholarly journals Peptide-plane flipping in proteins

2008 ◽  
Vol 10 (11) ◽  
pp. 2219-2227 ◽  
Author(s):  
Steven Hayward
Keyword(s):  
Peptide Plane

scholarly journals Detection oftrans–cisflips and peptide plane flips in protein structures

2015 ◽  
Vol 71 (a1) ◽  
pp. s270-s270 ◽  
Author(s):  
Wouter G. Touw ◽  
Robbie P. Joosten ◽  
Gert Vriend
Keyword(s):  
Protein Structures ◽  
Peptide Plane

ChemInform Abstract: Peptide Plane Orientations Determined by Fundamental and Overtone 14NNMR.

ChemInform ◽  
1987 ◽  
Vol 18 (2) ◽  
Author(s):  
R. TYCKO ◽  
P. L. STEWART ◽  
S. J. OPELLA
Keyword(s):  
Peptide Plane

Gibbson: Peptide Plane as a Unique Biological Nanostructure

2004 ◽  
Vol 453-454 ◽  
pp. 529-536 ◽  
Author(s):  
Dj. Koruga ◽  
A. Tomić ◽  
Ž. Ratkaj ◽  
L. Matija
Keyword(s):  
Peptide Plane

scholarly journals Detection oftrans–cisflips and peptide-plane flips in protein structures

2015 ◽  
Vol 71 (8) ◽  
pp. 1604-1614 ◽  
Author(s):  
Wouter G. Touw ◽  
Robbie P. Joosten ◽  
Gert Vriend
Keyword(s):  
Structure Function ◽  
Web Service ◽  
Protein Data Bank ◽  
Protein Structures ◽  
Data Bank ◽  
Peptide Bond ◽  
Peptide Bonds ◽  
Unknown Peptide ◽  
Peptide Plane ◽  
Service Interface

A coordinate-based method is presented to detect peptide bonds that need correction either by a peptide-plane flip or by atrans–cisinversion of the peptide bond. When applied to the whole Protein Data Bank, the method predicts 4617trans–cisflips and many thousands of hitherto unknown peptide-plane flips. A few examples are highlighted for which a correction of the peptide-plane geometry leads to a correction of the understanding of the structure–function relation. All data, including 1088 manually validated cases, are freely available and the method is available from a web server, a web-service interface and throughWHAT_CHECK.

Classical and Quantum Information Channels in Protein Chain

2006 ◽  
Vol 518 ◽  
pp. 491-496 ◽  
Author(s):  
Dj. Koruga ◽  
A. Tomić ◽  
Z. Ratkaj ◽  
L. Matija
Keyword(s):  
Force Constants ◽  
Protein Chain ◽  
Planck Constant ◽  
Quantum Properties ◽  
Quantum Coding ◽  
Quantum Approach ◽  
Classical Quantum ◽  
System 1 ◽  
Energy Information ◽  
Peptide Plane

Investigation of the properties of peptide plane in protein chain from both classical and quantum approach is presented. We calculated interatomic force constants for peptide plane and hydrogen bonds between peptide planes in protein chain. On the basis of force constants, displacements of each atom in peptide plane, and time of action we found that the value of the peptide plane action is close to the Planck constant. This indicates that peptide plane from the energy viewpoint possesses synergetic classical/quantum properties. Consideration of peptide planes in protein chain from information viewpoint also shows that protein chain possesses classical and quantum properties. So, it appears that protein chain behaves as a triple dual system: (1) structural - amino acids and peptide planes, (2) energy - classical and quantum state, and (3) information - classical and quantum coding. Based on experimental facts of protein chain, we proposed from the structure-energy-information viewpoint its synergetic code system.

Can the geometry of all-atom protein trajectories be reconstructed from the knowledge of Cα time evolution? A study of peptide plane O and side chain Cβ atoms

2019 ◽  
Vol 150 (22) ◽  
pp. 225103
Author(s):  
Jiaojiao Liu ◽  
Jin Dai ◽  
Jianfeng He ◽  
Xubiao Peng ◽  
Antti J. Niemi
Keyword(s):  
Time Evolution ◽  
Side Chain ◽  
Peptide Plane
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