Long- and short-range interactions in native protein structures are consistent/minimally frustrated in sequence space

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Vol 50 (1) ◽  
pp. 35-43 ◽  
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Robert L. Jernigan
Keyword(s):  
Sequence Space ◽  
Short Range ◽  
Protein Structures ◽  
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Amino Acid Network for the Discrimination of Native Protein Structures from Decoys

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Wenying Yan ◽  
Guang Hu ◽  
Bairong Shen
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scholarly journals A Generic Force Field for Simulating Native Protein Structures Using Dissipative Particle Dynamics

Soft Matter ◽  
2021 ◽  
Author(s):  
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Ganapathy Ayappa
Keyword(s):  
Molecular Dynamics ◽  
Force Field ◽  
Molecular Dynamics Simulations ◽  
Dissipative Particle Dynamics ◽  
Protein Structures ◽  
Particle Dynamics ◽  
Coarse Grained ◽  
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Dynamics Simulations

A coarse-grained force field for molecular dynamics simulations of native structures of proteins in a dissipative particle dynamics (DPD) framework is developed. The parameters for bonded interactions are derived by...

SVR_CAF: An integrated score function for detecting native protein structures among decoys

2013 ◽  
Vol 82 (4) ◽  
pp. 556-564 ◽  
Author(s):  
Jianhong Zhou ◽  
Wenying Yan ◽  
Guang Hu ◽  
Bairong Shen
Keyword(s):  
Protein Structures ◽  
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Anomaly Detection-Based Recognition of Near-Native Protein Structures

2020 ◽  
Vol 19 (3) ◽  
pp. 562-570
Author(s):  
Sivani Tadepalli ◽  
Nasrin Akhter ◽  
Daniel Barbara ◽  
Amarda Shehu
Keyword(s):  
Anomaly Detection ◽  
Protein Structures ◽  
Native Protein

scholarly journals Selective Refinement and MDR Selection of Near-Native Protein Structures

2014 ◽  
Vol 106 (2) ◽  
pp. 208a
Author(s):  
Jiong Zhang ◽  
Jingfen Zhang ◽  
Dong Xu ◽  
Yi Shang ◽  
Ioan Kosztin
Keyword(s):  
Protein Structures ◽  
Native Protein ◽  
Selection Of
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