|
| | | | |
| | | |
| Stat |
Members: 3645
Articles: 2'500'096
Articles rated: 2609
19 April 2024 |
|
| | | | |
|
Article overview
| |
|
|
Potential function of simplified protein models for discriminating native proteins from decoys: Combining contact interaction and local sequence-dependent geometry | | Jinfeng Zhang
; Rong Chen
; Jie Liang
; | | Date: |
22 Jul 2004 | | Subject: | Biomolecules | q-bio.BM | | Abstract: | An effective potential function is critical for protein structure prediction and folding simulation. For simplified models of proteins where coordinates of only $C_alpha$ atoms need to be specified, an accurate potential function is important. Such a simplified model is essential for efficient search of conformational space. In this work, we present a formulation of potential function for simplified representations of protein structures. It is based on the combination of descriptors derived from residue-residue contact and sequence-dependent local geometry. The optimal weight coefficients for contact and local geometry is obtained through optimization by maximizing margins among native and decoy structures. The latter are generated by chain growth and by gapless threading. The performance of the potential function in blind test of discriminating native protein structures from decoys is evaluated using several benchmark decoy sets. This potential function have comparable or better performance than several residue-based potential functions that require in addition coordinates of side chain centers or coordinates of all side chain atoms. | | Source: | arXiv, q-bio.BM/0407030 | | Services: | Forum | Review | PDF | Favorites | |
|
|
No review found.
Did you like this article?
Note: answers to reviews or questions about the article must be posted in the forum section.
Authors are not allowed to review their own article. They can use the forum section.
browser claudebot
|
| |
|
|
|
|
News, job offers and information for researchers and scientists:
| |
REGISTER