Name
Abstract | ||
|---|---|---|
Determination of binding sites between proteins has a wide range of applications. Understanding energetics and mechanism of complexes remains one of the essential problems in binding site prediction. We develop a system, P-Binder, for identifying binding sites based on structural compatibility, side-chain conformations, amino acid types and contact energies. P-Binder utilizes an enumeration method and side-chain packing program to identify structurally compatible sites. The system reports the sites with the highest ranked configurations, evaluated through a combination of four statistical energy items. We test P-Binder on protein-protein docking Benchmark v4.0. The overall accuracy and coverage are 64.0% and 69.4% for the bound state, and 51.1% and 61.4% for the unbound state. A comparison with some existing techniques shows P-Binder to improve the success rate by at least 12.3%. The system reports improvements in prediction quality, in terms of both accuracy and coverage. The software package is available at http://sites.google.com/site/guofeics/p-binder for non-commercial use. |
Year | DOI | Venue |
|---|---|---|
2012 | 10.1007/978-3-642-30191-9_13 | ISBRA |
Keywords | Field | DocType |
compatible site,binding site,overall accuracy,protein-protein binding sites identification,unbound state,side-chain conformation,binding site prediction,prediction quality,bound state,system reports improvement,side-chain packing program | Protein–protein interaction,Binding site,Computer science,Docking (dog),Enumeration,Protein protein,Bioinformatics,Protein secondary structure | Conference |
Citations | PageRank | References |
1 | 0.36 | 8 |
Authors | ||
3 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Fei Guo | 1 | 42 | 10.37 |
| Shuai Cheng Li | 2 | 184 | 30.25 |
| Lusheng Wang | 3 | 2433 | 224.97 |