1 |
K. Joo, J. Lee, J-H Seo, K. Lee, B-G Kim, and J. Lee, All-atom chain-building by optimizing MODELLER energy function using conformational space annealing, Proteins., 75 (2009), 1010-1023.
DOI
ScienceOn
|
2 |
DT Jones, Protein secondary structure prediction based on position-specific scoring matrices, J. Mol. Biol., 292 (1999), 195-202.
DOI
ScienceOn
|
3 |
M.J. Sippl, Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins, J Mol Biol, 213 (1990), 859-883.
DOI
|
4 |
H. Zhou and Y. Zhou, Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction, Protein science, 11 (2002), 2714-2726.
|
5 |
T. Hamelryck, Potentials of mean force for protein structure prediction vindicated, formalized and generalized, PLoS ONE, 5 (2010), 1-11.
|
6 |
M. Gribskov, A.D. McLachlan, and D. Eisenberg, Profile analysis: detection of distantly related proteins, Proc Natl Acad Sci, 84 (1987), 4355-8.
DOI
ScienceOn
|
7 |
G. Wang and R.L.Dunbrack, PISCES: a protein sequence culling server, Bioinformatics, 19 (2003), 1589- 1591.
DOI
ScienceOn
|
8 |
Y. Zhang, Template-based modeling and free modeling by I-TASSER in CASP7, Proteins, 69(Suppl 8) (2007), 108-117.
DOI
|
9 |
D. Chandler, Interfaces and the driving force of hydrophobic assembly, Nature, 437 (2005), 640-647.
DOI
ScienceOn
|
10 |
T. Hamelryck, An amino aicd has two sides: a new 2D measure provides a different view of solvent exposure, Proteins, 59 (2005), 38-48.
DOI
ScienceOn
|
11 |
R. Das and D. Baker, Macromolecuar modeling with rosetta, Annu.Rev.Biochem., 77 (2008), 363-382.
DOI
ScienceOn
|
12 |
J. Lee, H.A.Scheraga, and S.Rackovsky, New optimization method for conformational energy calculations on polypeptides: conformational space annealing, J. Comput. Chem., 18 (1997), 1222-1232.
DOI
ScienceOn
|
13 |
S-Y Kim, S.J. Lee, and J. Lee, Conformational space annealing and an off-lattice frustrated model protein, J. Chem. Phys., 119 (2003), 10274-10279.
DOI
ScienceOn
|
14 |
J. Lee, K. Joo, S-Y Kim, and J. Lee, Re-examination of structure optimization of off-lattice protein AB models by Conformational space annealing, J. Comput. Chem., 29 (2008), 2479-2484.
DOI
ScienceOn
|
15 |
K. Joo, J. Lee, I. Kim, S.J.Lee, and J. Lee, Multiple sequence alignment by conformational space annealing, Biophysical J., 95 (2008), 4813-4819.
DOI
ScienceOn
|
16 |
R. Samudrala and J. Moult, An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction, J Mol Biol, 275 (1998), 895-916.
DOI
ScienceOn
|
17 |
A. Neumaier, Molecular modeling of proteins and mathematical prediction of protein structure, SIAM Rev, 39 (1997), 407-460.
DOI
ScienceOn
|
18 |
C.B. Anfinsen, Principles that govern the folding of protein chains, Science, 181 (1973), 223-230.
DOI
|