132 related articles for article (PubMed ID: 16080157)
1. Atomically detailed potentials to recognize native and approximate protein structures.
Qiu J; Elber R
Proteins; 2005 Oct; 61(1):44-55. PubMed ID: 16080157
[TBL] [Abstract][Full Text] [Related]
2. Distinguishing native conformations of proteins from decoys with an effective free energy estimator based on the OPLS all-atom force field and the Surface Generalized Born solvent model.
Felts AK; Gallicchio E; Wallqvist A; Levy RM
Proteins; 2002 Aug; 48(2):404-22. PubMed ID: 12112706
[TBL] [Abstract][Full Text] [Related]
3. How well can we predict native contacts in proteins based on decoy structures and their energies?
Zhu J; Zhu Q; Shi Y; Liu H
Proteins; 2003 Sep; 52(4):598-608. PubMed ID: 12910459
[TBL] [Abstract][Full Text] [Related]
4. ProVal: a protein-scoring function for the selection of native and near-native folds.
Berglund A; Head RD; Welsh EA; Marshall GR
Proteins; 2004 Feb; 54(2):289-302. PubMed ID: 14696191
[TBL] [Abstract][Full Text] [Related]
5. Distance dependent centroid to centroid force fields using high resolution decoys.
Rajgaria R; McAllister SR; Floudas CA
Proteins; 2008 Feb; 70(3):950-70. PubMed ID: 17847088
[TBL] [Abstract][Full Text] [Related]
6. Derivation of protein-specific pair potentials based on weak sequence fragment similarity.
Skolnick J; Kolinski A; Ortiz A
Proteins; 2000 Jan; 38(1):3-16. PubMed ID: 10651034
[TBL] [Abstract][Full Text] [Related]
7. DrugScore(CSD)-knowledge-based scoring function derived from small molecule crystal data with superior recognition rate of near-native ligand poses and better affinity prediction.
Velec HF; Gohlke H; Klebe G
J Med Chem; 2005 Oct; 48(20):6296-303. PubMed ID: 16190756
[TBL] [Abstract][Full Text] [Related]
8. A simple Calpha-SC potential with higher accuracy for protein fold recognition.
Gu J; Li H; Jiang H; Wang X
Biochem Biophys Res Commun; 2009 Feb; 379(2):610-5. PubMed ID: 19121621
[TBL] [Abstract][Full Text] [Related]
9. Spatial profiling of protein hydrophobicity: native vs. decoy structures.
Zhou R; Silverman BD; Royyuru AK; Athma P
Proteins; 2003 Sep; 52(4):561-72. PubMed ID: 12910456
[TBL] [Abstract][Full Text] [Related]
10. A new pairwise folding potential based on improved decoy generation and side-chain packing.
Loose C; Klepeis JL; Floudas CA
Proteins; 2004 Feb; 54(2):303-14. PubMed ID: 14696192
[TBL] [Abstract][Full Text] [Related]
11. Predicting interresidue contacts using templates and pathways.
Shao Y; Bystroff C
Proteins; 2003; 53 Suppl 6():497-502. PubMed ID: 14579339
[TBL] [Abstract][Full Text] [Related]
12. Protein structure databases with new web services for structural biology and biomedical research.
Standley DM; Kinjo AR; Kinoshita K; Nakamura H
Brief Bioinform; 2008 Jul; 9(4):276-85. PubMed ID: 18430752
[TBL] [Abstract][Full Text] [Related]
13. Application of statistical potentials to protein structure refinement from low resolution ab initio models.
Lu H; Skolnick J
Biopolymers; 2003 Dec; 70(4):575-84. PubMed ID: 14648767
[TBL] [Abstract][Full Text] [Related]
14. Soft energy function and generic evolutionary method for discriminating native from nonnative protein conformations.
Chiu YY; Hwang JK; Yang JM
J Comput Chem; 2008 Jul; 29(9):1364-73. PubMed ID: 18181137
[TBL] [Abstract][Full Text] [Related]
15. MOPED: method for optimizing physical energy parameters using decoys.
Seok C; Rosen JB; Chodera JD; Dill KA
J Comput Chem; 2003 Jan; 24(1):89-97. PubMed ID: 12483678
[TBL] [Abstract][Full Text] [Related]
16. Modeling three-dimensional protein structures for CASP5 using the 3D-SHOTGUN meta-predictors.
Sasson I; Fischer D
Proteins; 2003; 53 Suppl 6():389-94. PubMed ID: 14579327
[TBL] [Abstract][Full Text] [Related]
17. Refinement of NMR-determined protein structures with database derived mean-force potentials.
Wu D; Jernigan R; Wu Z
Proteins; 2007 Jul; 68(1):232-42. PubMed ID: 17387736
[TBL] [Abstract][Full Text] [Related]
18. A knowledge-based structure-discriminating function that requires only main-chain atom coordinates.
Makino Y; Itoh N
BMC Struct Biol; 2008 Oct; 8():46. PubMed ID: 18957132
[TBL] [Abstract][Full Text] [Related]
19. Improvement of statistical potentials and threading score functions using information maximization.
Solis AD; Rackovsky S
Proteins; 2006 Mar; 62(4):892-908. PubMed ID: 16395676
[TBL] [Abstract][Full Text] [Related]
20. Information and discrimination in pairwise contact potentials.
Solis AD; Rackovsky S
Proteins; 2008 May; 71(3):1071-87. PubMed ID: 18004788
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]