| Year |
Citation |
Score |
| 2013 |
Bohnuud T, Beglov D, Ngan C, Zerbe B, Hall D, Brenke R, Vajda S, Frank-Kamenetskii M, Kozakov D. 89 Computational mapping reveals effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde Journal of Biomolecular Structure and Dynamics. 31: 57-57. DOI: 10.1080/07391102.2013.786523 |
0.703 |
|
| 2012 |
Brenke R, Hall DR, Chuang GY, Comeau SR, Bohnuud T, Beglov D, Schueler-Furman O, Vajda S, Kozakov D. Application of asymmetric statistical potentials to antibody-protein docking. Bioinformatics (Oxford, England). 28: 2608-14. PMID 23053206 DOI: 10.1093/Bioinformatics/Bts493 |
0.75 |
|
| 2012 |
Bohnuud T, Beglov D, Ngan CH, Zerbe B, Hall DR, Brenke R, Vajda S, Frank-Kamenetskii MD, Kozakov D. Computational mapping reveals dramatic effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde. Nucleic Acids Research. 40: 7644-52. PMID 22705795 DOI: 10.1093/Nar/Gks519 |
0.704 |
|
| 2012 |
Beglov D, Hall DR, Brenke R, Shapovalov MV, Dunbrack RL, Kozakov D, Vajda S. Minimal ensembles of side chain conformers for modeling protein-protein interactions. Proteins. 80: 591-601. PMID 22105850 DOI: 10.1002/Prot.23222 |
0.763 |
|
| 2011 |
Kozakov D, Hall DR, Chuang GY, Cencic R, Brenke R, Grove LE, Beglov D, Pelletier J, Whitty A, Vajda S. Structural conservation of druggable hot spots in protein-protein interfaces. Proceedings of the National Academy of Sciences of the United States of America. 108: 13528-33. PMID 21808046 DOI: 10.1073/Pnas.1101835108 |
0.801 |
|
| 2010 |
Kozakov D, Hall DR, Beglov D, Brenke R, Comeau SR, Shen Y, Li K, Zheng J, Vakili P, Paschalidis ICh, Vajda S. Achieving reliability and high accuracy in automated protein docking: ClusPro, PIPER, SDU, and stability analysis in CAPRI rounds 13-19. Proteins. 78: 3124-30. PMID 20818657 DOI: 10.1002/Prot.22835 |
0.774 |
|
| 2009 |
Chuang GY, Kozakov D, Brenke R, Beglov D, Guarnieri F, Vajda S. Binding hot spots and amantadine orientation in the influenza a virus M2 proton channel. Biophysical Journal. 97: 2846-53. PMID 19917240 DOI: 10.1016/J.Bpj.2009.09.004 |
0.76 |
|
| 2009 |
Beglov D, Lee CJ, De Biasio A, Kozakov D, Brenke R, Vajda S, Beglova N. Structural insights into recognition of beta2-glycoprotein I by the lipoprotein receptors. Proteins. 77: 940-9. PMID 19676115 DOI: 10.1002/Prot.22519 |
0.69 |
|
| 2009 |
Landon MR, Lieberman RL, Hoang QQ, Ju S, Caaveiro JM, Orwig SD, Kozakov D, Brenke R, Chuang GY, Beglov D, Vajda S, Petsko GA, Ringe D. Detection of ligand binding hot spots on protein surfaces via fragment-based methods: application to DJ-1 and glucocerebrosidase. Journal of Computer-Aided Molecular Design. 23: 491-500. PMID 19521672 DOI: 10.1007/S10822-009-9283-2 |
0.769 |
|
| 2009 |
Brenke R, Kozakov D, Chuang GY, Beglov D, Hall D, Landon MR, Mattos C, Vajda S. Fragment-based identification of druggable 'hot spots' of proteins using Fourier domain correlation techniques. Bioinformatics (Oxford, England). 25: 621-7. PMID 19176554 DOI: 10.1093/Bioinformatics/Btp036 |
0.777 |
|
| 2008 |
Chuang GY, Kozakov D, Brenke R, Comeau SR, Vajda S. DARS (Decoys As the Reference State) potentials for protein-protein docking. Biophysical Journal. 95: 4217-27. PMID 18676649 DOI: 10.1529/Biophysj.108.135814 |
0.764 |
|
| 2007 |
Comeau SR, Kozakov D, Brenke R, Shen Y, Beglov D, Vajda S. ClusPro: performance in CAPRI rounds 6-11 and the new server. Proteins. 69: 781-5. PMID 17876812 DOI: 10.1002/Prot.21795 |
0.778 |
|
| 2007 |
Shen Y, Brenke R, Kozakov D, Comeau SR, Beglov D, Vajda S. Docking with PIPER and refinement with SDU in rounds 6-11 of CAPRI. Proteins. 69: 734-42. PMID 17853451 DOI: 10.1002/Prot.21754 |
0.783 |
|
| 2006 |
Kozakov D, Brenke R, Comeau SR, Vajda S. PIPER: an FFT-based protein docking program with pairwise potentials. Proteins. 65: 392-406. PMID 16933295 DOI: 10.1002/Prot.21117 |
0.793 |
|
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