-
1
-
-
0037008160
-
Approaches to the description and prediction of the binding affinity of small-molecule ligands to macromolecular receptors
-
Gohlke, H.; Klebe, G. Approaches to the description and prediction of the binding affinity of small-molecule ligands to macromolecular receptors Angew. Chem., Int. Ed. Engl. 2002, 41, 2645-2676
-
(2002)
Angew. Chem., Int. Ed. Engl.
, vol.41
, pp. 2645-2676
-
-
Gohlke, H.1
Klebe, G.2
-
2
-
-
60349109713
-
Computational evaluation of protein-small molecule binding
-
Guvench, O.; MacKerell, A. D., Jr. Computational evaluation of protein-small molecule binding Curr. Opin. Struct. Biol. 2009, 19, 56-61
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 56-61
-
-
Guvench, O.1
Mackerell Jr., A.D.2
-
3
-
-
64049102289
-
Binding of small-molecule ligands to proteins: 'what you see' is not always 'what you get'
-
Mobley, D. L.; Dill, K. A. Binding of small-molecule ligands to proteins: 'what you see' is not always 'what you get' Structure 2009, 17, 489-498
-
(2009)
Structure
, vol.17
, pp. 489-498
-
-
Mobley, D.L.1
Dill, K.A.2
-
4
-
-
84857537331
-
Statistical mechanics and molecular dynamics in evaluating thermodynamic properties of biomolecular recognition
-
Wereszczynski, J.; McCammon, J. A. Statistical mechanics and molecular dynamics in evaluating thermodynamic properties of biomolecular recognition Q. Rev. Biophys. 2012, 45, 1-25
-
(2012)
Q. Rev. Biophys.
, vol.45
, pp. 1-25
-
-
Wereszczynski, J.1
McCammon, J.A.2
-
5
-
-
80052851599
-
Scoring functions: From free-energies of binding to enrichment in virtual screening
-
Jhoti, H. Leach, A. Springer
-
Fenu, L. A.; Lewis, R. A.; Good, A. C.; Bodkin, M.; Essex, J. W. Scoring functions: from free-energies of binding to enrichment in virtual screening. In Structure-based Drug Discovery; Jhoti, H.; Leach, A., Eds.; Springer: 2007; pp 223-245.
-
(2007)
Structure-based Drug Discovery
, pp. 223-245
-
-
Fenu, L.A.1
Lewis, R.A.2
Good, A.C.3
Bodkin, M.4
Essex, J.W.5
-
6
-
-
1942471391
-
Assessing scoring functions for protein-ligand interactions
-
Ferrara, P.; Gohlke, H.; Price, D. J.; Klebe, G.; Brooks, C. L. Assessing scoring functions for protein-ligand interactions J. Med. Chem. 2004, 47, 3032-3047
-
(2004)
J. Med. Chem.
, vol.47
, pp. 3032-3047
-
-
Ferrara, P.1
Gohlke, H.2
Price, D.J.3
Klebe, G.4
Brooks, C.L.5
-
7
-
-
40649101151
-
Rescoring docking hit lists for model cavity sites: Predictions and experimental testing
-
Graves, A. P.; Shivakumar, D. M.; Boyce, S. E.; Jacobson, M. P.; Case, D. A.; Shoichet, B. K. Rescoring docking hit lists for model cavity sites: predictions and experimental testing J. Mol. Biol. 2008, 377, 914-934
-
(2008)
J. Mol. Biol.
, vol.377
, pp. 914-934
-
-
Graves, A.P.1
Shivakumar, D.M.2
Boyce, S.E.3
Jacobson, M.P.4
Case, D.A.5
Shoichet, B.K.6
-
8
-
-
0037763817
-
Comparative evaluation of 11 scoring functions for molecular docking
-
Wang, R.; Lu, Y.; Wang, S. Comparative evaluation of 11 scoring functions for molecular docking J. Med. Chem. 2003, 46, 2287-2303
-
(2003)
J. Med. Chem.
, vol.46
, pp. 2287-2303
-
-
Wang, R.1
Lu, Y.2
Wang, S.3
-
9
-
-
33749260698
-
A critical assessment of docking programs and scoring functions
-
Warren, G. L.; Andrews, C. W.; Capelli, A. M.; Clarke, B.; LaLonde, J.; Lambert, M. H.; Lindvall, M.; Nevins, N.; Semus, S. F.; Senger, S.; Tedesco, G.; Wall, I. D.; Woolven, J. M.; Peishoff, C. E.; Head, M. S. A critical assessment of docking programs and scoring functions J. Med. Chem. 2006, 49, 5912-5931
-
(2006)
J. Med. Chem.
, vol.49
, pp. 5912-5931
-
-
Warren, G.L.1
Andrews, C.W.2
Capelli, A.M.3
Clarke, B.4
Lalonde, J.5
Lambert, M.H.6
Lindvall, M.7
Nevins, N.8
Semus, S.F.9
Senger, S.10
Tedesco, G.11
Wall, I.D.12
Woolven, J.M.13
Peishoff, C.E.14
Head, M.S.15
-
10
-
-
45749138489
-
MM-GB/SA rescoring of docking poses in structure-based lead optimization
-
Guimarães, C. R.; Cardozo, M. MM-GB/SA rescoring of docking poses in structure-based lead optimization J. Chem. Inf. Model. 2008, 48, 958-970
-
(2008)
J. Chem. Inf. Model.
, vol.48
, pp. 958-970
-
-
Guimarães, C.R.1
Cardozo, M.2
-
11
-
-
79951996670
-
Assessing the performance of the molecular mechanics/Poisson Boltzmann surface area and molecular mechanics/generalized Born surface area methods. II. The accuracy of ranking poses generated from docking
-
Hou, T.; Wang, J.; Li, Y.; Wang, W. Assessing the performance of the molecular mechanics/Poisson Boltzmann surface area and molecular mechanics/generalized Born surface area methods. II. The accuracy of ranking poses generated from docking J. Comput. Chem. 2011, 32, 866-877
-
(2011)
J. Comput. Chem.
, vol.32
, pp. 866-877
-
-
Hou, T.1
Wang, J.2
Li, Y.3
Wang, W.4
-
12
-
-
79952588669
-
Assessing the performance of the MM/PBSA and MM/GBSA methods. 1. The accuracy of binding free energy calculations based on molecular dynamics simulations
-
Hou, T.; Wang, J.; Li, Y.; Wang, W. Assessing the performance of the MM/PBSA and MM/GBSA methods. 1. The accuracy of binding free energy calculations based on molecular dynamics simulations J. Chem. Inf. Model. 2011, 51, 69-82
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 69-82
-
-
Hou, T.1
Wang, J.2
Li, Y.3
Wang, W.4
-
13
-
-
84961980685
-
Binding of a diverse set of ligands to avidin and streptavidin: An accurate quantitative prediction of their relative affinities by a combination of molecular mechanics and continuum solvent models
-
Kuhn, B.; Kollman, P. A. Binding of a diverse set of ligands to avidin and streptavidin: an accurate quantitative prediction of their relative affinities by a combination of molecular mechanics and continuum solvent models J. Med. Chem. 2000, 43, 3786-3791
-
(2000)
J. Med. Chem.
, vol.43
, pp. 3786-3791
-
-
Kuhn, B.1
Kollman, P.A.2
-
14
-
-
84887178249
-
Continuum Electrostatics Solvent Modeling with the Generalized Born Model
-
Feig, M. Wiley-VCH Verlag GmbH & Co. KGaA: Weinheim, Chapter 6
-
Onufriev, A. Continuum Electrostatics Solvent Modeling with the Generalized Born Model. In Modeling Solvent Environments Applications to Simulations of Biomolecules; Feig, M., Ed.; Wiley-VCH Verlag GmbH & Co. KGaA: Weinheim, 2010; Chapter 6, pp 127-165.
-
(2010)
Modeling Solvent Environments Applications to Simulations of Biomolecules
, pp. 127-165
-
-
Onufriev, A.1
-
15
-
-
0344778061
-
Semianalytical treatment of solvation for molecular mechanics and dynamics
-
Still, W. C.; Tempczyk, A.; Hawley, R. C.; Hendrickson, T. Semianalytical treatment of solvation for molecular mechanics and dynamics J. Am. Chem. Soc. 1990, 112, 6127-6129
-
(1990)
J. Am. Chem. Soc.
, vol.112
, pp. 6127-6129
-
-
Still, W.C.1
Tempczyk, A.2
Hawley, R.C.3
Hendrickson, T.4
-
16
-
-
84859438966
-
Comparison of end-point continuum-solvation methods for the calculation of protein-ligand binding free energies
-
Genheden, S.; Ryde, U. Comparison of end-point continuum-solvation methods for the calculation of protein-ligand binding free energies Proteins: Struct., Funct., Bioinf. 2012, 80, 1326-1342
-
(2012)
Proteins: Struct., Funct., Bioinf.
, vol.80
, pp. 1326-1342
-
-
Genheden, S.1
Ryde, U.2
-
17
-
-
26944477331
-
Virtual ligand screening against Escherichia coli dihydrofolate reductase: Improving docking enrichment using physics-based methods
-
Bernacki, K.; Kalyanaraman, C.; Jacobson, M. P. Virtual ligand screening against Escherichia coli dihydrofolate reductase: improving docking enrichment using physics-based methods J. Biomol. Screening 2005, 10, 675-681
-
(2005)
J. Biomol. Screening
, vol.10
, pp. 675-681
-
-
Bernacki, K.1
Kalyanaraman, C.2
Jacobson, M.P.3
-
18
-
-
33845335781
-
Towards predictive ligand design with free-energy based computational methods?
-
Foloppe, N.; Hubbard, R. Towards predictive ligand design with free-energy based computational methods? Curr. Med. Chem. 2006, 13, 3583-3608
-
(2006)
Curr. Med. Chem.
, vol.13
, pp. 3583-3608
-
-
Foloppe, N.1
Hubbard, R.2
-
19
-
-
79960271379
-
A direct comparison of the MM-GB/SA scoring procedure and free-energy perturbation calculations using carbonic anhydrase as a test case: Strengths and pitfalls of each approach
-
Guimarães, C. R. W. A direct comparison of the MM-GB/SA scoring procedure and free-energy perturbation calculations using carbonic anhydrase as a test case: strengths and pitfalls of each approach J. Chem. Theory Comput. 2011, 7, 2296-2306
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 2296-2306
-
-
Guimarães, C.R.W.1
-
20
-
-
34249040810
-
Physics-based methods for studying protein-ligand interactions
-
Huang, N.; Jacobson, M. P. Physics-based methods for studying protein-ligand interactions Curr. Opin. Drug Discovery Dev. 2007, 10, 325-331
-
(2007)
Curr. Opin. Drug Discovery Dev.
, vol.10
, pp. 325-331
-
-
Huang, N.1
Jacobson, M.P.2
-
21
-
-
33750898990
-
Molecular mechanics methods for predicting protein-ligand binding
-
Huang, N.; Kalyanaraman, C.; Bernacki, K.; Jacobson, M. P. Molecular mechanics methods for predicting protein-ligand binding Phys. Chem. Chem. Phys. 2006, 8, 5166-5177
-
(2006)
Phys. Chem. Chem. Phys.
, vol.8
, pp. 5166-5177
-
-
Huang, N.1
Kalyanaraman, C.2
Bernacki, K.3
Jacobson, M.P.4
-
22
-
-
33244490820
-
Physics-based scoring of protein-ligand complexes: Enrichment of known inhibitors in large-scale virtual screening
-
Huang, N.; Kalyanaraman, C.; Irwin, J. J.; Jacobson, M. P. Physics-based scoring of protein-ligand complexes: enrichment of known inhibitors in large-scale virtual screening J. Chem. Inf. Model. 2006, 46, 243-253
-
(2006)
J. Chem. Inf. Model.
, vol.46
, pp. 243-253
-
-
Huang, N.1
Kalyanaraman, C.2
Irwin, J.J.3
Jacobson, M.P.4
-
23
-
-
33746872935
-
Accurate prediction of the relative potencies of members of a series of kinase inhibitors using molecular docking and MM-GBSA scoring
-
Lyne, P. D.; Lamb, M. L.; Saeh, J. C. Accurate prediction of the relative potencies of members of a series of kinase inhibitors using molecular docking and MM-GBSA scoring J. Med. Chem. 2006, 49, 4805-4808
-
(2006)
J. Med. Chem.
, vol.49
, pp. 4805-4808
-
-
Lyne, P.D.1
Lamb, M.L.2
Saeh, J.C.3
-
24
-
-
79955462105
-
Binding affinities of factor Xa inhibitors estimated by thermodynamic integration and MM/GBSA
-
Genheden, S.; Nilsson, I.; Ryde, U. Binding affinities of factor Xa inhibitors estimated by thermodynamic integration and MM/GBSA J. Chem. Inf. Model. 2011, 51, 947-958
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 947-958
-
-
Genheden, S.1
Nilsson, I.2
Ryde, U.3
-
25
-
-
0035846166
-
Are free energy calculations useful in practice? A comparison with rapid scoring functions for the p38 MAP kinase protein system
-
Pearlman, D. A.; Charifson, P. S. Are free energy calculations useful in practice? A comparison with rapid scoring functions for the p38 MAP kinase protein system J. Med. Chem. 2001, 44, 3417-3423
-
(2001)
J. Med. Chem.
, vol.44
, pp. 3417-3423
-
-
Pearlman, D.A.1
Charifson, P.S.2
-
26
-
-
0035593989
-
How accurate can molecular dynamics/linear response and Poisson-Boltzmann/solvent accessible surface calculations be for predicting relative binding affinities? Acetylcholinesterase huprine inhibitors as a test case
-
Barril, X.; Gelpí, J. L.; López, J. M.; Orozco, M.; Luque, F. J. How accurate can molecular dynamics/linear response and Poisson-Boltzmann/solvent accessible surface calculations be for predicting relative binding affinities? Acetylcholinesterase huprine inhibitors as a test case Theor. Chem. Acc. 2001, 2-9
-
(2001)
Theor. Chem. Acc.
, pp. 2-9
-
-
Barril, X.1
Gelpí, J.L.2
López, J.M.3
Orozco, M.4
Luque, F.J.5
-
27
-
-
67650997041
-
Virtual fragment screening: An exploration of various docking and scoring protocols for fragments using Glide
-
Kawatkar, S.; Wang, H.; Czerminski, R.; Joseph-McCarthy, D. Virtual fragment screening: an exploration of various docking and scoring protocols for fragments using Glide J. Comput.-Aided Mol. Des. 2009, 527-539
-
(2009)
J. Comput.-Aided Mol. Des.
, pp. 527-539
-
-
Kawatkar, S.1
Wang, H.2
Czerminski, R.3
Joseph-Mccarthy, D.4
-
28
-
-
84859444429
-
Binding affinities in the SAMPL3 trypsin and host-guest blind tests estimated with the MM/PBSA and LIE methods
-
Mikulskis, P.; Genheden, S.; Rydberg, P.; Sandberg, L.; Olsen, L.; Ryde, U. Binding affinities in the SAMPL3 trypsin and host-guest blind tests estimated with the MM/PBSA and LIE methods J. Comput.-Aided Mol. Des. 2011, 26, 527-541
-
(2011)
J. Comput.-Aided Mol. Des.
, vol.26
, pp. 527-541
-
-
Mikulskis, P.1
Genheden, S.2
Rydberg, P.3
Sandberg, L.4
Olsen, L.5
Ryde, U.6
-
29
-
-
76249085850
-
How to obtain statistically converged MM/GBSA results
-
Genheden, S.; Ryde, U. How to obtain statistically converged MM/GBSA results J. Comput. Chem. 2010, 31, 837-846
-
(2010)
J. Comput. Chem.
, vol.31
, pp. 837-846
-
-
Genheden, S.1
Ryde, U.2
-
30
-
-
77951997162
-
Addressing limitations with the MM-GB/SA scoring procedure using the WaterMap method and free energy perturbation calculations
-
Guimarães, C. R.; Mathiowetz, A. M. Addressing limitations with the MM-GB/SA scoring procedure using the WaterMap method and free energy perturbation calculations J. Chem. Inf. Model. 2010, 50, 547-559
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 547-559
-
-
Guimarães, C.R.1
Mathiowetz, A.M.2
-
31
-
-
83455235864
-
Improving MM-GB/SA Scoring through the Application of the Variable Dielectric Model
-
Ravindranathan, K.; Tirado-Rives, J.; Jorgensen, W. L.; Guimarães, C. R. W. Improving MM-GB/SA Scoring through the Application of the Variable Dielectric Model J. Chem. Theory Comput. 2011, 7, 3859-3865
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 3859-3865
-
-
Ravindranathan, K.1
Tirado-Rives, J.2
Jorgensen, W.L.3
Guimarães, C.R.W.4
-
32
-
-
77951210464
-
In vitro resistance profile of the hepatitis C virus NS3/4A protease inhibitor TMC435
-
Lenz, O.; Verbinnen, T.; Lin, T. I.; Vijgen, L.; Cummings, M. D.; Lindberg, J.; Berke, J. M.; Dehertogh, P.; Fransen, E.; Scholliers, A.; Vermeiren, K.; Ivens, T.; Raboisson, P.; Edlund, M.; Storm, S.; Vrang, L.; de Kock, H.; Fanning, G. C.; Simmen, K. A. In vitro resistance profile of the hepatitis C virus NS3/4A protease inhibitor TMC435 Antimicrob. Agents Chemother. 2010, 54, 1878-1887
-
(2010)
Antimicrob. Agents Chemother.
, vol.54
, pp. 1878-1887
-
-
Lenz, O.1
Verbinnen, T.2
Lin, T.I.3
Vijgen, L.4
Cummings, M.D.5
Lindberg, J.6
Berke, J.M.7
Dehertogh, P.8
Fransen, E.9
Scholliers, A.10
Vermeiren, K.11
Ivens, T.12
Raboisson, P.13
Edlund, M.14
Storm, S.15
Vrang, L.16
De Kock, H.17
Fanning, G.C.18
Simmen, K.A.19
-
33
-
-
12144260229
-
Control of hepatitis C: A medicinal chemistry perspective
-
Gordon, C. P.; Keller, P. A. Control of hepatitis C: a medicinal chemistry perspective J. Med. Chem. 2005, 48, 1-20
-
(2005)
J. Med. Chem.
, vol.48
, pp. 1-20
-
-
Gordon, C.P.1
Keller, P.A.2
-
34
-
-
80755159054
-
Discovery and development of telaprevir: An NS3-4A protease inhibitor for treating genotype 1 chronic hepatitis C virus
-
Kwong, A. D.; Kauffman, R. S.; Hurter, P.; Mueller, P. Discovery and development of telaprevir: an NS3-4A protease inhibitor for treating genotype 1 chronic hepatitis C virus Nat. Biotechnol. 2011, 29, 993-1003
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 993-1003
-
-
Kwong, A.D.1
Kauffman, R.S.2
Hurter, P.3
Mueller, P.4
-
35
-
-
38949191974
-
Challenges in modern drug discovery: A case study of boceprevir, an HCV protease inhibitor for the treatment of hepatitis C virus infection
-
Njoroge, F. G.; Chen, K. X.; Shih, N. Y.; Piwinski, J. J. Challenges in modern drug discovery: a case study of boceprevir, an HCV protease inhibitor for the treatment of hepatitis C virus infection Acc. Chem. Res. 2008, 41, 50-59
-
(2008)
Acc. Chem. Res.
, vol.41
, pp. 50-59
-
-
Njoroge, F.G.1
Chen, K.X.2
Shih, N.Y.3
Piwinski, J.J.4
-
36
-
-
84874408100
-
-
U.S. Food and Drug Administration. (accessed May 12)
-
U.S. Food and Drug Administration. http://www.fda.gov/NewsEvents/ Newsroom/PressAnnouncements/ucm256299.htm (accessed May 12, 2012).
-
(2012)
-
-
-
37
-
-
23944506014
-
Global epidemiology of hepatitis C virus infection
-
Shepard, C. W.; Lyn, F.; Alter, M. J. Global epidemiology of hepatitis C virus infection Lancet Infect. Dis. 2005, 5, 558-67
-
(2005)
Lancet Infect. Dis.
, vol.5
, pp. 558-567
-
-
Shepard, C.W.1
Lyn, F.2
Alter, M.J.3
-
38
-
-
34247552946
-
Hepatitis C virus - Biology, host evasion strategies, and promising new therapies on the horizon
-
Qureshi, S. A. Hepatitis C virus - biology, host evasion strategies, and promising new therapies on the horizon Med. Res. Rev. 2007, 27, 353-373
-
(2007)
Med. Res. Rev.
, vol.27
, pp. 353-373
-
-
Qureshi, S.A.1
-
39
-
-
47649116685
-
Mapping natural polymorphisms of hepatitis C virus NS3/4A protease and antiviral resistance to inhibitors in worldwide isolates
-
Lopez-Labrador, F. X.; Moya, A.; Gonzalez-Candelas, F. Mapping natural polymorphisms of hepatitis C virus NS3/4A protease and antiviral resistance to inhibitors in worldwide isolates Antiviral Ther. 2008, 13, 481-494
-
(2008)
Antiviral Ther.
, vol.13
, pp. 481-494
-
-
Lopez-Labrador, F.X.1
Moya, A.2
Gonzalez-Candelas, F.3
-
40
-
-
77950178001
-
The introduction of P4 substituted 1-methylcyclohexyl groups into boceprevir: A change in direction in the search for a second generation HCV NS3 protease inhibitor
-
Bennett, F.; Huang, Y.; Hendrata, S.; Lovey, R.; Bogen, S. L.; Pan, W.; Guo, Z.; Prongay, A.; Chen, K. X.; Arasappan, A.; Venkatraman, S.; Velazquez, F.; Nair, L.; Sannigrahi, M.; Tong, X.; Pichardo, J.; Cheng, K. C.; Girijavallabhan, V. M.; Saksena, A. K.; Njoroge, F. G. The introduction of P4 substituted 1-methylcyclohexyl groups into boceprevir: a change in direction in the search for a second generation HCV NS3 protease inhibitor Bioorg. Med. Chem. Lett. 2010, 20, 2617-2621
-
(2010)
Bioorg. Med. Chem. Lett.
, vol.20
, pp. 2617-2621
-
-
Bennett, F.1
Huang, Y.2
Hendrata, S.3
Lovey, R.4
Bogen, S.L.5
Pan, W.6
Guo, Z.7
Prongay, A.8
Chen, K.X.9
Arasappan, A.10
Venkatraman, S.11
Velazquez, F.12
Nair, L.13
Sannigrahi, M.14
Tong, X.15
Pichardo, J.16
Cheng, K.C.17
Girijavallabhan, V.M.18
Saksena, A.K.19
Njoroge, F.G.20
more..
-
41
-
-
78650481557
-
Drug resistance against HCV NS3/4A inhibitors is defined by the balance of substrate recognition versus inhibitor binding
-
Romano, K. P.; Ali, A.; Royer, W. E.; Schiffer, C. A. Drug resistance against HCV NS3/4A inhibitors is defined by the balance of substrate recognition versus inhibitor binding Proc. Natl. Acad. Sci. U. S. A. 2010, 107, 20986-20991
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 20986-20991
-
-
Romano, K.P.1
Ali, A.2
Royer, W.E.3
Schiffer, C.A.4
-
42
-
-
79953184315
-
Combined X-ray, NMR, and kinetic analyses reveal uncommon binding characteristics of the hepatitis C virus NS3-NS4A protease inhibitor BI 201335
-
Lemke, C. T.; Goudreau, N.; Zhao, S.; Hucke, O.; Thibeault, D.; Llinas-Brunet, M.; White, P. W. Combined X-ray, NMR, and kinetic analyses reveal uncommon binding characteristics of the hepatitis C virus NS3-NS4A protease inhibitor BI 201335 J. Biol. Chem. 2011, 286, 11434-11443
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 11434-11443
-
-
Lemke, C.T.1
Goudreau, N.2
Zhao, S.3
Hucke, O.4
Thibeault, D.5
Llinas-Brunet, M.6
White, P.W.7
-
43
-
-
84355166397
-
Molecular modeling study on the resistance mechanism of HCV NS3/4A serine protease mutants R155K, A156V and D168A to TMC435
-
Xue, W.; Pan, D.; Yang, Y.; Liu, H.; Yao, X. Molecular modeling study on the resistance mechanism of HCV NS3/4A serine protease mutants R155K, A156V and D168A to TMC435 Antiviral Res. 2012, 93, 126-137
-
(2012)
Antiviral Res.
, vol.93
, pp. 126-137
-
-
Xue, W.1
Pan, D.2
Yang, Y.3
Liu, H.4
Yao, X.5
-
44
-
-
34547927078
-
Phenotypic and structural analyses of hepatitis C virus NS3 protease Arg155 variants: Sensitivity to telaprevir (VX-950) and interferon alpha
-
Zhou, Y.; Muh, U.; Hanzelka, B. L.; Bartels, D. J.; Wei, Y.; Rao, B. G.; Brennan, D. L.; Tigges, A. M.; Swenson, L.; Kwong, A. D.; Lin, C. Phenotypic and structural analyses of hepatitis C virus NS3 protease Arg155 variants: sensitivity to telaprevir (VX-950) and interferon alpha J. Biol. Chem. 2007, 282, 22619-22628
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 22619-22628
-
-
Zhou, Y.1
Muh, U.2
Hanzelka, B.L.3
Bartels, D.J.4
Wei, Y.5
Rao, B.G.6
Brennan, D.L.7
Tigges, A.M.8
Swenson, L.9
Kwong, A.D.10
Lin, C.11
-
45
-
-
77649127624
-
Induced-fit binding of the macrocyclic noncovalent inhibitor TMC435 to its HCV NS3/NS4A protease target
-
Cummings, M. D.; Lindberg, J.; Lin, T. I.; de Kock, H.; Lenz, O.; Lilja, E.; Fellander, S.; Baraznenok, V.; Nystrom, S.; Nilsson, M.; Vrang, L.; Edlund, M.; Rosenquist, A.; Samuelsson, B.; Raboisson, P.; Simmen, K. Induced-fit binding of the macrocyclic noncovalent inhibitor TMC435 to its HCV NS3/NS4A protease target Angew. Chem., Int. Ed. Engl. 2010, 49, 1652-1655
-
(2010)
Angew. Chem., Int. Ed. Engl.
, vol.49
, pp. 1652-1655
-
-
Cummings, M.D.1
Lindberg, J.2
Lin, T.I.3
De Kock, H.4
Lenz, O.5
Lilja, E.6
Fellander, S.7
Baraznenok, V.8
Nystrom, S.9
Nilsson, M.10
Vrang, L.11
Edlund, M.12
Rosenquist, A.13
Samuelsson, B.14
Raboisson, P.15
Simmen, K.16
-
46
-
-
77957366855
-
Structure-activity relationships of HCV NS3 protease inhibitors evaluated on the drug-resistant variants A156T and D168V
-
Ortqvist, P.; Vema, A.; Ehrenberg, A. E.; Dahl, G.; Ronn, R.; Akerblom, E.; Karlen, A.; Danielson, U. H.; Sandstrom, A. Structure-activity relationships of HCV NS3 protease inhibitors evaluated on the drug-resistant variants A156T and D168V Antiviral Ther. 2010, 15, 841-852
-
(2010)
Antiviral Ther.
, vol.15
, pp. 841-852
-
-
Ortqvist, P.1
Vema, A.2
Ehrenberg, A.E.3
Dahl, G.4
Ronn, R.5
Akerblom, E.6
Karlen, A.7
Danielson, U.H.8
Sandstrom, A.9
-
47
-
-
84455161773
-
In vitro resistance profile of the hepatitis C virus NS3 protease inhibitor BI 201335
-
Lagacé, L.; White, P. W.; Bousquet, C.; Dansereau, N.; Do, F.; Llinas-Brunet, M.; Marquis, M.; Massariol, M. J.; Maurice, R.; Spickler, C.; Thibeault, D.; Triki, I.; Zhao, S.; Kukolj, G. In vitro resistance profile of the hepatitis C virus NS3 protease inhibitor BI 201335 Antimicrob. Agents Chemother. 2012, 56, 569-572
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 569-572
-
-
Lagacé, L.1
White, P.W.2
Bousquet, C.3
Dansereau, N.4
Do, F.5
Llinas-Brunet, M.6
Marquis, M.7
Massariol, M.J.8
Maurice, R.9
Spickler, C.10
Thibeault, D.11
Triki, I.12
Zhao, S.13
Kukolj, G.14
-
48
-
-
0033757806
-
The Protein Data Bank and the challenge of structural genomics
-
Berman, H. M.; Bhat, T. N.; Bourne, P. E.; Feng, Z. K.; Gilliland, G.; Weissig, H.; Westbrook, J. The Protein Data Bank and the challenge of structural genomics Nat. Struct. Biol. 2000, 7, 957-959
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 957-959
-
-
Berman, H.M.1
Bhat, T.N.2
Bourne, P.E.3
Feng, Z.K.4
Gilliland, G.5
Weissig, H.6
Westbrook, J.7
-
49
-
-
84455173090
-
Virologic escape during danoprevir (ITMN-191/RG7227) monotherapy is hepatitis C virus subtype dependent and associated with R155K substitution
-
Lim, S. R.; Qin, X.; Susser, S.; Nicholas, J. B.; Lange, C.; Herrmann, E.; Hong, J.; Arfsten, A.; Hooi, L.; Bradford, W.; Najera, I.; Smith, P.; Zeuzem, S.; Kossen, K.; Sarrazin, C.; Seiwert, S. D. Virologic escape during danoprevir (ITMN-191/RG7227) monotherapy is hepatitis C virus subtype dependent and associated with R155K substitution Antimicrob. Agents Chemother. 2012, 56, 271-279
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 271-279
-
-
Lim, S.R.1
Qin, X.2
Susser, S.3
Nicholas, J.B.4
Lange, C.5
Herrmann, E.6
Hong, J.7
Arfsten, A.8
Hooi, L.9
Bradford, W.10
Najera, I.11
Smith, P.12
Zeuzem, S.13
Kossen, K.14
Sarrazin, C.15
Seiwert, S.D.16
-
50
-
-
79960236106
-
-
Smith, J. A. Rivier, J. E.
-
Rone, R.; Momany, F. A.; Dygert, M. Conformational studies on vancomycin using QUANTA-CHARMM. In Smith, J. A.; Rivier, J. E. (1992; pp 299-301.
-
(1992)
Conformational Studies on Vancomycin Using QUANTA-CHARMM
, pp. 299-301
-
-
Rone, R.1
Momany, F.A.2
Dygert, M.3
-
51
-
-
84874421402
-
-
Accelrys: San Diego, CA, USA
-
Discovery Studio 3.1; Accelrys: San Diego, CA, USA, 2010.
-
(2010)
Discovery Studio 3.1
-
-
-
52
-
-
79960244405
-
Predicting fragment binding poses using a combined MCSS MM-GBSA approach
-
Haider, M. K.; Bertrand, H. O.; Hubbard, R. E. Predicting fragment binding poses using a combined MCSS MM-GBSA approach J. Chem. Inf. Model. 2010, 51, 1092-1105
-
(2010)
J. Chem. Inf. Model.
, vol.51
, pp. 1092-1105
-
-
Haider, M.K.1
Bertrand, H.O.2
Hubbard, R.E.3
-
53
-
-
0037571112
-
Merck molecular force field. I. Basis, form, scope, parameterization, and performance of MMFF94
-
Halgren, T. A. Merck molecular force field. I. Basis, form, scope, parameterization, and performance of MMFF94 J. Comput. Chem. 1996, 17, 490-519
-
(1996)
J. Comput. Chem.
, vol.17
, pp. 490-519
-
-
Halgren, T.A.1
-
54
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
Sali, A.; Blundell, T. L. Comparative protein modelling by satisfaction of spatial restraints J. Mol. Biol. 1993, 234, 779-815
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
55
-
-
0041781898
-
Detailed analysis of grid-based molecular docking: A case study of CDOCKER-A CHARMm-based MD docking algorithm
-
Wu, G.; Robertson, D. H.; Brooks, C. L., III; Vieth, M. Detailed analysis of grid-based molecular docking: a case study of CDOCKER-A CHARMm-based MD docking algorithm J. Comput. Chem. 2003, 24, 1549-1562
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1549-1562
-
-
Wu, G.1
Robertson, D.H.2
Brooks Iii, C.L.3
Vieth, M.4
-
56
-
-
0141956090
-
Generalized born model with a simple smoothing function
-
Im, W.; Lee, M. S.; Brooks, C. L., III Generalized born model with a simple smoothing function J. Comput. Chem. 2003, 24, 1691-1702
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1691-1702
-
-
Im, W.1
Lee, M.S.2
Brooks Iii, C.L.3
-
57
-
-
67650500988
-
CHARMM: The biomolecular simulation program
-
Brooks, B. R.; Brooks, C. L.; Mackerell, A. D.; Nilsson, L.; Petrella, R. J.; Roux, B.; Won, Y.; Archontis, G.; Bartels, C.; Boresch, S.; Caflisch, A.; Caves, L.; Cui, Q.; Dinner, A. R.; Feig, M.; Fischer, S.; Gao, J.; Hodoscek, M.; Im, W.; Kuczera, K.; Lazaridis, T.; Ma, J.; Ovchinnikov, V.; Paci, E.; Pastor, R. W.; Post, C. B.; Pu, J. Z.; Schaefer, M.; Tidor, B.; Venable, R. M.; Woodcock, H. L.; Wu, X.; Yang, W.; York, D. M.; Karplus, M. CHARMM: the biomolecular simulation program J. Comput. Chem. 2009, 30, 1545-1614
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 1545-1614
-
-
Brooks, B.R.1
Brooks, C.L.2
Mackerell, A.D.3
Nilsson, L.4
Petrella, R.J.5
Roux, B.6
Won, Y.7
Archontis, G.8
Bartels, C.9
Boresch, S.10
Caflisch, A.11
Caves, L.12
Cui, Q.13
Dinner, A.R.14
Feig, M.15
Fischer, S.16
Gao, J.17
Hodoscek, M.18
Im, W.19
Kuczera, K.20
Lazaridis, T.21
Ma, J.22
Ovchinnikov, V.23
Paci, E.24
Pastor, R.W.25
Post, C.B.26
Pu, J.Z.27
Schaefer, M.28
Tidor, B.29
Venable, R.M.30
Woodcock, H.L.31
Wu, X.32
Yang, W.33
York, D.M.34
Karplus, M.35
more..
-
58
-
-
0346971105
-
Performance comparison of generalized born and Poisson methods in the calculation of electrostatic solvation energies for protein structures
-
Feig, M.; Onufriev, A.; Lee, M. S.; Im, W.; Case, D. A.; Brooks, C. L. Performance comparison of generalized born and Poisson methods in the calculation of electrostatic solvation energies for protein structures J. Comput. Chem. 2003, 25, 265-284
-
(2003)
J. Comput. Chem.
, vol.25
, pp. 265-284
-
-
Feig, M.1
Onufriev, A.2
Lee, M.S.3
Im, W.4
Case, D.A.5
Brooks, C.L.6
-
59
-
-
61449194210
-
Binding specificity of SH2 domains: Insight from free energy simulations
-
Gan, W.; Roux, B. Binding specificity of SH2 domains: insight from free energy simulations Proteins: Struct., Funct., Bioinf. 2008, 74, 996-1007
-
(2008)
Proteins: Struct., Funct., Bioinf.
, vol.74
, pp. 996-1007
-
-
Gan, W.1
Roux, B.2
-
60
-
-
84859425740
-
Molecular dynamics in drug design: New generations of compstatin analogs
-
Tamamis, P.; López de Victoria, A.; Gorham, R. D.; Bellows-Peterson, M. L.; Pierou, P.; Floudas, C. A.; Morikis, D.; Archontis, G. Molecular dynamics in drug design: new generations of compstatin analogs Chem. Biol. Drug Des. 2012, 79, 703-718
-
(2012)
Chem. Biol. Drug Des.
, vol.79
, pp. 703-718
-
-
Tamamis, P.1
López De Victoria, A.2
Gorham, R.D.3
Bellows-Peterson, M.L.4
Pierou, P.5
Floudas, C.A.6
Morikis, D.7
Archontis, G.8
-
61
-
-
79957585828
-
Contribution of explicit solvent effects to the binding affinity of small-molecule inhibitors in blood coagulation factor serine proteases
-
Abel, R.; Salam, N. K.; Shelley, J.; Farid, R.; Friesner, R. A.; Sherman, W. Contribution of explicit solvent effects to the binding affinity of small-molecule inhibitors in blood coagulation factor serine proteases ChemMedChem 2011, 6, 1049-1066
-
(2011)
ChemMedChem
, vol.6
, pp. 1049-1066
-
-
Abel, R.1
Salam, N.K.2
Shelley, J.3
Farid, R.4
Friesner, R.A.5
Sherman, W.6
-
62
-
-
84855932239
-
Flexibility analysis of biomacromolecules with application to computer-aided drug design
-
Fulle, S.; Gohlke, H. Flexibility analysis of biomacromolecules with application to computer-aided drug design Methods Mol. Biol. 2012, 819, 75-91
-
(2012)
Methods Mol. Biol.
, vol.819
, pp. 75-91
-
-
Fulle, S.1
Gohlke, H.2
-
63
-
-
0035427398
-
Protein flexibility predictions using graph theory
-
Jacobs, D. J.; Rader, A. J.; Kuhn, L. A.; Thorpe, M. F. Protein flexibility predictions using graph theory Proteins 2001, 44, 150-165
-
(2001)
Proteins
, vol.44
, pp. 150-165
-
-
Jacobs, D.J.1
Rader, A.J.2
Kuhn, L.A.3
Thorpe, M.F.4
-
64
-
-
33646799407
-
Multiscale modeling of macromolecular conformational changes combining concepts from rigidity and elastic network theory
-
Ahmed, A.; Gohlke, H. Multiscale modeling of macromolecular conformational changes combining concepts from rigidity and elastic network theory Proteins: Struct., Funct., Bioinf. 2006, 63, 1038-1051
-
(2006)
Proteins: Struct., Funct., Bioinf.
, vol.63
, pp. 1038-1051
-
-
Ahmed, A.1
Gohlke, H.2
-
65
-
-
27744471408
-
Constrained geometric simulation of diffusive motion in proteins
-
Wells, S.; Menor, S.; Hespenheide, B.; Thorpe, M. F. Constrained geometric simulation of diffusive motion in proteins Phys. Biol. 2005, 2, S127-S136
-
(2005)
Phys. Biol.
, vol.2
-
-
Wells, S.1
Menor, S.2
Hespenheide, B.3
Thorpe, M.F.4
-
66
-
-
0033025809
-
Predicting binding energetics from structure: Looking beyond dG
-
Murphy, K. P. Predicting binding energetics from structure: looking beyond dG Med. Res. Rev. 1999, 19, 333-339
-
(1999)
Med. Res. Rev.
, vol.19
, pp. 333-339
-
-
Murphy, K.P.1
-
67
-
-
0027991081
-
Estimation of changes in side chain configurational entropy in binding and folding: General methods and application to helix formation
-
Lee, K. H.; Xie, D.; Freire, E.; Amzel, L. M. Estimation of changes in side chain configurational entropy in binding and folding: general methods and application to helix formation Proteins 1994, 20, 68-84
-
(1994)
Proteins
, vol.20
, pp. 68-84
-
-
Lee, K.H.1
Xie, D.2
Freire, E.3
Amzel, L.M.4
-
68
-
-
65549160381
-
Antiviral resistance and specifically targeted therapy for HCV (STAT-C)
-
Thompson, A. J.; McHutchison, J. G. Antiviral resistance and specifically targeted therapy for HCV (STAT-C) J. Viral Hepat. 2009, 16, 377-387
-
(2009)
J. Viral Hepat.
, vol.16
, pp. 377-387
-
-
Thompson, A.J.1
McHutchison, J.G.2
-
69
-
-
80755155952
-
Comparison of the efficiency of the LIE and MM/GBSA methods to calculate ligand-binding energies
-
Genheden, S.; Ryde, U. Comparison of the efficiency of the LIE and MM/GBSA methods to calculate ligand-binding energies J. Chem. Theory Comput. 2011, 7, 3768-3778
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 3768-3778
-
-
Genheden, S.1
Ryde, U.2
-
70
-
-
46249102168
-
Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of the hepatitis C virus
-
Welsch, C.; Domingues, F. S.; Susser, S.; Antes, I.; Hartmann, C.; Mayr, G.; Schlicker, A.; Sarrazin, C.; Albrecht, M.; Zeuzem, S.; Lengauer, T. Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of the hepatitis C virus Genome Biol. 2008, 9, R16
-
(2008)
Genome Biol.
, vol.9
, pp. 16
-
-
Welsch, C.1
Domingues, F.S.2
Susser, S.3
Antes, I.4
Hartmann, C.5
Mayr, G.6
Schlicker, A.7
Sarrazin, C.8
Albrecht, M.9
Zeuzem, S.10
Lengauer, T.11
-
71
-
-
0034654305
-
Inhibitor binding induces active site stabilization of the HCV NS3 protein serine protease domain
-
Barbato, G.; Cicero, D. O.; Cordier, F.; Narjes, F.; Gerlach, B.; Sambucini, S.; Grzesiek, S.; Matassa, V. G.; De Francesco, R.; Bazzo, R. Inhibitor binding induces active site stabilization of the HCV NS3 protein serine protease domain EMBO J. 2000, 19, 1195-1206
-
(2000)
EMBO J.
, vol.19
, pp. 1195-1206
-
-
Barbato, G.1
Cicero, D.O.2
Cordier, F.3
Narjes, F.4
Gerlach, B.5
Sambucini, S.6
Grzesiek, S.7
Matassa, V.G.8
De Francesco, R.9
Bazzo, R.10
-
72
-
-
84863438978
-
Understanding the drug resistance mechanism of hepatitis C virus NS3/4A to ITMN-191 due to R155K, A156V, D168A/E mutations: A computational study
-
Pan, D.; Xue, W.; Zhang, W.; Liu, H.; Yao, X. Understanding the drug resistance mechanism of hepatitis C virus NS3/4A to ITMN-191 due to R155K, A156V, D168A/E mutations: a computational study Biochim. Biophys. Acta, Gen. Subj. 2012, 1820, 1526-1534
-
(2012)
Biochim. Biophys. Acta, Gen. Subj.
, vol.1820
, pp. 1526-1534
-
-
Pan, D.1
Xue, W.2
Zhang, W.3
Liu, H.4
Yao, X.5
-
73
-
-
77955654922
-
Structural characterization of the hepatitis C virus NS3 protease from genotype 3a: The basis of the genotype 1b vs. 3a inhibitor potency shift
-
Gallo, M.; Bottomley, M. J.; Pennestri, M.; Eliseo, T.; Paci, M.; Koch, U.; Bazzo, R.; Summa, V.; Carfi, A.; Cicero, D. O. Structural characterization of the hepatitis C virus NS3 protease from genotype 3a: the basis of the genotype 1b vs. 3a inhibitor potency shift Virology 2010, 405, 424-438
-
(2010)
Virology
, vol.405
, pp. 424-438
-
-
Gallo, M.1
Bottomley, M.J.2
Pennestri, M.3
Eliseo, T.4
Paci, M.5
Koch, U.6
Bazzo, R.7
Summa, V.8
Carfi, A.9
Cicero, D.O.10
-
74
-
-
84861520787
-
Develop and test a solvent accessible surface area-based model in conformational entropy calculations
-
Wang, J.; Hou, T. Develop and test a solvent accessible surface area-based model in conformational entropy calculations J. Chem. Inf. Model. 2012, 52, 1199-1212
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 1199-1212
-
-
Wang, J.1
Hou, T.2
-
75
-
-
80051775090
-
Accurate predictions of nonpolar solvation free energies require explicit consideration of binding-site hydration
-
Genheden, S.; Mikulskis, P.; Hu, L.; Kongsted, J.; Soderhjelm, P.; Ryde, U. Accurate predictions of nonpolar solvation free energies require explicit consideration of binding-site hydration J. Am. Chem. Soc. 2011, 133, 13081-13092
-
(2011)
J. Am. Chem. Soc.
, vol.133
, pp. 13081-13092
-
-
Genheden, S.1
Mikulskis, P.2
Hu, L.3
Kongsted, J.4
Soderhjelm, P.5
Ryde, U.6
-
76
-
-
33846424559
-
Water at biomolecular binding interfaces
-
Li, Z.; Lazaridis, T. Water at biomolecular binding interfaces Phys. Chem. Chem. Phys. 2007, 9, 573-581
-
(2007)
Phys. Chem. Chem. Phys.
, vol.9
, pp. 573-581
-
-
Li, Z.1
Lazaridis, T.2
-
77
-
-
40949163431
-
Role of the active-site solvent in the thermodynamics of factor Xa ligand binding
-
Abel, R.; Young, T.; Farid, R.; Berne, B. J.; Friesner, R. A. Role of the active-site solvent in the thermodynamics of factor Xa ligand binding J. Am. Chem. Soc. 2008, 130, 2817-2831
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 2817-2831
-
-
Abel, R.1
Young, T.2
Farid, R.3
Berne, B.J.4
Friesner, R.A.5
-
78
-
-
84856776282
-
Thermodynamic analysis of water molecules at the surface of proteins and applications to binding site prediction and characterization
-
Beuming, T.; Che, Y.; Abel, R.; Kim, B.; Shanmugasundaram, V.; Sherman, W. Thermodynamic analysis of water molecules at the surface of proteins and applications to binding site prediction and characterization Proteins 2012, 80, 871-883
-
(2012)
Proteins
, vol.80
, pp. 871-883
-
-
Beuming, T.1
Che, Y.2
Abel, R.3
Kim, B.4
Shanmugasundaram, V.5
Sherman, W.6
-
79
-
-
84863812540
-
Ligand binding stepwise disrupts water network in thrombin: Enthalpic and entropic changes reveal classical hydrophobic effect
-
Biela, A.; Sielaff, F.; Terwesten, F.; Heine, A.; Steinmetzer, T.; Klebe, G. Ligand binding stepwise disrupts water network in thrombin: enthalpic and entropic changes reveal classical hydrophobic effect J. Med. Chem. 2012, 55, 6094-6110
-
(2012)
J. Med. Chem.
, vol.55
, pp. 6094-6110
-
-
Biela, A.1
Sielaff, F.2
Terwesten, F.3
Heine, A.4
Steinmetzer, T.5
Klebe, G.6
-
80
-
-
0033824470
-
DaliLite workbench for protein structure comparison
-
Holm, L.; Park, J. DaliLite workbench for protein structure comparison Bioinformatics 2000, 16, 566-567
-
(2000)
Bioinformatics
, vol.16
, pp. 566-567
-
-
Holm, L.1
Park, J.2
-
81
-
-
0030005250
-
Solvation energies of amino acid side chains and backbone in a family of host-guest pentapeptides
-
Wimley, W. C.; Creamer, T. P.; White, S. H. Solvation energies of amino acid side chains and backbone in a family of host-guest pentapeptides Biochemistry 1996, 35, 5109-5124
-
(1996)
Biochemistry
, vol.35
, pp. 5109-5124
-
-
Wimley, W.C.1
Creamer, T.P.2
White, S.H.3
-
82
-
-
84859752422
-
Discovery of MK-5172, a macrocyclic hepatitis C virus NS3/4a protease inhibitor
-
Harper, S.; McCauley, J. A.; Rudd, M. T.; Ferrara, M.; DiFilippo, M.; Crescenzi, B.; Koch, U.; Petrocchi, A.; Holloway, M. K.; Butcher, J. W.; Romano, J. J.; Bush, K. J.; Gilbert, K. F.; McIntyre, C. J.; Nguyen, K. T.; Nizi, E.; Carroll, S. S.; Ludmerer, S. W.; Burlein, C.; DiMuzio, J. M.; Graham, D. J.; McHale, C. M.; Stahlhut, M. W.; Olsen, D. B.; Monteagudo, E.; Cianetti, S.; Giuliano, C.; Pucci, V.; Trainor, N.; Fandozzi, C. M.; Rowley, M.; Coleman, P. J.; Vacca, J. P.; Summa, V.; Liverton, N. J. Discovery of MK-5172, a macrocyclic hepatitis C virus NS3/4a protease inhibitor ACS Med. Chem. Lett. 2012, 3, 332-336
-
(2012)
ACS Med. Chem. Lett.
, vol.3
, pp. 332-336
-
-
Harper, S.1
McCauley, J.A.2
Rudd, M.T.3
Ferrara, M.4
Difilippo, M.5
Crescenzi, B.6
Koch, U.7
Petrocchi, A.8
Holloway, M.K.9
Butcher, J.W.10
Romano, J.J.11
Bush, K.J.12
Gilbert, K.F.13
McIntyre, C.J.14
Nguyen, K.T.15
Nizi, E.16
Carroll, S.S.17
Ludmerer, S.W.18
Burlein, C.19
Dimuzio, J.M.20
Graham, D.J.21
McHale, C.M.22
Stahlhut, M.W.23
Olsen, D.B.24
Monteagudo, E.25
Cianetti, S.26
Giuliano, C.27
Pucci, V.28
Trainor, N.29
Fandozzi, C.M.30
Rowley, M.31
Coleman, P.J.32
Vacca, J.P.33
Summa, V.34
Liverton, N.J.35
more..
-
83
-
-
84864387126
-
MK-5172, a selective inhibitor of hepatitis C virus NS3/4a protease with broad activity across genotypes and resistant variants
-
Summa, V.; Ludmerer, S. W.; McCauley, J. A.; Fandozzi, C.; Burlein, C.; Claudio, G.; Coleman, P. J.; Dimuzio, J. M.; Ferrara, M.; Di Filippo, M.; Gates, A. T.; Graham, D. J.; Harper, S.; Hazuda, D. J.; McHale, C.; Monteagudo, E.; Pucci, V.; Rowley, M.; Rudd, M. T.; Soriano, A.; Stahlhut, M. W.; Vacca, J. P.; Olsen, D. B.; Liverton, N. J.; Carroll, S. S. MK-5172, a selective inhibitor of hepatitis C virus NS3/4a protease with broad activity across genotypes and resistant variants Antimicrob. Agents Chemother. 2012, 56, 4161-4167
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 4161-4167
-
-
Summa, V.1
Ludmerer, S.W.2
McCauley, J.A.3
Fandozzi, C.4
Burlein, C.5
Claudio, G.6
Coleman, P.J.7
Dimuzio, J.M.8
Ferrara, M.9
Di Filippo, M.10
Gates, A.T.11
Graham, D.J.12
Harper, S.13
Hazuda, D.J.14
McHale, C.15
Monteagudo, E.16
Pucci, V.17
Rowley, M.18
Rudd, M.T.19
Soriano, A.20
Stahlhut, M.W.21
Vacca, J.P.22
Olsen, D.B.23
Liverton, N.J.24
Carroll, S.S.25
more..
-
84
-
-
0029864591
-
Direct measurement of salt-bridge solvation energies using a peptide model system: Implications for protein stability
-
Wimley, W. C.; Gawrisch, K.; Creamer, T. P.; White, S. H. Direct measurement of salt-bridge solvation energies using a peptide model system: implications for protein stability Proc. Natl. Acad. Sci. U. S. A. 1996, 93, 2985-2990
-
(1996)
Proc. Natl. Acad. Sci. U. S. A.
, vol.93
, pp. 2985-2990
-
-
Wimley, W.C.1
Gawrisch, K.2
Creamer, T.P.3
White, S.H.4
-
85
-
-
70449522914
-
Predicting ligand binding affinity with alchemical free energy methods in a polar model binding site
-
Boyce, S. E.; Mobley, D. L.; Rocklin, G. J.; Graves, A. P.; Dill, K. A.; Shoichet, B. K. Predicting ligand binding affinity with alchemical free energy methods in a polar model binding site J. Mol. Biol. 2009, 394, 747-763
-
(2009)
J. Mol. Biol.
, vol.394
, pp. 747-763
-
-
Boyce, S.E.1
Mobley, D.L.2
Rocklin, G.J.3
Graves, A.P.4
Dill, K.A.5
Shoichet, B.K.6
|