-
1
-
-
0037137142
-
The essential role of C-terminal residues in regulating the activity of hepatitis C virus RNA-dependent RNA polymerase
-
DOI 10.1016/S1570-9639(02)00433-8, PII S1570963902004338
-
T. Adachi, H. Ago, N. Habuka, K. Okuda, M. Komatsu, S. Ikeda, and K. Yatsunami The essential role of C-terminal residues in regulating the activity of hepatitis C virus RNA-dependent RNA polymerase Biochim. Biophys. Acta 1601 2002 38 48 (Pubitemid 38234529)
-
(2002)
Biochimica et Biophysica Acta - Proteins and Proteomics
, vol.1601
, Issue.1
, pp. 38-48
-
-
Adachi, T.1
Ago, H.2
Habuka, N.3
Okuda, K.4
Komatsu, M.5
Ikeda, S.6
Yatsunami, K.7
-
2
-
-
68149173312
-
Molecular dynamics and free energy studies on the wild-type and mutated HIV-1 protease complexed with four approved drugs: Mechanism of binding and drug resistance
-
S. Alcaro, A. Artese, F. Ceccherini-Silberstein, F. Ortuso, C.F. Perno, T. Sing, and V. Svicher Molecular dynamics and free energy studies on the wild-type and mutated HIV-1 protease complexed with four approved drugs: mechanism of binding and drug resistance J. Chem. Inf. Model. 49 2009 1751 1761
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 1751-1761
-
-
Alcaro, S.1
Artese, A.2
Ceccherini-Silberstein, F.3
Ortuso, F.4
Perno, C.F.5
Sing, T.6
Svicher, V.7
-
3
-
-
33750377230
-
Molecular dynamic and free energy studies of primary resistance mutations in HIV-1 protease-ritonavir complexes
-
DOI 10.1021/ci060090c
-
O. Aruksakunwong, P. Wolschann, S. Hannongbua, and P. Sompornpisut Molecular dynamic and free energy studies of primary resistance mutations in HIV-1 protease-ritonavir complexes J. Chem. Inf. Model. 46 2006 2085 2092 (Pubitemid 44625979)
-
(2006)
Journal of Chemical Information and Modeling
, vol.46
, Issue.5
, pp. 2085-2092
-
-
Aruksakunwong, O.1
Wolschann, P.2
Hannongbua, S.3
Sompornpisut, P.4
-
4
-
-
38349164409
-
Computing topological parameters of biological networks
-
Y. Assenov, F. Ramírez, S.-E. Schelhorn, T. Lengauer, and M. Albrecht Computing topological parameters of biological networks Bioinformatics 24 2008 282 284
-
(2008)
Bioinformatics
, vol.24
, pp. 282-284
-
-
Assenov, Y.1
Ramírez, F.2
Schelhorn, S.-E.3
Lengauer, T.4
Albrecht, M.5
-
5
-
-
69749120935
-
Quantitative prediction of fold resistance for inhibitors of EGFR
-
T.E. Balius, and R.C. Rizzo Quantitative prediction of fold resistance for inhibitors of EGFR Biochemistry 48 2009 8435 8448
-
(2009)
Biochemistry
, vol.48
, pp. 8435-8448
-
-
Balius, T.E.1
Rizzo, R.C.2
-
6
-
-
3042524904
-
A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: The RESP model
-
C.I. Bayly, P. Cieplak, W. Cornell, and P.A. Kollman A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: the RESP model J. Phys. Chem. 97 1993 10269 10280
-
(1993)
J. Phys. Chem.
, vol.97
, pp. 10269-10280
-
-
Bayly, C.I.1
Cieplak, P.2
Cornell, W.3
Kollman, P.A.4
-
7
-
-
34249910312
-
Network analysis of protein dynamics
-
DOI 10.1016/j.febslet.2007.05.021, PII S0014579307005492, Vienna Special Issue: Molecular Machines
-
C. Böde, I.A. Kovács, M.S. Szalay, R. Palotai, T. Korcsmáros, and P. Csermely Network analysis of protein dynamics FEBS Lett. 581 2007 2776 2782 (Pubitemid 46874391)
-
(2007)
FEBS Letters
, vol.581
, Issue.15
, pp. 2776-2782
-
-
Bode, C.1
Kovacs, I.A.2
Szalay, M.S.3
Palotai, R.4
Korcsmaros, T.5
Csermely, P.6
-
8
-
-
0033539482
-
Crystal structure of the RNA-dependent RNA polymerase of hepatitis C virus
-
S. Bressanelli, L. Tomei, A. Roussel, I. Incitti, R.L. Vitale, M. Mathieu, R. De Francesco, and F.A. Rey Crystal structure of the RNA-dependent RNA polymerase of hepatitis C virus Proc. Natl. Acad. Sci. USA 96 1999 13034 13039
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 13034-13039
-
-
Bressanelli, S.1
Tomei, L.2
Roussel, A.3
Incitti, I.4
Vitale, R.L.5
Mathieu, M.6
De Francesco, R.7
Rey, F.A.8
-
9
-
-
77951133082
-
Decomposing the energetic impact of drug resistant mutations in HIV-1 protease on binding DRV
-
Y. Cai, and C.A. Schiffer Decomposing the energetic impact of drug resistant mutations in HIV-1 protease on binding DRV J. Chem. Theory Comput. 6 2010 1358 1368
-
(2010)
J. Chem. Theory Comput.
, vol.6
, pp. 1358-1368
-
-
Cai, Y.1
Schiffer, C.A.2
-
10
-
-
82555170294
-
An objective assessment of conformational variability in complexes of hepatitis C virus polymerase with non-nucleoside inhibitors
-
C. Caillet-Saguy, P.C. Simister, and S. Bressanelli An objective assessment of conformational variability in complexes of hepatitis C virus polymerase with non-nucleoside inhibitors J. Mol. Biol. 414 2011 370 384
-
(2011)
J. Mol. Biol.
, vol.414
, pp. 370-384
-
-
Caillet-Saguy, C.1
Simister, P.C.2
Bressanelli, S.3
-
11
-
-
58049201323
-
-
University of California San Francisco
-
D.A. Case, T.A. Darden, T.E. Cheatham III, C.L. Simmerling, J. Wang, R.E. Duke, R. Luo, M. Crowley, R.C. Walker, W. Zhang, K.M. Merz, B. Wang, S. Hayik, A. Roitberg, G. Seabra, I. Kolossváry, K.F. Wong, F. Paesani, J. Vanicek, X. Wu, S.R. Brozell, T. Steinbrecher, H. Gohlke, L. Yang, C. Tan, J. Mongan, V. Hornak, G. Cui, D.H. Mathews, M.G. Seetin, C. Sagui, V. Babin, and P.A. Kollman AMBER 10 2008 University of California San Francisco
-
(2008)
AMBER 10
-
-
Case, D.A.1
Darden, T.A.2
Cheatham III, T.E.3
Simmerling, C.L.4
Wang, J.5
Duke, R.E.6
Luo, R.7
Crowley, M.8
Walker, R.C.9
Zhang, W.10
Merz, K.M.11
Wang, B.12
Hayik, S.13
Roitberg, A.14
Seabra, G.15
Kolossváry, I.16
Wong, K.F.17
Paesani, F.18
Vanicek, J.19
Wu, X.20
Brozell, S.R.21
Steinbrecher, T.22
Gohlke, H.23
Yang, L.24
Tan, C.25
Mongan, J.26
Hornak, V.27
Cui, G.28
Mathews, D.H.29
Seetin, M.G.30
Sagui, C.31
Babin, V.32
Kollman, P.A.33
more..
-
12
-
-
57749118013
-
Origins of resistance conferred by the R292K neuraminidase mutation via molecular dynamics and free energy calculations
-
R. Chachra, and R.C. Rizzo Origins of resistance conferred by the R292K neuraminidase mutation via molecular dynamics and free energy calculations J. Chem. Theory Comput. 4 2008 1526 1540
-
(2008)
J. Chem. Theory Comput.
, vol.4
, pp. 1526-1540
-
-
Chachra, R.1
Rizzo, R.C.2
-
13
-
-
84986516411
-
Application of the multimolecule and multiconformational RESP methodology to biopolymers: Charge derivation for DNA, RNA, and proteins
-
P. Cieplak, W.D. Cornell, C. Bayly, and P.A. Kollman Application of the multimolecule and multiconformational RESP methodology to biopolymers: charge derivation for DNA, RNA, and proteins J. Comput. Chem. 16 1995 1357 1377
-
(1995)
J. Comput. Chem.
, vol.16
, pp. 1357-1377
-
-
Cieplak, P.1
Cornell, W.D.2
Bayly, C.3
Kollman, P.A.4
-
14
-
-
33846823909
-
Particle mesh Ewald: An N·log(N) method for Ewald sums in large systems
-
T. Darden, D. York, and L. Pedersen Particle mesh Ewald: an N·log(N) method for Ewald sums in large systems J. Chem. Phys. 98 1993 10089 10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
15
-
-
84871094298
-
Thumb inhibitor binding eliminates functionally important dynamics in the hepatitis C virus RNA polymerase
-
B.C. Davis, and I.F. Thorpe Thumb inhibitor binding eliminates functionally important dynamics in the hepatitis C virus RNA polymerase Proteins 81 2013 40 52
-
(2013)
Proteins
, vol.81
, pp. 40-52
-
-
Davis, B.C.1
Thorpe, I.F.2
-
16
-
-
84868565812
-
The race for interferon-free HCV therapies: A snapshot by the spring of 2012
-
E. De Clercq The race for interferon-free HCV therapies: a snapshot by the spring of 2012 Rev. Med. Virol. 22 2012 392 411
-
(2012)
Rev. Med. Virol.
, vol.22
, pp. 392-411
-
-
De Clercq, E.1
-
17
-
-
33745461893
-
Residues crucial for maintaining short paths in network communication mediate signaling in proteins
-
A. del Sol, H. Fujihashi, D. Amoros, and R. Nussinov Residues crucial for maintaining short paths in network communication mediate signaling in proteins Mol. Syst. Biol. 2 2006 2006 0019
-
(2006)
Mol. Syst. Biol.
, vol.2
, Issue.2006
, pp. 0019
-
-
Del Sol, A.1
Fujihashi, H.2
Amoros, D.3
Nussinov, R.4
-
18
-
-
84855742665
-
Association between hepatitis C and hepatocellular carcinoma
-
A. D'Oliveira, C. Silva, E. De Souza, L. Andrade, R. Parana, and R. Melo Association between hepatitis C and hepatocellular carcinoma J. Glob. Infect. Dis. 1 2009 33 37
-
(2009)
J. Glob. Infect. Dis.
, vol.1
, pp. 33-37
-
-
D'Oliveira, A.1
Silva, C.2
De Souza, E.3
Andrade, L.4
Parana, R.5
Melo, R.6
-
20
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations
-
Y. Duan, C. Wu, S. Chowdhury, M.C. Lee, G. Xiong, W. Zhang, R. Yang, P. Cieplak, R. Luo, T. Lee, J. Caldwell, J. Wang, and P. Kollman A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations J. Comput. Chem. 24 2003 1999 2012
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1999-2012
-
-
Duan, Y.1
Wu, C.2
Chowdhury, S.3
Lee, M.C.4
Xiong, G.5
Zhang, W.6
Yang, R.7
Cieplak, P.8
Luo, R.9
Lee, T.10
Caldwell, J.11
Wang, J.12
Kollman, P.13
-
21
-
-
0000730887
-
Application of the RESP methodology in the parametrization of organic solvents
-
T. Fox, and P.A. Kollman Application of the RESP methodology in the parametrization of organic solvents J. Phys. Chem. B. 102 1998 8070 8079 (Pubitemid 128578425)
-
(1998)
Journal of Physical Chemistry B
, vol.102
, Issue.41
, pp. 8070-8079
-
-
Fox, T.1
Kollman, P.A.2
-
22
-
-
33750177351
-
Centrality in social networks conceptual clarification
-
L.C. Freeman Centrality in social networks conceptual clarification Soc. Netw. 1 1978 215 239
-
(1978)
Soc. Netw.
, vol.1
, pp. 215-239
-
-
Freeman, L.C.1
-
23
-
-
0036830454
-
Side effects of therapy of hepatitis C and their management
-
M.W. Fried Side effects of therapy of hepatitis C and their management Hepatology 36 2002 s237 s244
-
(2002)
Hepatology
, vol.36
-
-
Fried, M.W.1
-
24
-
-
0037179698
-
Peginterferon Alfa-2a plus ribavirin for chronic hepatitis C virus infection
-
M.W. Fried, M.L. Shiffman, K.R. Reddy, C. Smith, G. Marinos, F.L. Gonçales, D. Häussinger, M. Diago, G. Carosi, D. Dhumeaux, A. Craxi, A. Lin, J. Hoffman, and J. Yu Peginterferon Alfa-2a plus ribavirin for chronic hepatitis C virus infection N. Engl. J. Med. 347 2002 975 982
-
(2002)
N. Engl. J. Med.
, vol.347
, pp. 975-982
-
-
Fried, M.W.1
Shiffman, M.L.2
Reddy, K.R.3
Smith, C.4
Marinos, G.5
Gonçales, F.L.6
Häussinger, D.7
Diago, M.8
Carosi, G.9
Dhumeaux, D.10
Craxi, A.11
Lin, A.12
Hoffman, J.13
Yu, J.14
-
25
-
-
70450206724
-
-
Gaussian Inc. Wallingford, CT
-
M.J. Frisch, G.W. Trucks, H.B. Schlegel, G.E. Scuseria, M.A. Robb, J.R. Cheeseman, G. Scalmani, V. Barone, B. Mennucci, G.A. Petersson, H. Nakatsuji, M. Caricato, X. Li, H.P. Hratchian, A.F. Izmaylov, J. Bloino, G. Zheng, J.L. Sonnenberg, M. Hada, M. Ehara, K. Toyota, R. Fukuda, J. Hasegawa, M. Ishida, T. Nakajima, Y. Honda, O. Kitao, H. Nakai, T. Vreven, J.A. Montgomery Jr., J.E. Peralta, F. Ogliaro, M. Bearpark, J.J. Heyd, E. Brothers, K.N. Kudin, V.N. Staroverov, R. Kobayashi, J. Normand, K. Raghavachari, A. Rendell, J.C. Burant, S.S. Iyengar, J. Tomasi, M. Cossi, N. Rega, N.J. Millam, M. Klene, J.E. Knox, J.B. Cross, V. Bakken, C. Adamo, J. Jaramillo, R. Gomperts, R.E. Stratmann, O. Yazyev, A.J. Austin, R. Cammi, C. Pomelli, J.W. Ochterski, R.L. Martin, K. Morokuma, V.G. Zakrzewski, G.A. Voth, P. Salvador, J.J. Dannenberg, S. Dapprich, A.D. Daniels, Ö. Farkas, J.B. Foresman, J.V. Ortiz, J. Cioslowski, and D.J. Fox In Gaussian 09 2009 Gaussian Inc. Wallingford, CT
-
(2009)
Gaussian 09
-
-
Frisch, M.J.1
Trucks, G.W.2
Schlegel, H.B.3
Scuseria, G.E.4
Robb, M.A.5
Cheeseman, J.R.6
Scalmani, G.7
Barone, V.8
Mennucci, B.9
Petersson, G.A.10
Nakatsuji, H.11
Caricato, M.12
Li, X.13
Hratchian, H.P.14
Izmaylov, A.F.15
Bloino, J.16
Zheng, G.17
Sonnenberg, J.L.18
Hada, M.19
Ehara, M.20
Toyota, K.21
Fukuda, R.22
Hasegawa, J.23
Ishida, M.24
Nakajima, T.25
Honda, Y.26
Kitao, O.27
Nakai, H.28
Vreven, T.29
Montgomery, Jr.J.A.30
Peralta, J.E.31
Ogliaro, F.32
Bearpark, M.33
Heyd, J.J.34
Brothers, E.35
Kudin, K.N.36
Staroverov, V.N.37
Kobayashi, R.38
Normand, J.39
Raghavachari, K.40
Rendell, A.41
Burant, J.C.42
Iyengar, S.S.43
Tomasi, J.44
Cossi, M.45
Rega, N.46
Millam, N.J.47
Klene, M.48
Knox, J.E.49
Cross, J.B.50
Bakken, V.51
Adamo, C.52
Jaramillo, J.53
Gomperts, R.54
Stratmann, R.E.55
Yazyev, O.56
Austin, A.J.57
Cammi, R.58
Pomelli, C.59
Ochterski, J.W.60
Martin, R.L.61
Morokuma, K.62
Zakrzewski, V.G.63
Voth, G.A.64
Salvador, P.65
Dannenberg, J.J.66
Dapprich, S.67
Daniels, A.D.68
Farkas, Ö.69
Foresman, J.B.70
Ortiz, J.V.71
Cioslowski, J.72
Fox, D.J.73
more..
-
26
-
-
33846211117
-
Computational study of the effects of mutations A156T, D168V, and D168Q on the binding of HCV protease inhibitors
-
Z. Guo, A. Prongay, X. Tong, T. Fischmann, S. Bogen, F. Velazquez, S. Venkatraman, F.G. Njoroge, and V. Madison Computational study of the effects of mutations A156T, D168V, and D168Q on the binding of HCV protease inhibitors J. Chem. Theory Comput. 2 2006 1657 1663
-
(2006)
J. Chem. Theory Comput.
, vol.2
, pp. 1657-1663
-
-
Guo, Z.1
Prongay, A.2
Tong, X.3
Fischmann, T.4
Bogen, S.5
Velazquez, F.6
Venkatraman, S.7
Njoroge, F.G.8
Madison, V.9
-
27
-
-
1542378867
-
Peginterferon-α2a and ribavirin combination therapy in chronic hepatitis CA randomized study of treatment duration and ribavirin dose
-
S.J. Hadziyannis, J.H. Sette, T.R. Morgan, V. Balan, M. Diago, P. Marcellin, G. Ramadori, J.H. Bodenheimer, D. Bernstein, M. Rizzetto, S. Zeuzem, P.J. Pockros, A. Lin, and A.M. Ackrill Peginterferon-α2a and ribavirin combination therapy in chronic hepatitis CA randomized study of treatment duration and ribavirin dose Ann. Intern. Med. 140 2004 346 355
-
(2004)
Ann. Intern. Med.
, vol.140
, pp. 346-355
-
-
Hadziyannis, S.J.1
Sette, J.H.2
Morgan, T.R.3
Balan, V.4
Diago, M.5
Marcellin, P.6
Ramadori, G.7
Bodenheimer, J.H.8
Bernstein, D.9
Rizzetto, M.10
Zeuzem, S.11
Pockros, P.J.12
Lin, A.13
Ackrill, A.M.14
-
28
-
-
33947644064
-
Molecular dynamics and free energy studies on the wild-type and double mutant HIV-1 protease complexed with amprenavir and two amprenavir-related inhibitors: Mechanism for binding and drug resistance
-
DOI 10.1021/jm0609162
-
T. Hou, and R. Yu Molecular dynamics and free energy studies on the wild-type and double mutant HIV-1 protease complexed with amprenavir and two amprenavir-related inhibitors: mechanism for binding and drug resistance J. Med. Chem. 50 2007 1177 1188 (Pubitemid 46496318)
-
(2007)
Journal of Medicinal Chemistry
, vol.50
, Issue.6
, pp. 1177-1188
-
-
Hou, T.1
Yu, R.2
-
30
-
-
61449101624
-
Predicting drug resistance of the HIV-1 protease using molecular interaction energy components
-
T. Hou, W. Zhang, J. Wang, and W. Wang Predicting drug resistance of the HIV-1 protease using molecular interaction energy components Proteins 74 2009 837 846
-
(2009)
Proteins
, vol.74
, pp. 837-846
-
-
Hou, T.1
Zhang, W.2
Wang, J.3
Wang, W.4
-
31
-
-
84897584893
-
Understanding the drug resistance mechanism of hepatitis C virus NS5B to PF-00868554 due to mutations of 423 site: A computational study
-
10.1039/C3MB70498J
-
P. Jiao, W. Xue, Y. Shen, N. Jin, and H. Liu Understanding the drug resistance mechanism of hepatitis C virus NS5B to PF-00868554 due to mutations of 423 site: a computational study Mol. Biosyst 2013 10.1039/C3MB70498J
-
(2013)
Mol. Biosyst
-
-
Jiao, P.1
Xue, W.2
Shen, Y.3
Jin, N.4
Liu, H.5
-
32
-
-
30544444850
-
CARD games between virus and host get a new player
-
DOI 10.1016/j.it.2005.11.004, PII S1471490605002875
-
C.L. Johnson, and J.M. Gale CARD games between virus and host get a new player Trends Immunol. 27 2006 1 4 (Pubitemid 43083556)
-
(2006)
Trends in Immunology
, vol.27
, Issue.1
, pp. 1-4
-
-
Johnson, C.L.1
Gale Jr., M.2
-
33
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
W.L. Jorgensen, J. Chandrasekhar, J.D. Madura, R.W. Impey, and M.L. Klein Comparison of simple potential functions for simulating liquid water J. Chem. Phys. 79 1983 926 935
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
34
-
-
0035913529
-
Evaluation and reparametrization of the OPLS-AA force field for proteins via comparison with accurate quantum chemical calculations on peptides
-
DOI 10.1021/jp003919d
-
G.A. Kaminski, R.A. Friesner, J. Tirado-Rives, and W.L. Jorgensen Evaluation and reparametrization of the OPLS-AA force field for proteins via comparison with accurate quantum chemical calculations on peptides J. Phys. Chem. B. 105 2001 6474 6487 (Pubitemid 35339015)
-
(2001)
Journal of Physical Chemistry B
, vol.105
, Issue.28
, pp. 6474-6487
-
-
Kaminski, G.A.1
Friesner, R.A.2
Tirado-Rives, J.3
Jorgensen, W.L.4
-
35
-
-
84884257232
-
Treatment of hepatitis C virus infection in the future
-
10.1186/2001-1326-2-9
-
T. Kanda, O. Yokosuka, and M. Omata Treatment of hepatitis C virus infection in the future Clin. Transl. Med 2013 10.1186/2001-1326-2-9
-
(2013)
Clin. Transl. Med
-
-
Kanda, T.1
Yokosuka, O.2
Omata, M.3
-
36
-
-
16044364658
-
Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide
-
DOI 10.1016/S0092-8674(00)81351-3
-
J.L. Kim, K.A. Morgenstern, C. Lin, T. Fox, M.D. Dwyer, J.A. Landro, S.P. Chambers, W. Markland, C.A. Lepre, E.T. O'Malley, S.L. Harbeson, C.M. Rice, M.A. Murcko, P.R. Caron, and J.A. Thomson Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide Cell 87 1996 343 355 (Pubitemid 26359011)
-
(1996)
Cell
, vol.87
, Issue.2
, pp. 343-355
-
-
Kim, J.L.1
Morgenstern, K.A.2
Lin, C.3
Fox, T.4
Dwyer, M.D.5
Landro, J.A.6
Chambers, S.P.7
Markland, W.8
Lepre, C.A.9
O'Malley, E.T.10
Harbeson, S.L.11
Rice, C.M.12
Murcko, M.A.13
Caron, P.R.14
Thomson, J.A.15
-
37
-
-
84893969635
-
Preclinical characterization of a novel, potent, and pharmacokinetically appealing nonnucleoside inhibitor of HCV NS5B polymerase. 58th Annu
-
L. Kirkovsky, Y. Zhou, A. Shah, M. Tsan, L. LeBrun, M. Sergeeva, D. Norris, D. Bartkowski, T. Nolan, and J. Khandurina Preclinical characterization of a novel, potent, and pharmacokinetically appealing nonnucleoside inhibitor of HCV NS5B polymerase. 58th Annu Meet. Am. Assoc. Study Liver Dis 2007
-
(2007)
Meet. Am. Assoc. Study Liver Dis
-
-
Kirkovsky, L.1
Zhou, Y.2
Shah, A.3
Tsan, M.4
Lebrun, L.5
Sergeeva, M.6
Norris, D.7
Bartkowski, D.8
Nolan, T.9
Khandurina, J.10
-
38
-
-
84864592321
-
Boceprevir: A novel NS3/4 protease inhibitor for the treatment of hepatitis C
-
O.M. Klibanov, S.B. Vickery, J.L. Olin, L.S. Smith, and S.H. Williams Boceprevir: a novel NS3/4 protease inhibitor for the treatment of hepatitis C Pharmacotherapy 32 2012 173 190
-
(2012)
Pharmacotherapy
, vol.32
, pp. 173-190
-
-
Klibanov, O.M.1
Vickery, S.B.2
Olin, J.L.3
Smith, L.S.4
Williams, S.H.5
-
39
-
-
0034521981
-
Calculating structures and free energies of complex molecules: Combining molecular mechanics and continuum models
-
DOI 10.1021/ar000033j
-
P.A. Kollman, I. Massova, C. Reyes, B. Kuhn, S. Huo, L. Chong, M. Lee, T. Lee, Y. Duan, W. Wang, O. Donini, P. Cieplak, J. Srinivasan, D.A. Case, and T.E. Cheatham Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models Acc. Chem. Res. 33 2000 889 897 (Pubitemid 32056774)
-
(2000)
Accounts of Chemical Research
, vol.33
, Issue.12
, pp. 889-897
-
-
Kollman, P.A.1
Massova, I.2
Reyes, C.3
Kuhn, B.4
Huo, S.5
Chong, L.6
Lee, M.7
Lee, T.8
Duan, Y.9
Wang, W.10
Donini, O.11
-
40
-
-
33744930847
-
Selection and characterization of replicon variants dually resistant to thumb- and palm-binding nonnucleoside polymerase inhibitors of the hepatitis C virus
-
DOI 10.1128/JVI.02628-05
-
S. Le Pogam, H. Kang, S.F. Harris, V. Leveque, A.M. Giannetti, S. Ali, W.-R. Jiang, S. Rajyaguru, G. Tavares, C. Oshiro, T. Hendricks, K. Klumpp, J. Symons, M.F. Browner, N. Cammack, and I. Nájera Selection and characterization of replicon variants dually resistant to thumb- and palm-binding nonnucleoside polymerase inhibitors of the hepatitis C virus J. Virol. 80 2006 6146 6154 (Pubitemid 43849192)
-
(2006)
Journal of Virology
, vol.80
, Issue.12
, pp. 6146-6154
-
-
Le Pogam, S.1
Kang, H.2
Harris, S.F.3
Leveque, V.4
Giannetti, A.M.5
Ali, S.6
Jiang, W.-R.7
Rajyaguru, S.8
Tavares, G.9
Oshiro, C.10
Hendricks, T.11
Klumpp, K.12
Symons, J.13
Browner, M.F.14
Cammack, N.15
Najera, I.16
-
41
-
-
0032876683
-
Crystal structure of the RNA-dependent RNA polymerase from hepatitis C virus reveals a fully encircled active site
-
DOI 10.1038/13305
-
C.A. Lesburg, M.B. Cable, E. Ferrari, Z. Hong, A.F. Mannarino, and P.C. Weber Crystal structure of the RNA-dependent RNA polymerase from hepatitis C virus reveals a fully encircled active site Nat. Struct. Mol. Biol. 6 1999 937 943 (Pubitemid 29463307)
-
(1999)
Nature Structural Biology
, vol.6
, Issue.10
, pp. 937-943
-
-
Lesburg, C.A.1
Cable, M.B.2
Ferrari, E.3
Hong, Z.4
Mannarino, A.F.5
Weber, P.C.6
-
42
-
-
84867759741
-
Theoretical studies on the susceptibility of oseltamivir against variants of 2009 A/H1N1 influenza neuraminidase
-
L. Li, Y. Li, L. Zhang, and T. Hou Theoretical studies on the susceptibility of oseltamivir against variants of 2009 A/H1N1 influenza neuraminidase J. Chem. Inf. Model. 52 2012 2715 2729
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 2715-2729
-
-
Li, L.1
Li, Y.2
Zhang, L.3
Hou, T.4
-
43
-
-
77953267929
-
In silico identification of the potential drug resistance sites over 2009 influenza A (H1N1) virus neuraminidase
-
H. Liu, X. Yao, C. Wang, and J. Han In silico identification of the potential drug resistance sites over 2009 influenza A (H1N1) virus neuraminidase Mol. Pharm. 7 2010 894 904
-
(2010)
Mol. Pharm.
, vol.7
, pp. 894-904
-
-
Liu, H.1
Yao, X.2
Wang, C.3
Han, J.4
-
45
-
-
0030592514
-
The crystal structure of hepatitis C virus NS3 proteinase reveals a trypsin-like fold and a structural zinc binding site
-
DOI 10.1016/S0092-8674(00)81350-1
-
R.A. Love, H.E. Parge, J.A. Wickersham, Z. Hostomsky, N. Habuka, E.W. Moomaw, T. Adachi, and Z. Hostomska The crystal structure of hepatitis C virus NS3 proteinase reveals a trypsin-like fold and a structural zinc binding site Cell 87 1996 331 342 (Pubitemid 26359010)
-
(1996)
Cell
, vol.87
, Issue.2
, pp. 331-342
-
-
Love, R.A.1
Parge, H.E.2
Wickersham, J.A.3
Hostomsky, Z.4
Habuka, N.5
Moomaw, E.W.6
Adachi, T.7
Hostomska, Z.8
-
46
-
-
0034084991
-
Combined molecular mechanical and continuum solvent approach (MM- PBSA/GBSA) to predict ligand binding
-
DOI 10.1023/A:1008763014207
-
I. Massova, and P. Kollman Combined molecular mechanical and continuum solvent approach (MM-PBSA/GBSA) to predict ligand binding Perspect. Drug Discov. 18 2000 113 135 (Pubitemid 30191024)
-
(2000)
Perspectives in Drug Discovery and Design
, vol.18
, pp. 113-135
-
-
Massova, I.1
Kollman, P.A.2
-
47
-
-
84866184057
-
Telaprevir: A hepatitis C NS3/4A protease inhibitor
-
S.J. Matthews, and J.W. Lancaster Telaprevir: a hepatitis C NS3/4A protease inhibitor Clin. Ther. 34 2012 1857 1882
-
(2012)
Clin. Ther.
, vol.34
, pp. 1857-1882
-
-
Matthews, S.J.1
Lancaster, J.W.2
-
48
-
-
79551596261
-
Hepatitis C - Pipeline update
-
I. Melnikova Hepatitis C - pipeline update Nat. Rev. Drug Discov. 10 2011 93 94
-
(2011)
Nat. Rev. Drug Discov.
, vol.10
, pp. 93-94
-
-
Melnikova, I.1
-
49
-
-
69049091942
-
Identification and biological evaluation of a series of 1H-benzo[de]isoquinoline-1,3(2H)-diones as hepatitis C virus NS5B polymerase inhibitors
-
J.M. Ontoria, E.H. Rydberg, S. Di Marco, L. Tomei, B. Attenni, S. Malancona, J.I. Martin Hernando, N. Gennari, U. Koch, F. Narjes, M. Rowley, V. Summa, S.S. Carroll, D.B. Olsen, R. De Francesco, S. Altamura, G. Migliaccio, and A. Carfì Identification and biological evaluation of a series of 1H-benzo[de]isoquinoline-1,3(2H)-diones as hepatitis C virus NS5B polymerase inhibitors J. Med. Chem. 52 2009 5217 5227
-
(2009)
J. Med. Chem.
, vol.52
, pp. 5217-5227
-
-
Ontoria, J.M.1
Rydberg, E.H.2
Di Marco, S.3
Tomei, L.4
Attenni, B.5
Malancona, S.6
Martin Hernando, J.I.7
Gennari, N.8
Koch, U.9
Narjes, F.10
Rowley, M.11
Summa, V.12
Carroll, S.S.13
Olsen, D.B.14
De Francesco, R.15
Altamura, S.16
Migliaccio, G.17
Carfì, A.18
-
50
-
-
20644449471
-
Modification of the generalized born model suitable for macromolecules
-
A. Onufriev, D. Bashford, and D.A. Case Modification of the generalized born model suitable for macromolecules J. Phys. Chem. B. 104 2000 3712 3720
-
(2000)
J. Phys. Chem. B.
, vol.104
, pp. 3712-3720
-
-
Onufriev, A.1
Bashford, D.2
Case, D.A.3
-
51
-
-
80255127591
-
Prediction of zanamivir efficiency over the possible 2009 influenza A (H1N1) mutants by multiple molecular dynamics simulations and free energy calculations
-
D. Pan, H. Sun, C. Bai, Y. Shen, N. Jin, H. Liu, and X. Yao Prediction of zanamivir efficiency over the possible 2009 influenza A (H1N1) mutants by multiple molecular dynamics simulations and free energy calculations J. Mol. Model. 17 2011 2465 2473
-
(2011)
J. Mol. Model.
, vol.17
, pp. 2465-2473
-
-
Pan, D.1
Sun, H.2
Bai, C.3
Shen, Y.4
Jin, N.5
Liu, H.6
Yao, X.7
-
52
-
-
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
-
D. Pan, W. Xue, W. Zhang, H. Liu, and X. Yao 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 1820 2012 1526 1534
-
(2012)
Biochim. Biophys. Acta
, vol.1820
, pp. 1526-1534
-
-
Pan, D.1
Xue, W.2
Zhang, W.3
Liu, H.4
Yao, X.5
-
53
-
-
0029633186
-
AMBER, a package of computer programs for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to simulate the structural and energetic properties of molecules
-
D.A. Pearlman, D.A. Case, J.W. Caldwell, W.S. Ross, T.E. Cheatham Iii, S. DeBolt, D. Ferguson, G. Seibel, and P. Kollman AMBER, a package of computer programs for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to simulate the structural and energetic properties of molecules Comput. Phys. Commun. 91 1995 1 41
-
(1995)
Comput. Phys. Commun.
, vol.91
, pp. 1-41
-
-
Pearlman, D.A.1
Case, D.A.2
Caldwell, J.W.3
Ross, W.S.4
Cheatham III, T.E.5
Debolt, S.6
Ferguson, D.7
Seibel, G.8
Kollman, P.9
-
54
-
-
2542586266
-
A molecular basis for the selectivity of thiadiazole urea inhibitors with stromelysin-1 and gelatinase-A from generalized born molecular dynamics simulations
-
DOI 10.1021/jm030570k
-
R.C. Rizzo, S. Toba, and I.D. Kuntz A molecular basis for the selectivity of thiadiazole urea inhibitors with stromelysin-1 and gelatinase-A from generalized born molecular dynamics simulations J. Med. Chem. 47 2004 3065 3074 (Pubitemid 38702702)
-
(2004)
Journal of Medicinal Chemistry
, vol.47
, Issue.12
, pp. 3065-3074
-
-
Rizzo, R.C.1
Toba, S.2
Kuntz, I.D.3
-
55
-
-
0035913537
-
Extending the applicability of the nonlinear Poisson-Boltzmann equation: Multiple dielectric constants and multivalent ions
-
DOI 10.1021/jp010454y
-
W. Rocchia, E. Alexov, and B. Honig Extending the applicability of the nonlinear poisson-boltzmann equation: multiple dielectric constants and multivalent ions J. Phys. Chem. B. 105 2001 6507 6514 (Pubitemid 35339019)
-
(2001)
Journal of Physical Chemistry B
, vol.105
, Issue.28
, pp. 6507-6514
-
-
Rocchia, W.1
Alexov, E.2
Honig, B.3
-
56
-
-
71049181073
-
Discovery of tricyclic 5,6-dihydro-1H-pyridin-2-ones as novel, potent, and orally bioavailable inhibitors of HCV NS5B polymerase
-
F. Ruebsam, D.E. Murphy, C.V. Tran, L.-S. Li, J. Zhao, P.S. Dragovich, H.M. McGuire, A.X. Xiang, Z. Sun, B.K. Ayida, J.K. Blazel, S.H. Kim, Y. Zhou, Q. Han, C.R. Kissinger, S.E. Webber, R.E. Showalter, A.M. Shah, M. Tsan, R.A. Patel, P.A. Thompson, L.A. LeBrun, H.J. Hou, R. Kamran, M.V. Sergeeva, D.M. Bartkowski, T.G. Nolan, D.A. Norris, J. Khandurina, J. Brooks, E. Okamoto, and L. Kirkovsky Discovery of tricyclic 5,6-dihydro-1H-pyridin-2-ones as novel, potent, and orally bioavailable inhibitors of HCV NS5B polymerase Bioorg. Med. Chem. Lett. 19 2009 6404 6412
-
(2009)
Bioorg. Med. Chem. Lett.
, vol.19
, pp. 6404-6412
-
-
Ruebsam, F.1
Murphy, D.E.2
Tran, C.V.3
Li, L.-S.4
Zhao, J.5
Dragovich, P.S.6
McGuire, H.M.7
Xiang, A.X.8
Sun, Z.9
Ayida, B.K.10
Blazel, J.K.11
Kim, S.H.12
Zhou, Y.13
Han, Q.14
Kissinger, C.R.15
Webber, S.E.16
Showalter, R.E.17
Shah, A.M.18
Tsan, M.19
Patel, R.A.20
Thompson, P.A.21
Lebrun, L.A.22
Hou, H.J.23
Kamran, R.24
Sergeeva, M.V.25
Bartkowski, D.M.26
Nolan, T.G.27
Norris, D.A.28
Khandurina, J.29
Brooks, J.30
Okamoto, E.31
Kirkovsky, L.32
more..
-
57
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
J.-P. Ryckaert, G. Ciccotti, and H.J.C. Berendsen Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes J. Comput. Phys. 23 1977 327 341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
58
-
-
77956319507
-
-
Schrödinger LLC New York, NY
-
Schrödinger Maestro, Version 9.0 2009 Schrödinger LLC New York, NY
-
(2009)
Maestro, Version 9.0
-
-
-
59
-
-
77953323157
-
-
Schrödinger LLC New York, NY
-
Schrödinger LigPrep, Version 2.3 2009 Schrödinger LLC New York, NY
-
(2009)
LigPrep, Version 2.3
-
-
-
60
-
-
79951669686
-
-
Schrödinger LLC New York, NY
-
Schrödinger Epik, Version 2.0 2009 Schrödinger LLC New York, NY
-
(2009)
Epik, Version 2.0
-
-
-
61
-
-
84856283332
-
-
Schrödinger LLC New York, NY
-
Schrödinger Prime Version 2.1 2009 Schrödinger LLC New York, NY
-
(2009)
Prime Version 2.1
-
-
-
62
-
-
77949825974
-
-
Schrödinger LLC New York, NY
-
Schrödinger Glide, Version 5.5 2009 Schrödinger LLC New York, NY
-
(2009)
Glide, Version 5.5
-
-
-
63
-
-
0242490780
-
Cytoscape: A software Environment for integrated models of biomolecular interaction networks
-
DOI 10.1101/gr.1239303
-
P. Shannon, A. Markiel, O. Ozier, N.S. Baliga, J.T. Wang, D. Ramage, N. Amin, B. Schwikowski, and T. Ideker Cytoscape: a software environment for integrated models of biomolecular interaction networks Genome Res. 13 2003 2498 2504 (Pubitemid 37428274)
-
(2003)
Genome Research
, vol.13
, Issue.11
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
Amin, N.7
Schwikowski, B.8
Ideker, T.9
-
64
-
-
32844457567
-
Accurate calculation of hydration free energies using macroscopic solvent models
-
D. Sitkoff, K.A. Sharp, and B. Honig Accurate calculation of hydration free energies using macroscopic solvent models J. Phys. Chem. 98 1994 1978 1988
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 1978-1988
-
-
Sitkoff, D.1
Sharp, K.A.2
Honig, B.3
-
65
-
-
84858722318
-
Nucleoside, nucleotide, and non-nucleoside inhibitors of hepatitis C virus NS5B RNA-dependent RNA-polymerase
-
M.J. Sofia, W. Chang, P.A. Furman, R.T. Mosley, and B.S. Ross Nucleoside, nucleotide, and non-nucleoside inhibitors of hepatitis C virus NS5B RNA-dependent RNA-polymerase J. Med. Chem. 55 2011 2481 2531
-
(2011)
J. Med. Chem.
, vol.55
, pp. 2481-2531
-
-
Sofia, M.J.1
Chang, W.2
Furman, P.A.3
Mosley, R.T.4
Ross, B.S.5
-
66
-
-
84877905656
-
Hepatitis C therapy with HCV NS5B polymerase inhibitors
-
V. Soriano, E. Vispo, C. de Mendoza, P. Labarga, J.V. Fernandez-Montero, E. Poveda, A. Treviño, and P. Barreiro Hepatitis C therapy with HCV NS5B polymerase inhibitors Expert Opin. Pharmacother. 14 2013 1161 1170
-
(2013)
Expert Opin. Pharmacother.
, vol.14
, pp. 1161-1170
-
-
Soriano, V.1
Vispo, E.2
De Mendoza, C.3
Labarga, P.4
Fernandez-Montero, J.V.5
Poveda, E.6
Treviño, A.7
Barreiro, P.8
-
67
-
-
39749152456
-
Rapid and accurate prediction of binding free energies for saquinavir-bound HIV-1 proteases
-
DOI 10.1021/ja0779250
-
I. Stoica, S.K. Sadiq, and P.V. Coveney Rapid and accurate prediction of binding free energies for saquinavir-bound HIV-1 proteases J. Am. Chem. Soc. 130 2008 2639 2648 (Pubitemid 351304779)
-
(2008)
Journal of the American Chemical Society
, vol.130
, Issue.8
, pp. 2639-2648
-
-
Stoica, I.1
Sadiq, S.K.2
Coveney, P.V.3
-
68
-
-
19644393931
-
Structure of the zinc-binding domain of an essential component of the hepatitis C virus replicase
-
DOI 10.1038/nature03580
-
T.L. Tellinghuisen, J. Marcotrigiano, and C.M. Rice Structure of the zinc-binding domain of an essential component of the hepatitis C virus replicase Nature 435 2005 374 379 (Pubitemid 40745549)
-
(2005)
Nature
, vol.435
, Issue.7040
, pp. 374-379
-
-
Tellinghuisen, T.L.1
Marcotrigiano, J.2
Rice, C.M.3
-
69
-
-
14244273182
-
Theory and applications of the Generalized Born solvation model in macromolecular simulations
-
DOI 10.1002/1097-0282(2000)56:4<275::AID-BIP10024>3.0.CO;2-E
-
V. Tsui, and D.A. Case Theory and applications of the generalized born solvation model in macromolecular simulations Biopolymers 56 2000 275 291 (Pubitemid 34105875)
-
(2000)
Biopolymers
, vol.56
, Issue.4
, pp. 275-291
-
-
Tsui, V.1
Case, D.A.2
-
70
-
-
41349118690
-
Small-world view of the amino acids that play a key role in protein folding
-
M. Vendruscolo, N.V. Dokholyan, E. Paci, and M. Karplus Small-world view of the amino acids that play a key role in protein folding Phys. Rev. E 65 2002 061910
-
(2002)
Phys. Rev. e
, vol.65
, pp. 061910
-
-
Vendruscolo, M.1
Dokholyan, N.V.2
Paci, E.3
Karplus, M.4
-
71
-
-
84867774216
-
Molecular basis of drug resistance in A/H1N1 virus
-
A. Vergara-Jaque, H. Poblete, E.H. Lee, K. Schulten, F. González-Nilo, and C. Chipot Molecular basis of drug resistance in A/H1N1 virus J. Chem. Inf. Model. 52 2012 2650 2656
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 2650-2656
-
-
Vergara-Jaque, A.1
Poblete, H.2
Lee, E.H.3
Schulten, K.4
González-Nilo, F.5
Chipot, C.6
-
72
-
-
65649089458
-
Intra and inter-molecular communications through protein structure
-
S. Vishveshwara Intra and inter-molecular communications through protein structure Curr. Protein Pept. Sci. 10 2009 146 160
-
(2009)
Curr. Protein Pept. Sci.
, vol.10
, pp. 146-160
-
-
Vishveshwara, S.1
-
73
-
-
2942532422
-
Development and testing of a general amber force field
-
J. Wang, R.M. Wolf, J.W. Caldwell, P.A. Kollman, and D.A. Case Development and testing of a general amber force field J. Comput. Chem. 25 2004 1157 1174
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1157-1174
-
-
Wang, J.1
Wolf, R.M.2
Caldwell, J.W.3
Kollman, P.A.4
Case, D.A.5
-
74
-
-
46249102168
-
Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of the hepatitis C virus
-
C. Welsch, F. Domingues, S. Susser, I. Antes, C. Hartmann, G. Mayr, A. Schlicker, C. Sarrazin, M. Albrecht, S. Zeuzem, and T. Lengauer Molecular basis of telaprevir resistance due to V36 and T54 mutations in the NS3-4A protease of the hepatitis C virus Genome Biol. 9 2008 R16
-
(2008)
Genome Biol.
, vol.9
, pp. 16
-
-
Welsch, C.1
Domingues, F.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
-
75
-
-
84863351272
-
Ketoamide resistance and hepatitis C virus fitness in Val55 variants of the NS3 serine protease
-
C. Welsch, S. Schweizer, T. Shimakami, F.S. Domingues, S. Kim, S.M. Lemon, and I. Antes Ketoamide resistance and hepatitis C virus fitness in Val55 variants of the NS3 serine protease Antimicrob. Agents Chemother. 56 2012 1907 1915
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 1907-1915
-
-
Welsch, C.1
Schweizer, S.2
Shimakami, T.3
Domingues, F.S.4
Kim, S.5
Lemon, S.M.6
Antes, I.7
-
76
-
-
0033613812
-
Visualizing and quantifying molecular goodness-of-fit: Small-probe contact dots with explicit hydrogen atoms
-
DOI 10.1006/jmbi.1998.2400
-
J.M. Word, S.C. Lovell, T.H. LaBean, H.C. Taylor, M.E. Zalis, B.K. Presley, J.S. Richardson, and D.C. Richardson Visualizing and quantifying molecular goodness-of-fit: small-probe contact dots with explicit hydrogen atoms J. Mol. Biol. 285 1999 1711 1733 (Pubitemid 29060466)
-
(1999)
Journal of Molecular Biology
, vol.285
, Issue.4
, pp. 1711-1733
-
-
Word, J.M.1
Lovell, S.C.2
Labean, T.H.3
Taylor, H.C.4
Zalis, M.E.5
Presley, B.K.6
Richardson, J.S.7
Richardson, D.C.8
-
77
-
-
0033614004
-
Asparagine and glutamine: Using hydrogen atom contacts in the choice of side-chain amide orientation
-
DOI 10.1006/jmbi.1998.2401
-
J.M. Word, S.C. Lovell, J.S. Richardson, and D.C. Richardson Asparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation J. Mol. Biol. 285 1999 1735 1747 (Pubitemid 29060467)
-
(1999)
Journal of Molecular Biology
, vol.285
, Issue.4
, pp. 1735-1747
-
-
Word, J.M.1
Lovell, S.C.2
Richardson, J.S.3
Richardson, D.C.4
-
78
-
-
84873025050
-
Exploring the molecular mechanism of cross-resistance to HIV-1 integrase strand transfer inhibitors by molecular dynamics simulation and residue interaction network analysis
-
W. Xue, X. Jin, L. Ning, M. Wang, H. Liu, and X. Yao Exploring the molecular mechanism of cross-resistance to HIV-1 integrase strand transfer inhibitors by molecular dynamics simulation and residue interaction network analysis J. Chem. Inf. Model. 53 2012 210 222
-
(2012)
J. Chem. Inf. Model.
, vol.53
, pp. 210-222
-
-
Xue, W.1
Jin, X.2
Ning, L.3
Wang, M.4
Liu, H.5
Yao, X.6
-
79
-
-
84865724768
-
Understanding the structural and energetic basis of inhibitor and substrate bound to the full-length NS3/4A: Insights from molecular dynamics simulation, binding free energy calculation and network analysis
-
W. Xue, M. Wang, X. Jin, H. Liu, and X. Yao Understanding the structural and energetic basis of inhibitor and substrate bound to the full-length NS3/4A: insights from molecular dynamics simulation, binding free energy calculation and network analysis Mol. Biosyst. 8 2012 2753 2765
-
(2012)
Mol. Biosyst.
, vol.8
, pp. 2753-2765
-
-
Xue, W.1
Wang, M.2
Jin, X.3
Liu, H.4
Yao, X.5
-
80
-
-
84890444876
-
Computational study on the drug resistance mechanism against HCV NS3/4A protease inhibitors vaniprevir and MK-5172 by the combination use of molecular dynamics simulation, residue interaction network, and substrate envelope analysis
-
10.1021/ci400060j
-
W. Xue, Y. Ban, H. Liu, and X. Yao Computational study on the drug resistance mechanism against HCV NS3/4A protease inhibitors vaniprevir and MK-5172 by the combination use of molecular dynamics simulation, residue interaction network, and substrate envelope analysis J. Chem. Inf. Model 2013 10.1021/ci400060j
-
(2013)
J. Chem. Inf. Model
-
-
Xue, W.1
Ban, Y.2
Liu, H.3
Yao, X.4
-
81
-
-
0033571623
-
Molecular views of viral polyprotein processing revealed by the crystal structure of the hepatitis C virus bifunctional protease-helicase
-
DOI 10.1016/S0969-2126(00)80025-8
-
N. Yao, P. Reichert, S.S. Taremi, W.W. Prosise, and P.C. Weber Molecular views of viral polyprotein processing revealed by the crystal structure of the hepatitis C virus bifunctional protease-helicase Structure 7 1999 1353 1363 (Pubitemid 29529876)
-
(1999)
Structure
, vol.7
, Issue.11
, pp. 1353-1363
-
-
Yao, N.1
Reichert, P.2
Taremi, S.S.3
Prosise, W.W.4
Weber, P.C.5
-
82
-
-
84862920391
-
Biochemical study of the comparative inhibition of hepatitis C virus RNA polymerase by VX-222 and filibuvir
-
G. Yi, J. Deval, B. Fan, H. Cai, C. Soulard, C.T. Ranjith-Kumar, D.B. Smith, L. Blatt, L. Beigelman, and C.C. Kao Biochemical study of the comparative inhibition of hepatitis C virus RNA polymerase by VX-222 and filibuvir Antimicrob. Agents Chemother. 56 2012 830 837
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 830-837
-
-
Yi, G.1
Deval, J.2
Fan, B.3
Cai, H.4
Soulard, C.5
Ranjith-Kumar, C.T.6
Smith, D.B.7
Blatt, L.8
Beigelman, L.9
Kao, C.C.10
-
83
-
-
33845357608
-
An algorithm for modularity analysis of directed and weighted biological networks based on edge-betweenness centrality
-
DOI 10.1093/bioinformatics/btl533
-
J. Yoon, A. Blumer, and K. Lee An algorithm for modularity analysis of directed and weighted biological networks based on edge-betweenness centrality Bioinformatics 22 2006 3106 3108 (Pubitemid 44884091)
-
(2006)
Bioinformatics
, vol.22
, Issue.24
, pp. 3106-3108
-
-
Yoon, J.1
Blumer, A.2
Lee, K.3
-
84
-
-
76549102880
-
Detecting and understanding combinatorial mutation patterns responsible for HIV drug resistance
-
J. Zhang, T. Hou, W. Wang, and J.S. Liu Detecting and understanding combinatorial mutation patterns responsible for HIV drug resistance Proc. Natl. Acad. Sci. USA 107 2010 1321 1326
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 1321-1326
-
-
Zhang, J.1
Hou, T.2
Wang, W.3
Liu, J.S.4
-
85
-
-
29144436035
-
Effect of a bound non-nucleoside RT inhibitor on the dynamics of wild-type and mutant HIV-1 reverse transcriptase
-
DOI 10.1021/ja053973d
-
Z. Zhou, M. Madrid, J.D. Evanseck, and J.D. Madura Effect of a bound non-nucleoside RT inhibitor on the dynamics of wild-type and mutant HIV-1 reverse transcriptase J. Am. Chem. Soc. 127 2005 17253 17260 (Pubitemid 41794061)
-
(2005)
Journal of the American Chemical Society
, vol.127
, Issue.49
, pp. 17253-17260
-
-
Zhou, Z.1
Madrid, M.2
Evanseck, J.D.3
Madura, J.D.4
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