-
1
-
-
0020596551
-
Isolation of a T-lymphotropic retrovirus from a patient at risk for acquired immune deficiency syndrome (AIDS)
-
Barre-Sinoussi, F.; Chermann, J.; Rey, F.; Nugeyre, M.; Chamaret, S.; Gruest, J.; Dauguet, C.; Axler-Blin, C.; Vezinet-Brun, F.; Rouzioux, C.; Rozenbaum, W.; Montagnier, L. Isolation of a T-lymphotropic retrovirus from a patient at risk for acquired immune deficiency syndrome (AIDS) Science 1983, 220, 868-871
-
(1983)
Science
, vol.220
, pp. 868-871
-
-
Barre-Sinoussi, F.1
Chermann, J.2
Rey, F.3
Nugeyre, M.4
Chamaret, S.5
Gruest, J.6
Dauguet, C.7
Axler-Blin, C.8
Vezinet-Brun, F.9
Rouzioux, C.10
Rozenbaum, W.11
Montagnier, L.12
-
2
-
-
0021281132
-
Serological analysis of a subgroup of human T-lymphotropic retroviruses (HTLV-III) associated with AIDS
-
Schupbach, J.; Popovic, M.; Gilden, R.; Gonda, M.; Sarngadharan, M.; Gallo, R. Serological analysis of a subgroup of human T-lymphotropic retroviruses (HTLV-III) associated with AIDS Science 1984, 224, 503-505
-
(1984)
Science
, vol.224
, pp. 503-505
-
-
Schupbach, J.1
Popovic, M.2
Gilden, R.3
Gonda, M.4
Sarngadharan, M.5
Gallo, R.6
-
3
-
-
0027250808
-
How does HIV cause AIDS?
-
Weiss, R. How does HIV cause AIDS? Science 1993, 260, 1273-1279
-
(1993)
Science
, vol.260
, pp. 1273-1279
-
-
Weiss, R.1
-
4
-
-
33747122666
-
Treatment for adult hiv infection: 2006 recommendations of the international aids society-usa panel
-
Hammer Sm, S. M. S. S. M. Treatment for adult hiv infection: 2006 recommendations of the international aids society-usa panel J. Am. Med. Assoc. 2006, 296, 827-843
-
(2006)
J. Am. Med. Assoc.
, vol.296
, pp. 827-843
-
-
Hammer Sm, S.M.S.S.M.1
-
5
-
-
63449124466
-
Emerging Concepts in the Immunopathogenesis of AIDS
-
Douek, D. C.; Roederer, M.; Koup, R. A. Emerging Concepts in the Immunopathogenesis of AIDS Annu. Rev. Med. 2009, 60, 471-484
-
(2009)
Annu. Rev. Med.
, vol.60
, pp. 471-484
-
-
Douek, D.C.1
Roederer, M.2
Koup, R.A.3
-
6
-
-
13044295993
-
Structure of the HIV-1 integrase catalytic domain complexed with an inhibitor: A platform for antiviral drug design
-
Goldgur, Y.; Craigie, R.; Cohen, G. H.; Fujiwara, T.; Yoshinaga, T.; Fujishita, T.; Sugimoto, H.; Endo, T.; Murai, H.; Davies, D. R. Structure of the HIV-1 integrase catalytic domain complexed with an inhibitor: A platform for antiviral drug design Proc. Natl. Acad. Sci. 1999, 96, 13040-13043
-
(1999)
Proc. Natl. Acad. Sci.
, vol.96
, pp. 13040-13043
-
-
Goldgur, Y.1
Craigie, R.2
Cohen, G.H.3
Fujiwara, T.4
Yoshinaga, T.5
Fujishita, T.6
Sugimoto, H.7
Endo, T.8
Murai, H.9
Davies, D.R.10
-
7
-
-
1842607357
-
Discovery of a Novel Binding Trench in HIV Integrase
-
Schames, J. R.; Henchman, R. H.; Siegel, J. S.; Sotriffer, C. A.; Ni, H.; McCammon, J. A. Discovery of a Novel Binding Trench in HIV Integrase J. Med. Chem. 2004, 47, 1879-1881
-
(2004)
J. Med. Chem.
, vol.47
, pp. 1879-1881
-
-
Schames, J.R.1
Henchman, R.H.2
Siegel, J.S.3
Sotriffer, C.A.4
Ni, H.5
McCammon, J.A.6
-
8
-
-
52449097240
-
Discovery of Raltegravir, a Potent, Selective Orally Bioavailable HIV-Integrase Inhibitor for the Treatment of HIV-AIDS Infection
-
Summa, V.; Petrocchi, A.; Bonelli, F.; Crescenzi, B.; Donghi, M.; Ferrara, M.; Fiore, F.; Gardelli, C.; Gonzalez Paz, O.; Hazuda, D. J.; Jones, P.; Kinzel, O.; Laufer, R.; Monteagudo, E.; Muraglia, E.; Nizi, E.; Orvieto, F.; Pace, P.; Pescatore, G.; Scarpelli, R.; Stillmock, K.; Witmer, M. V.; Rowley, M. Discovery of Raltegravir, a Potent, Selective Orally Bioavailable HIV-Integrase Inhibitor for the Treatment of HIV-AIDS Infection J. Med. Chem. 2008, 51, 5843-5855
-
(2008)
J. Med. Chem.
, vol.51
, pp. 5843-5855
-
-
Summa, V.1
Petrocchi, A.2
Bonelli, F.3
Crescenzi, B.4
Donghi, M.5
Ferrara, M.6
Fiore, F.7
Gardelli, C.8
Gonzalez Paz, O.9
Hazuda, D.J.10
Jones, P.11
Kinzel, O.12
Laufer, R.13
Monteagudo, E.14
Muraglia, E.15
Nizi, E.16
Orvieto, F.17
Pace, P.18
Pescatore, G.19
Scarpelli, R.20
Stillmock, K.21
Witmer, M.V.22
Rowley, M.23
more..
-
9
-
-
0032601403
-
HIV-1 Integrase: Structural Organization, Conformational Changes, and Catalysis
-
Karl Rlaramorosch, F. A. M. Aaron, J. S. Academic Press: Philadelphia
-
Asante-Appiah, E.; Skalka, A. M. HIV-1 Integrase: Structural Organization, Conformational Changes, and Catalysis. In Advances in Virus Research; Karl Rlaramorosch, F. A. M.; Aaron, J. S., Eds.; Academic Press: Philadelphia, 1999; pp 351-369.
-
(1999)
Advances in Virus Research
, pp. 351-369
-
-
Asante-Appiah, E.1
Skalka, A.M.2
-
10
-
-
0028067324
-
The core and carboxyl-terminal domains of the integrase protein of human immunodeficiency virus type 1 each contribute to nonspecific DNA binding
-
Engelman, A.; Hickman, A. B.; Craigie, R. The core and carboxyl-terminal domains of the integrase protein of human immunodeficiency virus type 1 each contribute to nonspecific DNA binding J. Virol. 1994, 68, 5911-5917
-
(1994)
J. Virol.
, vol.68
, pp. 5911-5917
-
-
Engelman, A.1
Hickman, A.B.2
Craigie, R.3
-
11
-
-
0028790504
-
Enhanced and coordinated processing of synapsed viral DNA ends by retroviral integrases in vitro
-
Kukolj, G.; Skalka, A. M. Enhanced and coordinated processing of synapsed viral DNA ends by retroviral integrases in vitro Gene. Dev. 1995, 9, 2556-2567
-
(1995)
Gene. Dev.
, vol.9
, pp. 2556-2567
-
-
Kukolj, G.1
Skalka, A.M.2
-
12
-
-
34147116231
-
Raltegravir: A new antiretroviral class for salvage therapy
-
Cahn, P.; Sued, O. Raltegravir: a new antiretroviral class for salvage therapy The Lancet 2007, 369, 1235-1236
-
(2007)
The Lancet
, vol.369
, pp. 1235-1236
-
-
Cahn, P.1
Sued, O.2
-
13
-
-
33748113778
-
Antiviral Activity, Pharmacokinetics, and Dose Response of the HIV-1 Integrase Inhibitor GS-9137 (JTK-303) in Treatment-Naive and Treatment-Experienced Patients
-
DeJesus, E.; Berger, D.; Markowitz, M.; Cohen, C.; Hawkins, T.; Ruane, P.; Elion, R.; Farthing, C.; Zhong, L.; Cheng, A. K.; McColl, D.; Kearney, B. P. Team, f. t.-S. Antiviral Activity, Pharmacokinetics, and Dose Response of the HIV-1 Integrase Inhibitor GS-9137 (JTK-303) in Treatment-Naive and Treatment-Experienced Patients J. Acquir. Immune Defic. Syndr. 2006, 43, 1-5
-
(2006)
J. Acquir. Immune Defic. Syndr.
, vol.43
, pp. 1-5
-
-
Dejesus, E.1
Berger, D.2
Markowitz, M.3
Cohen, C.4
Hawkins, T.5
Ruane, P.6
Elion, R.7
Farthing, C.8
Zhong, L.9
Cheng, A.K.10
McColl, D.11
Kearney, B.P.12
-
14
-
-
78751697293
-
In Vitro Antiretroviral Properties of S/GSK1349572, a Next-Generation HIV Integrase Inhibitor
-
Kobayashi, M.; Yoshinaga, T.; Seki, T.; Wakasa-Morimoto, C.; Brown, K. W.; Ferris, R.; Foster, S. A.; Hazen, R. J.; Miki, S.; Suyama-Kagitani, A.; Kawauchi-Miki, S.; Taishi, T.; Kawasuji, T.; Johns, B. A.; Underwood, M. R.; Garvey, E. P.; Sato, A.; Fujiwara, T. In Vitro Antiretroviral Properties of S/GSK1349572, a Next-Generation HIV Integrase Inhibitor Antimicrob. Agents Chemother. 2011, 55, 813-821
-
(2011)
Antimicrob. Agents Chemother.
, vol.55
, pp. 813-821
-
-
Kobayashi, M.1
Yoshinaga, T.2
Seki, T.3
Wakasa-Morimoto, C.4
Brown, K.W.5
Ferris, R.6
Foster, S.A.7
Hazen, R.J.8
Miki, S.9
Suyama-Kagitani, A.10
Kawauchi-Miki, S.11
Taishi, T.12
Kawasuji, T.13
Johns, B.A.14
Underwood, M.R.15
Garvey, E.P.16
Sato, A.17
Fujiwara, T.18
-
15
-
-
79952692134
-
S/GSK1349572, a new integrase inhibitor for the treatment of HIV: Promises and challenges
-
Lenz, J. C. C.; Rockstroh, J. K. S/GSK1349572, a new integrase inhibitor for the treatment of HIV: promises and challenges Expert. Opin. Investig. Drugs 2011, 20, 537-548
-
(2011)
Expert. Opin. Investig. Drugs
, vol.20
, pp. 537-548
-
-
Lenz, J.C.C.1
Rockstroh, J.K.2
-
16
-
-
70350154011
-
Integrase inhibitors in salvage therapy regimens for HIV-1 infection
-
Koelsch, K. K.; Cooper, D. A. Integrase inhibitors in salvage therapy regimens for HIV-1 infection Curr. Opin. HIV AIDS 2009, 4, 518-523
-
(2009)
Curr. Opin. HIV AIDS
, vol.4
, pp. 518-523
-
-
Koelsch, K.K.1
Cooper, D.A.2
-
18
-
-
84862285709
-
The elvitegravir Quad pill: The first once-daily dual-target anti-HIV tablet
-
Marchand, C. The elvitegravir Quad pill: the first once-daily dual-target anti-HIV tablet Expert. Opin. Investig. Drugs 2012, 21, 901-904
-
(2012)
Expert. Opin. Investig. Drugs
, vol.21
, pp. 901-904
-
-
Marchand, C.1
-
19
-
-
79952174789
-
Modeling the HIV-1 Intasome: A Prototype View of the Target of Integrase Inhibitors
-
Yin, Z.; Craigie, R. Modeling the HIV-1 Intasome: A Prototype View of the Target of Integrase Inhibitors Viruses 2010, 2, 2777-2781
-
(2010)
Viruses
, vol.2
, pp. 2777-2781
-
-
Yin, Z.1
Craigie, R.2
-
20
-
-
74049103073
-
HIV-1 in Inhibitors: 2010 Update and Perspectives
-
Marchand, C.; Maddali, K.; Metifiot, M.; Pommier, Y. HIV-1 IN Inhibitors: 2010 Update and Perspectives Curr. Top. Med. Chem. 2009, 9, 1016-1037
-
(2009)
Curr. Top. Med. Chem.
, vol.9
, pp. 1016-1037
-
-
Marchand, C.1
Maddali, K.2
Metifiot, M.3
Pommier, Y.4
-
21
-
-
79954626457
-
HIV-1 Integrase Inhibitor Resistance and Its Clinical Implications
-
Blanco, J.-L.; Varghese, V.; Rhee, S.-Y.; Gatell, J. M.; Shafer, R. W. HIV-1 Integrase Inhibitor Resistance and Its Clinical Implications J. Infect. Dis. 2011, 203, 1204-1214
-
(2011)
J. Infect. Dis.
, vol.203
, pp. 1204-1214
-
-
Blanco, J.-L.1
Varghese, V.2
Rhee, S.-Y.3
Gatell, J.M.4
Shafer, R.W.5
-
22
-
-
51549116289
-
Comparison of Raltegravir and Elvitegravir on HIV-1 Integrase Catalytic Reactions and on a Series of Drug-Resistant Integrase Mutants
-
Marinello, J.; Marchand, C.; Mott, B. T.; Bain, A.; Thomas, C. J.; Pommier, Y. Comparison of Raltegravir and Elvitegravir on HIV-1 Integrase Catalytic Reactions and on a Series of Drug-Resistant Integrase Mutants Biochemistry 2008, 47, 9345-9354
-
(2008)
Biochemistry
, vol.47
, pp. 9345-9354
-
-
Marinello, J.1
Marchand, C.2
Mott, B.T.3
Bain, A.4
Thomas, C.J.5
Pommier, Y.6
-
23
-
-
78650640149
-
Cross-Resistance Profile Determination of Two Second-Generation HIV-1 Integrase Inhibitors Using a Panel of Recombinant Viruses Derived from Raltegravir-Treated Clinical Isolates
-
Van Wesenbeeck, L.; Rondelez, E.; Feyaerts, M.; Verheyen, A.; Van der Borght, K.; Smits, V.; Cleybergh, C.; De Wolf, H.; Van Baelen, K.; Stuyver, L. J. Cross-Resistance Profile Determination of Two Second-Generation HIV-1 Integrase Inhibitors Using a Panel of Recombinant Viruses Derived from Raltegravir-Treated Clinical Isolates Antimicrob. Agents Chemother. 2011, 55, 321-325
-
(2011)
Antimicrob. Agents Chemother.
, vol.55
, pp. 321-325
-
-
Van Wesenbeeck, L.1
Rondelez, E.2
Feyaerts, M.3
Verheyen, A.4
Van Der Borght, K.5
Smits, V.6
Cleybergh, C.7
De Wolf, H.8
Van Baelen, K.9
Stuyver, L.J.10
-
24
-
-
80155188567
-
Cross-resistance Profile of the Novel Integrase Inhibitor Dolutegravir (S/GSK1349572) Using Clonal Viral Variants Selected in Patients Failing Raltegravir
-
Canducci, F.; Ceresola, E. R.; Boeri, E.; Spagnuolo, V.; Cossarini, F.; Castagna, A.; Lazzarin, A.; Clementi, M. Cross-resistance Profile of the Novel Integrase Inhibitor Dolutegravir (S/GSK1349572) Using Clonal Viral Variants Selected in Patients Failing Raltegravir J. Infect. Dis. 2011, 204, 1811-1815
-
(2011)
J. Infect. Dis.
, vol.204
, pp. 1811-1815
-
-
Canducci, F.1
Ceresola, E.R.2
Boeri, E.3
Spagnuolo, V.4
Cossarini, F.5
Castagna, A.6
Lazzarin, A.7
Clementi, M.8
-
25
-
-
0037339235
-
Molecular Dynamics Studies of the Wild-Type and Double Mutant HIV-1 Integrase Complexed with the 5CITEP Inhibitor: Mechanism for Inhibition and Drug Resistance
-
Barreca, M. L.; Lee, K. W.; Chimirri, A.; Briggs, J. M. Molecular Dynamics Studies of the Wild-Type and Double Mutant HIV-1 Integrase Complexed with the 5CITEP Inhibitor: Mechanism for Inhibition and Drug Resistance Biophys. J. 2003, 84, 1450-1463
-
(2003)
Biophys. J.
, vol.84
, pp. 1450-1463
-
-
Barreca, M.L.1
Lee, K.W.2
Chimirri, A.3
Briggs, J.M.4
-
26
-
-
65249096623
-
Study of the Conformational Dynamics of the Catalytic Loop of WT and G140A/G149A HIV-1 Integrase Core Domain Using Reversible Digitally Filtered Molecular Dynamics
-
Williams, S. L.; Essex, J. W. Study of the Conformational Dynamics of the Catalytic Loop of WT and G140A/G149A HIV-1 Integrase Core Domain Using Reversible Digitally Filtered Molecular Dynamics J. Chem. Theory Comput. 2009, 5, 411-421
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 411-421
-
-
Williams, S.L.1
Essex, J.W.2
-
27
-
-
77951994096
-
Molecular Dynamics Simulations of the HIV-1 Integrase Dimerization Interface: Guidelines for the Design of a Novel Class of Integrase Inhibitors
-
Sippel, M.; Sotriffer, C. A. Molecular Dynamics Simulations of the HIV-1 Integrase Dimerization Interface: Guidelines for the Design of a Novel Class of Integrase Inhibitors J. Chem. Inf. Model. 2010, 50, 604-614
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 604-614
-
-
Sippel, M.1
Sotriffer, C.A.2
-
28
-
-
77649183663
-
A Dynamic Model of HIV Integrase Inhibition and Drug Resistance
-
Perryman, A. L.; Forli, S.; Morris, G. M.; Burt, C.; Cheng, Y.; Palmer, M. J.; Whitby, K.; McCammon, J. A.; Phillips, C.; Olson, A. J. A Dynamic Model of HIV Integrase Inhibition and Drug Resistance J. Mol. Biol. 2010, 397, 600-615
-
(2010)
J. Mol. Biol.
, vol.397
, pp. 600-615
-
-
Perryman, A.L.1
Forli, S.2
Morris, G.M.3
Burt, C.4
Cheng, Y.5
Palmer, M.J.6
Whitby, K.7
McCammon, J.A.8
Phillips, C.9
Olson, A.J.10
-
29
-
-
79955870873
-
Binding modes of diketo-acid inhibitors of HIV-1 integrase: A comparative molecular dynamics simulation study
-
Huang, M.; Grant, G. H.; Richards, W. G. Binding modes of diketo-acid inhibitors of HIV-1 integrase: A comparative molecular dynamics simulation study J. Mol. Graph. Model. 2011, 29, 956-964
-
(2011)
J. Mol. Graph. Model.
, vol.29
, pp. 956-964
-
-
Huang, M.1
Grant, G.H.2
Richards, W.G.3
-
30
-
-
0033546149
-
Multiple Integrase Functions Are Required to Form the Native Structure of the Human Immunodeficiency Virus Type i Intasome
-
Chen, H.; Wei, S.-Q.; Engelman, A. Multiple Integrase Functions Are Required to Form the Native Structure of the Human Immunodeficiency Virus Type I Intasome J. Biol. Chem. 1999, 274, 17358-17364
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 17358-17364
-
-
Chen, H.1
Wei, S.-Q.2
Engelman, A.3
-
31
-
-
33645285267
-
Retroviral DNA integration: Reaction pathway and critical intermediates
-
Li, M.; Mizuuchi, M.; Burke, T. R.; Craigie, R. Retroviral DNA integration: reaction pathway and critical intermediates Embo. J. 2006, 25, 1295-1304
-
(2006)
Embo. J.
, vol.25
, pp. 1295-1304
-
-
Li, M.1
Mizuuchi, M.2
Burke, T.R.3
Craigie, R.4
-
32
-
-
77957670046
-
Structure-based modeling of the functional HIV-1 intasome and its inhibition
-
Krishnan, L.; Li, X.; Naraharisetty, H. L.; Hare, S.; Cherepanov, P.; Engelman, A. Structure-based modeling of the functional HIV-1 intasome and its inhibition Proc. Natl. Acad. Sci. 2010, 107, 15910-15915
-
(2010)
Proc. Natl. Acad. Sci.
, vol.107
, pp. 15910-15915
-
-
Krishnan, L.1
Li, X.2
Naraharisetty, H.L.3
Hare, S.4
Cherepanov, P.5
Engelman, A.6
-
33
-
-
84856226122
-
Molecular mechanism of HIV-1 integrase-vDNA interactions and strand transfer inhibitor action: A molecular modeling perspective
-
Xue, W.; Liu, H.; Yao, X. Molecular mechanism of HIV-1 integrase-vDNA interactions and strand transfer inhibitor action: A molecular modeling perspective J. Comput. Chem. 2012, 33, 527-536
-
(2012)
J. Comput. Chem.
, vol.33
, pp. 527-536
-
-
Xue, W.1
Liu, H.2
Yao, X.3
-
34
-
-
78951476418
-
Resistance to inhibitors of the human immunodeficiency virus type 1 integration
-
Hazuda, D. J. Resistance to inhibitors of the human immunodeficiency virus type 1 integration Braz. J. Infect. Dis. 2010, 14, 513-518
-
(2010)
Braz. J. Infect. Dis.
, vol.14
, pp. 513-518
-
-
Hazuda, D.J.1
-
35
-
-
77949365510
-
Retroviral intasome assembly and inhibition of DNA strand transfer
-
Hare, S.; Gupta, S. S.; Valkov, E.; Engelman, A.; Cherepanov, P. Retroviral intasome assembly and inhibition of DNA strand transfer Nature 2010, 464, 232-236
-
(2010)
Nature
, vol.464
, pp. 232-236
-
-
Hare, S.1
Gupta, S.S.2
Valkov, E.3
Engelman, A.4
Cherepanov, P.5
-
36
-
-
78650533230
-
Molecular mechanisms of retroviral integrase inhibition and the evolution of viral resistance
-
Hare, S.; Vos, A. M.; Clayton, R. F.; Thuring, J. W.; Cummings, M. D.; Cherepanov, P. Molecular mechanisms of retroviral integrase inhibition and the evolution of viral resistance Proc. Natl. Acad. Sci. 2010, 107, 20057-20062
-
(2010)
Proc. Natl. Acad. Sci.
, vol.107
, pp. 20057-20062
-
-
Hare, S.1
Vos, A.M.2
Clayton, R.F.3
Thuring, J.W.4
Cummings, M.D.5
Cherepanov, P.6
-
37
-
-
80054678089
-
MK-0536 Inhibits HIV-1 Integrases Resistant to Raltegravir
-
Métifiot, M.; Johnson, B.; Smith, S.; Zhao, X. Z.; Marchand, C.; Burke, T.; Hughes, S.; Pommier, Y. MK-0536 Inhibits HIV-1 Integrases Resistant to Raltegravir Antimicrob. Agents Chemother. 2011, 55, 5127-5133
-
(2011)
Antimicrob. Agents Chemother.
, vol.55
, pp. 5127-5133
-
-
Métifiot, M.1
Johnson, B.2
Smith, S.3
Zhao, X.Z.4
Marchand, C.5
Burke, T.6
Hughes, S.7
Pommier, Y.8
-
38
-
-
84455192537
-
Molecular Dynamics Approaches Estimate the Binding Energy of HIV-1 Integrase Inhibitors and Correlate with in Vitro Activity
-
Johnson, B. C.; Metifiot, M.; Pommier, Y.; Hughes, S. H. Molecular Dynamics Approaches Estimate the Binding Energy of HIV-1 Integrase Inhibitors and Correlate with In Vitro Activity Antimicrob. Agents Chemother. 2012, 56, 411-419
-
(2012)
Antimicrob. Agents Chemother.
, vol.56
, pp. 411-419
-
-
Johnson, B.C.1
Metifiot, M.2
Pommier, Y.3
Hughes, S.H.4
-
39
-
-
84863653124
-
Understanding the effect of drug-resistant mutations of HIV-1 intasome on raltegravir action through molecular modeling study
-
Xue, W.; Qi, J.; Yang, Y.; Jin, X.; Liu, H.; Yao, X. Understanding the effect of drug-resistant mutations of HIV-1 intasome on raltegravir action through molecular modeling study Mol. Biosyst. 2012, 8, 2135-2144
-
(2012)
Mol. Biosyst.
, vol.8
, pp. 2135-2144
-
-
Xue, W.1
Qi, J.2
Yang, Y.3
Jin, X.4
Liu, H.5
Yao, X.6
-
40
-
-
78650533230
-
Molecular mechanisms of retroviral integrase inhibition and the evolution of viral resistance
-
Hare, S.; Vos, A. M.; Clayton, R. F.; Thuring, J. W.; Cummings, M. D.; Cherepanov, P. Molecular mechanisms of retroviral integrase inhibition and the evolution of viral resistance Proc. Natl. Acad. Sci. 2010, 107, 20057-20062
-
(2010)
Proc. Natl. Acad. Sci.
, vol.107
, pp. 20057-20062
-
-
Hare, S.1
Vos, A.M.2
Clayton, R.F.3
Thuring, J.W.4
Cummings, M.D.5
Cherepanov, P.6
-
41
-
-
0029878720
-
VMD: Visual molecular dynamics
-
Humphrey, W.; Dalke, A.; Schulten, K. VMD: Visual molecular dynamics J. Mol. Graph. 1996, 14, 33-38
-
(1996)
J. Mol. Graph.
, vol.14
, pp. 33-38
-
-
Humphrey, W.1
Dalke, A.2
Schulten, K.3
-
42
-
-
80052847538
-
Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir (S/GSK1349572)
-
Hare, S.; Smith, S. J.; Métifiot, M.; Jaxa-Chamiec, A.; Pommier, Y.; Hughes, S. H.; Cherepanov, P. Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir (S/GSK1349572) Mol. Pharmacol. 2011, 80, 565-572
-
(2011)
Mol. Pharmacol.
, vol.80
, pp. 565-572
-
-
Hare, S.1
Smith, S.J.2
Métifiot, M.3
Jaxa-Chamiec, A.4
Pommier, Y.5
Hughes, S.H.6
Cherepanov, P.7
-
43
-
-
0031473847
-
SWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling
-
Guex, N.; Peitsch, M. C. SWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling Electrophoresis 1997, 18, 2714-2723
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
44
-
-
79955574923
-
-
Version 0.99rc6; DeLano Scientific LLC: Palo Alto, CA.
-
The PyMOL Molecular Graphics System, Version 0.99rc6; DeLano Scientific LLC: Palo Alto, CA. 2008.
-
(2008)
The PyMOL Molecular Graphics System
-
-
-
45
-
-
84873031478
-
-
AMBER 10; University of California, San Francisco.
-
Case, D. A.; Darden, T. A.; Cheatham, T. E., III; Simmerling, C. L.; Wang, J.; Duke, R. E.; Luo, R.; Crowley, M.; Walker, R. C.; Zhang, W.; Merz, K. M.; Wang, B.; Hayik, S.; Roitberg, A.; Seabra, G.; Kolossváry, I.; Wong, K. F.; Paesani, F.; Vanicek, J.; Wu, X.; Brozell, S. R.; Steinbrecher, T.; Gohlke, H.; Yang, L.; Tan, C.; Mongan, J.; Hornak, V.; Cui, G.; Mathews, D. H.; Seetin, M. G.; Sagui, C.; Babin, V.; Kollman, P. A. AMBER 10; University of California, San Francisco, 2008.
-
(2008)
-
-
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..
-
46
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R. W.; Klein, M. L. Comparison of simple potential functions for simulating liquid water J. Chem. Phys. 1983, 79, 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
-
47
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations
-
Duan, Y.; Wu, C.; Chowdhury, S.; Lee, M. C.; Xiong, G.; Zhang, W.; Yang, R.; Cieplak, P.; Luo, R.; Lee, T.; Caldwell, J.; Wang, J.; Kollman, P. A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations J. Comput. Chem. 2003, 24, 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
-
48
-
-
0029115487
-
Zinc binding in proteins and solution: A simple but accurate nonbonded representation
-
Stote, R. H.; Karplus, M. Zinc binding in proteins and solution: A simple but accurate nonbonded representation Proteins: Struct. Funct. Bioinform. 1995, 23, 12-31
-
(1995)
Proteins: Struct. Funct. Bioinform.
, vol.23
, pp. 12-31
-
-
Stote, R.H.1
Karplus, M.2
-
49
-
-
2942532422
-
Development and testing of a general amber force field
-
Wang, J.; Wolf, R. M.; Caldwell, J. W.; Kollman, P. A.; Case, D. A. Development and testing of a general amber force field J. Comput. Chem. 2004, 25, 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
-
50
-
-
3042524904
-
A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: The RESP model
-
Bayly, C. I.; Cieplak, P.; Cornell, W.; Kollman, P. A. A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges: the RESP model J. Phys. Chem. 1993, 97, 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
-
51
-
-
84986516411
-
Application of the multimolecule and multiconformational RESP methodology to biopolymers: Charge derivation for DNA, RNA, and proteins
-
Cieplak, P.; Cornell, W. D.; Bayly, C.; Kollman, P. A. Application of the multimolecule and multiconformational RESP methodology to biopolymers: Charge derivation for DNA, RNA, and proteins J. Comput. Chem. 1995, 16, 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
-
52
-
-
0000730887
-
Application of the RESP Methodology in the Parametrization of Organic Solvents
-
Fox, T.; Kollman, P. A. Application of the RESP Methodology in the Parametrization of Organic Solvents J. Phys. Chem. B 1998, 102, 8070-8079
-
(1998)
J. Phys. Chem. B
, vol.102
, pp. 8070-8079
-
-
Fox, T.1
Kollman, P.A.2
-
53
-
-
84873027917
-
-
Gaussian 09; Gaussian, Inc. Wallingford, CT.
-
Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; Scuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Scalmani, G.; Barone, V.; Mennucci, B.; Petersson, G. A.; Nakatsuji, H.; Caricato, M.; Li, X.; Hratchian, H. P.; Izmaylov, A. F.; Bloino, J.; Zheng, G.; Sonnenberg, J. L.; Hada, M.; Ehara, M.; Toyota, K.; Fukuda, R.; Hasegawa, J.; Ishida, M.; Nakajima, T.; Honda, Y.; Kitao, O.; Nakai, H.; Vreven, T.; Montgomery, J. A., Jr.; Peralta, J. E.; Ogliaro, F.; Bearpark, M.; Heyd, J. J.; Brothers, E.; Kudin, K. N.; Staroverov, V. N.; Kobayashi, R.; Normand, J.; Raghavachari, K.; Rendell, A.; Burant, J. C.; Iyengar, S. S.; Tomasi, J.; Cossi, M.; Rega, N.; Millam, N. J.; Klene, M.; Knox, J. E.; Cross, J. B.; Bakken, V.; Adamo, C.; Jaramillo, J.; Gomperts, R.; Stratmann, R. E.; Yazyev, O.; Austin, A. J.; Cammi, R.; Pomelli, C.; Ochterski, J. W.; Martin, R. L.; Morokuma, K.; Zakrzewski, V. G.; Voth, G. A.; Salvador, P.; Dannenberg, J. J.; Dapprich, S.; Daniels, A. D.; Farkas, Ö.; Foresman, J. B.; Ortiz, J. V.; Cioslowski, J.; Fox, D. J. Gaussian 09; Gaussian, Inc.: Wallingford, CT, 2009.
-
(2009)
-
-
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..
-
54
-
-
33846823909
-
Particle mesh Ewald: An N·log(N) method for Ewald sums in large systems
-
Darden, T.; York, D.; Pedersen, L. Particle mesh Ewald: An N·log(N) method for Ewald sums in large systems J. Chem. Phys. 1993, 98, 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
55
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J.-P.; Ciccotti, G.; Berendsen, H. J. C. Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes J. Comput. Phys. 1977, 23, 327-341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
56
-
-
0034521981
-
Calculating Structures and Free Energies of Complex Molecules: Combining Molecular Mechanics and Continuum Models
-
Kollman, P. A.; Massova, I.; Reyes, C.; Kuhn, B.; Huo, S.; Chong, L.; Lee, M.; Lee, T.; Duan, Y.; Wang, W.; Donini, O.; Cieplak, P.; Srinivasan, J.; Case, D. A.; Cheatham, T. E. Calculating Structures and Free Energies of Complex Molecules: Combining Molecular Mechanics and Continuum Models Acc. Chem. Res. 2000, 33, 889-897
-
(2000)
Acc. Chem. Res.
, vol.33
, 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
Cieplak, P.12
Srinivasan, J.13
Case, D.A.14
Cheatham, T.E.15
-
57
-
-
0034084991
-
Combined molecular mechanical and continuum solvent approach (MM-PBSA/GBSA) to predict ligand binding
-
Massova, I.; Kollman, P. Combined molecular mechanical and continuum solvent approach (MM-PBSA/GBSA) to predict ligand binding Perspect. Drug Discov. 2000, 18, 113-135
-
(2000)
Perspect. Drug Discov.
, vol.18
, pp. 113-135
-
-
Massova, I.1
Kollman, P.2
-
58
-
-
14244273182
-
Theory and applications of the generalized born solvation model in macromolecular simulations
-
Tsui, V.; Case, D. A. Theory and applications of the generalized born solvation model in macromolecular simulations Biopolymers 2000, 56, 275-291
-
(2000)
Biopolymers
, vol.56
, pp. 275-291
-
-
Tsui, V.1
Case, D.A.2
-
59
-
-
20644449471
-
Modification of the Generalized Born Model Suitable for Macromolecules
-
Onufriev, A.; Bashford, D.; Case, D. A. Modification of the Generalized Born Model Suitable for Macromolecules J. Phys. Chem. B 2000, 104, 3712-3720
-
(2000)
J. Phys. Chem. B
, vol.104
, pp. 3712-3720
-
-
Onufriev, A.1
Bashford, D.2
Case, D.A.3
-
60
-
-
0043245780
-
Insights into Protein-Protein Binding by Binding Free Energy Calculation and Free Energy Decomposition for the Ras-Raf and Ras-RalGDS Complexes
-
Gohlke, H.; Kiel, C.; Case, D. A. Insights into Protein-Protein Binding by Binding Free Energy Calculation and Free Energy Decomposition for the Ras-Raf and Ras-RalGDS Complexes J. Mol. Biol. 2003, 330, 891-913
-
(2003)
J. Mol. Biol.
, vol.330
, pp. 891-913
-
-
Gohlke, H.1
Kiel, C.2
Case, D.A.3
-
61
-
-
2542586266
-
A Molecular Basis for the Selectivity of Thiadiazole Urea Inhibitors with Stromelysin-1 and Gelatinase-A from Generalized Born Molecular Dynamics Simulations
-
Rizzo, R. C.; Toba, S.; Kuntz, I. D. 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. 2004, 47, 3065-3074
-
(2004)
J. Med. Chem.
, vol.47
, pp. 3065-3074
-
-
Rizzo, R.C.1
Toba, S.2
Kuntz, I.D.3
-
62
-
-
84961979116
-
Affinity and Specificity of Protein U1A-RNA Complex Formation Based on an Additive Component Free Energy Model
-
Kormos, B. L.; Benitex, Y.; Baranger, A. M.; Beveridge, D. L. Affinity and Specificity of Protein U1A-RNA Complex Formation Based on an Additive Component Free Energy Model J. Mol. Biol. 2007, 371, 1405-1419
-
(2007)
J. Mol. Biol.
, vol.371
, pp. 1405-1419
-
-
Kormos, B.L.1
Benitex, Y.2
Baranger, A.M.3
Beveridge, D.L.4
-
63
-
-
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
-
Hou, T.; Yu, R. 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. 2007, 50, 1177-1188
-
(2007)
J. Med. Chem.
, vol.50
, pp. 1177-1188
-
-
Hou, T.1
Yu, R.2
-
64
-
-
57749118013
-
Origins of Resistance Conferred by the R292K Neuraminidase Mutation via Molecular Dynamics and Free Energy Calculations
-
Chachra, R.; Rizzo, R. C. Origins of Resistance Conferred by the R292K Neuraminidase Mutation via Molecular Dynamics and Free Energy Calculations J. Chem. Theory Comput. 2008, 4, 1526-1540
-
(2008)
J. Chem. Theory Comput.
, vol.4
, pp. 1526-1540
-
-
Chachra, R.1
Rizzo, R.C.2
-
65
-
-
61449101624
-
Predicting drug resistance of the HIV-1 protease using molecular interaction energy components
-
Hou, T.; Zhang, W.; Wang, J.; Wang, W. Predicting drug resistance of the HIV-1 protease using molecular interaction energy components Proteins: Struct. Funct. Bioinform. 2009, 74, 837-846
-
(2009)
Proteins: Struct. Funct. Bioinform.
, vol.74
, pp. 837-846
-
-
Hou, T.1
Zhang, W.2
Wang, J.3
Wang, W.4
-
66
-
-
77953267929
-
In Silico Identification of the Potential Drug Resistance Sites over 2009 Influenza A (H1N1) Virus Neuraminidase
-
Liu, H.; Yao, X.; Wang, C.; Han, J. In Silico Identification of the Potential Drug Resistance Sites over 2009 Influenza A (H1N1) Virus Neuraminidase Mol. Pharmaceutics 2010, 7, 894-904
-
(2010)
Mol. Pharmaceutics
, vol.7
, pp. 894-904
-
-
Liu, H.1
Yao, X.2
Wang, C.3
Han, J.4
-
67
-
-
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
-
68
-
-
32844457567
-
Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models
-
Sitkoff, D.; Sharp, K. A.; Honig, B. Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models J. Phys. Chem. 1994, 98, 1978-1988
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 1978-1988
-
-
Sitkoff, D.1
Sharp, K.A.2
Honig, B.3
-
69
-
-
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
-
Pearlman, D. A.; Case, D. A.; Caldwell, J. W.; Ross, W. S.; Cheatham, T. E., Iii; DeBolt, S.; Ferguson, D.; Seibel, G.; Kollman, P. 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. 1995, 91, 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
-
70
-
-
1842479952
-
Exploring protein native states and large-scale conformational changes with a modified generalized born model
-
Onufriev, A.; Bashford, D.; Case, D. A. Exploring protein native states and large-scale conformational changes with a modified generalized born model Proteins: Struct. Funct. Bioinform. 2004, 55, 383-394
-
(2004)
Proteins: Struct. Funct. Bioinform.
, vol.55
, pp. 383-394
-
-
Onufriev, A.1
Bashford, D.2
Case, D.A.3
-
71
-
-
0033614004
-
Asparagine and glutamine: Using hydrogen atom contacts in the choice of side-chain amide orientation
-
Word, J. M.; Lovell, S. C.; Richardson, J. S.; Richardson, D. C. Asparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation J. Mol. Biol. 1999, 285, 1735-1747
-
(1999)
J. Mol. Biol.
, vol.285
, pp. 1735-1747
-
-
Word, J.M.1
Lovell, S.C.2
Richardson, J.S.3
Richardson, D.C.4
-
72
-
-
0033613812
-
Visualizing and quantifying molecular goodness-of-fit: Small-probe contact dots with explicit hydrogen atoms
-
Word, J. M.; Lovell, S. C.; LaBean, T. H.; Taylor, H. C.; Zalis, M. E.; Presley, B. K.; Richardson, J. S.; Richardson, D. C. Visualizing and quantifying molecular goodness-of-fit: small-probe contact dots with explicit hydrogen atoms J. Mol. Biol. 1999, 285, 1711-1733
-
(1999)
J. Mol. Biol.
, vol.285
, 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
-
73
-
-
0242490780
-
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
-
Shannon, P.; Markiel, A.; Ozier, O.; Baliga, N. S.; Wang, J. T.; Ramage, D.; Amin, N.; Schwikowski, B.; Ideker, T. Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks Genome Res. 2003, 13, 2498-2504
-
(2003)
Genome Res.
, vol.13
, 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
-
74
-
-
79954415213
-
Analyzing and visualizing residue networks of protein structures
-
Doncheva, N. T.; Klein, K.; Domingues, F. S.; Albrecht, M. Analyzing and visualizing residue networks of protein structures Trends. Biochem. Sci. 2011, 36, 179-182
-
(2011)
Trends. Biochem. Sci.
, vol.36
, pp. 179-182
-
-
Doncheva, N.T.1
Klein, K.2
Domingues, F.S.3
Albrecht, M.4
-
75
-
-
38349164409
-
Computing topological parameters of biological networks
-
Assenov, Y.; Ramírez, F.; Schelhorn, S.-E.; Lengauer, T.; Albrecht, M. Computing topological parameters of biological networks Bioinformatics 2008, 24, 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
-
76
-
-
0029017919
-
Catalytic domain of human immunodeficiency virus type 1 integrase: Identification of a soluble mutant by systematic replacement of hydrophobic residues
-
Jenkins, T. M.; Hickman, A. B.; Dyda, F.; Ghirlando, R.; Davies, D. R.; Craigie, R. Catalytic domain of human immunodeficiency virus type 1 integrase: identification of a soluble mutant by systematic replacement of hydrophobic residues Proc. Natl. Acad. Sci. 1995, 92, 6057-6061
-
(1995)
Proc. Natl. Acad. Sci.
, vol.92
, pp. 6057-6061
-
-
Jenkins, T.M.1
Hickman, A.B.2
Dyda, F.3
Ghirlando, R.4
Davies, D.R.5
Craigie, R.6
-
77
-
-
27444447888
-
Pharmacophore-Based Design of HIV-1 Integrase Strand-Transfer Inhibitors
-
Barreca, M. L.; Ferro, S.; Rao, A.; De Luca, L.; Zappalà, M.; Monforte, A.-M.; Debyser, Z.; Witvrouw, M.; Chimirri, A. Pharmacophore-Based Design of HIV-1 Integrase Strand-Transfer Inhibitors J. Med. Chem. 2005, 48, 7084-7088
-
(2005)
J. Med. Chem.
, vol.48
, pp. 7084-7088
-
-
Barreca, M.L.1
Ferro, S.2
Rao, A.3
De Luca, L.4
Zappalà, M.5
Monforte, A.-M.6
Debyser, Z.7
Witvrouw, M.8
Chimirri, A.9
-
78
-
-
65349190685
-
Examination of halogen substituent effects on HIV-1 integrase inhibitors derived from 2,3-dihydro-6,7-dihydroxy-1H-isoindol-1-ones and 4,5-dihydroxy-1H-isoindole-1,3(2H)-diones
-
Zhao, X. Z.; Maddali, K.; Christie Vu, B.; Marchand, C.; Hughes, S. H.; Pommier, Y.; Burke, T. R., Jr Examination of halogen substituent effects on HIV-1 integrase inhibitors derived from 2,3-dihydro-6,7-dihydroxy-1H-isoindol-1- ones and 4,5-dihydroxy-1H-isoindole-1,3(2H)-diones Bioorg. Med. Chem. Lett. 2009, 19, 2714-2717
-
(2009)
Bioorg. Med. Chem. Lett.
, vol.19
, pp. 2714-2717
-
-
Zhao, X.Z.1
Maddali, K.2
Christie Vu, B.3
Marchand, C.4
Hughes, S.H.5
Pommier, Y.6
Burke, Jr.T.R.7
-
79
-
-
77953022020
-
Primary mutations selected in vitro with raltegravir confer large fold changes in susceptibility to first-generation integrase inhibitors, but minor fold changes to inhibitors with second-generation resistance profiles
-
Goethals, O.; Vos, A.; Van Ginderen, M.; Geluykens, P.; Smits, V.; Schols, D.; Hertogs, K.; Clayton, R. Primary mutations selected in vitro with raltegravir confer large fold changes in susceptibility to first-generation integrase inhibitors, but minor fold changes to inhibitors with second-generation resistance profiles Virology 2010, 402, 338-346
-
(2010)
Virology
, vol.402
, pp. 338-346
-
-
Goethals, O.1
Vos, A.2
Van Ginderen, M.3
Geluykens, P.4
Smits, V.5
Schols, D.6
Hertogs, K.7
Clayton, R.8
-
80
-
-
77956017859
-
Identification of Novel Mutations Responsible for Resistance to MK-2048, a Second-Generation HIV-1 Integrase Inhibitor
-
Bar-Magen, T.; Sloan, R. D.; Donahue, D. A.; Kuhl, B. D.; Zabeida, A.; Xu, H.; Oliveira, M.; Hazuda, D. J.; Wainberg, M. A. Identification of Novel Mutations Responsible for Resistance to MK-2048, a Second-Generation HIV-1 Integrase Inhibitor J. Virol. 2010, 84, 9210-9216
-
(2010)
J. Virol.
, vol.84
, pp. 9210-9216
-
-
Bar-Magen, T.1
Sloan, R.D.2
Donahue, D.A.3
Kuhl, B.D.4
Zabeida, A.5
Xu, H.6
Oliveira, M.7
Hazuda, D.J.8
Wainberg, M.A.9
-
81
-
-
58149154667
-
The Terminal (Catalytic) Adenosine of the HIV LTR Controls the Kinetics of Binding and Dissociation of HIV Integrase Strand Transfer Inhibitors
-
Langley, D. R.; Samanta, H. K.; Lin, Z.; Walker, M. A.; Krystal, M. R.; Dicker, I. B. The Terminal (Catalytic) Adenosine of the HIV LTR Controls the Kinetics of Binding and Dissociation of HIV Integrase Strand Transfer Inhibitors Biochemistry 2008, 47, 13481-13488
-
(2008)
Biochemistry
, vol.47
, pp. 13481-13488
-
-
Langley, D.R.1
Samanta, H.K.2
Lin, Z.3
Walker, M.A.4
Krystal, M.R.5
Dicker, I.B.6
-
83
-
-
0037076324
-
Diketo acid inhibitor mechanism and HIV-1 integrase: Implications for metal binding in the active site of phosphotransferase enzymes
-
Grobler, J. A.; Stillmock, K.; Hu, B.; Witmer, M.; Felock, P.; Espeseth, A. S.; Wolfe, A.; Egbertson, M.; Bourgeois, M.; Melamed, J.; Wai, J. S.; Young, S.; Vacca, J.; Hazuda, D. J. Diketo acid inhibitor mechanism and HIV-1 integrase: Implications for metal binding in the active site of phosphotransferase enzymes Proc. Natl. Acad. Sci. 2002, 99, 6661-6666
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 6661-6666
-
-
Grobler, J.A.1
Stillmock, K.2
Hu, B.3
Witmer, M.4
Felock, P.5
Espeseth, A.S.6
Wolfe, A.7
Egbertson, M.8
Bourgeois, M.9
Melamed, J.10
Wai, J.S.11
Young, S.12
Vacca, J.13
Hazuda, D.J.14
-
84
-
-
3843108916
-
A naphthyridine carboxamide provides evidence for discordant resistance between mechanistically identical inhibitors of HIV-1 integrase
-
Hazuda, D. J.; Anthony, N. J.; Gomez, R. P.; Jolly, S. M.; Wai, J. S.; Zhuang, L.; Fisher, T. E.; Embrey, M.; Guare, J. P.; Egbertson, M. S.; Vacca, J. P.; Huff, J. R.; Felock, P. J.; Witmer, M. V.; Stillmock, K. A.; Danovich, R.; Grobler, J.; Miller, M. D.; Espeseth, A. S.; Jin, L.; Chen, I.-W.; Lin, J. H.; Kassahun, K.; Ellis, J. D.; Wong, B. K.; Xu, W.; Pearson, P. G.; Schleif, W. A.; Cortese, R.; Emini, E.; Summa, V.; Holloway, M. K.; Young, S. D. A naphthyridine carboxamide provides evidence for discordant resistance between mechanistically identical inhibitors of HIV-1 integrase Proc. Natl. Acad. Sci. 2004, 101, 11233-11238
-
(2004)
Proc. Natl. Acad. Sci.
, vol.101
, pp. 11233-11238
-
-
Hazuda, D.J.1
Anthony, N.J.2
Gomez, R.P.3
Jolly, S.M.4
Wai, J.S.5
Zhuang, L.6
Fisher, T.E.7
Embrey, M.8
Guare, J.P.9
Egbertson, M.S.10
Vacca, J.P.11
Huff, J.R.12
Felock, P.J.13
Witmer, M.V.14
Stillmock, K.A.15
Danovich, R.16
Grobler, J.17
Miller, M.D.18
Espeseth, A.S.19
Jin, L.20
Chen, I.-W.21
Lin, J.H.22
Kassahun, K.23
Ellis, J.D.24
Wong, B.K.25
Xu, W.26
Pearson, P.G.27
Schleif, W.A.28
Cortese, R.29
Emini, E.30
Summa, V.31
Holloway, M.K.32
Young, S.D.33
more..
-
85
-
-
33750532296
-
A platform for designing HIV integrase inhibitors. Part 2: A two-metal binding model as a potential mechanism of HIV integrase inhibitors
-
Kawasuji, T.; Fuji, M.; Yoshinaga, T.; Sato, A.; Fujiwara, T.; Kiyama, R. A platform for designing HIV integrase inhibitors. Part 2: A two-metal binding model as a potential mechanism of HIV integrase inhibitors Bioorg. Med. Chem. 2006, 14, 8420-8429
-
(2006)
Bioorg. Med. Chem.
, vol.14
, pp. 8420-8429
-
-
Kawasuji, T.1
Fuji, M.2
Yoshinaga, T.3
Sato, A.4
Fujiwara, T.5
Kiyama, R.6
-
86
-
-
79953835779
-
HIV-1 in Strand Transfer Chelating Inhibitors: A Focus on Metal Binding
-
Bacchi, A.; Carcelli, M.; Compari, C.; Fisicaro, E.; Pala, N.; Rispoli, G.; Rogolino, D.; Sanchez, T. W.; Sechi, M.; Neamati, N. HIV-1 IN Strand Transfer Chelating Inhibitors: A Focus on Metal Binding Mol. Pharm. 2011, 8, 507-519
-
(2011)
Mol. Pharm.
, vol.8
, pp. 507-519
-
-
Bacchi, A.1
Carcelli, M.2
Compari, C.3
Fisicaro, E.4
Pala, N.5
Rispoli, G.6
Rogolino, D.7
Sanchez, T.W.8
Sechi, M.9
Neamati, N.10
-
87
-
-
84857128295
-
Probing chelation motifs in HIV integrase inhibitors
-
Agrawal, A.; DeSoto, J.; Fullagar, J. L.; Maddali, K.; Rostami, S.; Richman, D. D.; Pommier, Y.; Cohen, S. M. Probing chelation motifs in HIV integrase inhibitors Proc. Natl. Acad. Sci. 2012, 109, 2251-2256
-
(2012)
Proc. Natl. Acad. Sci.
, vol.109
, pp. 2251-2256
-
-
Agrawal, A.1
Desoto, J.2
Fullagar, J.L.3
Maddali, K.4
Rostami, S.5
Richman, D.D.6
Pommier, Y.7
Cohen, S.M.8
-
88
-
-
79953784039
-
3-Hydroxypyrimidine-2,4-diones as an Inhibitor Scaffold of HIV Integrase
-
Tang, J.; Maddali, K.; Metifiot, M.; Sham, Y. Y.; Vince, R.; Pommier, Y.; Wang, Z. 3-Hydroxypyrimidine-2,4-diones as an Inhibitor Scaffold of HIV Integrase J. Med. Chem. 2011, 54, 2282-2292
-
(2011)
J. Med. Chem.
, vol.54
, pp. 2282-2292
-
-
Tang, J.1
Maddali, K.2
Metifiot, M.3
Sham, Y.Y.4
Vince, R.5
Pommier, Y.6
Wang, Z.7
-
89
-
-
8544221118
-
Network Analysis of Protein Structures Identifies Functional Residues
-
Amitai, G.; Shemesh, A.; Sitbon, E.; Shklar, M.; Netanely, D.; Venger, I.; Pietrokovski, S. Network Analysis of Protein Structures Identifies Functional Residues J. Mol. Biol. 2004, 344, 1135-1146
-
(2004)
J. Mol. Biol.
, vol.344
, pp. 1135-1146
-
-
Amitai, G.1
Shemesh, A.2
Sitbon, E.3
Shklar, M.4
Netanely, D.5
Venger, I.6
Pietrokovski, S.7
-
90
-
-
33745461893
-
Residues crucial for maintaining short paths in network communication mediate signaling in proteins
-
del Sol, A.; Fujihashi, H.; Amoros, D.; Nussinov, R. Residues crucial for maintaining short paths in network communication mediate signaling in proteins Mol. Syst. Biol. 2006, 2, 2006.0019
-
(2006)
Mol. Syst. Biol.
, vol.2
, pp. 20060019
-
-
Del Sol, A.1
Fujihashi, H.2
Amoros, D.3
Nussinov, R.4
-
91
-
-
65649089458
-
Intra and Inter-Molecular Communications Through Protein Structure
-
Vishveshwara, S. Intra and Inter-Molecular Communications Through Protein Structure Curr. Protein Pept. Sci. 2009, 10, 146-160
-
(2009)
Curr. Protein Pept. Sci.
, vol.10
, pp. 146-160
-
-
Vishveshwara, S.1
-
92
-
-
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.; 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.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
-
93
-
-
84863351272
-
Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants of the NS3 Serine Protease
-
Welsch, C.; Schweizer, S.; Shimakami, T.; Domingues, F. S.; Kim, S.; Lemon, S. M.; Antes, I. Ketoamide Resistance and Hepatitis C Virus Fitness in Val55 Variants of the NS3 Serine Protease Antimicrob. Agents Chemother. 2012, 56, 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
-
94
-
-
0001492480
-
Centrality in valued graphs: A measure of betweenness based on network flow
-
Freeman, L. Centrality in valued graphs: A measure of betweenness based on network flow Social Networks 1991, 13, 141-154
-
(1991)
Social Networks
, vol.13
, pp. 141-154
-
-
Freeman, L.1
-
95
-
-
33750177351
-
Centrality in social networks conceptual clarification
-
Freeman, L. C. Centrality in social networks conceptual clarification Social Networks 1978, 1, 215-239
-
(1978)
Social Networks
, vol.1
, pp. 215-239
-
-
Freeman, L.C.1
-
96
-
-
0037219686
-
Evolutionarily conserved networks of residues mediate allosteric communication in proteins
-
Suel, G. M.; Lockless, S. W.; Wall, M. A.; Ranganathan, R. Evolutionarily conserved networks of residues mediate allosteric communication in proteins Nat. Struct. Mol. Biol. 2003, 10, 59-69
-
(2003)
Nat. Struct. Mol. Biol.
, vol.10
, pp. 59-69
-
-
Suel, G.M.1
Lockless, S.W.2
Wall, M.A.3
Ranganathan, R.4
|