-
1
-
-
84925441813
-
Control of adaptive immunity by the innate immune system
-
Iwasaki, A. & Medzhitov, R. Control of adaptive immunity by the innate immune system. Nat Immunol 16, 343-353 (2015).
-
(2015)
Nat Immunol
, vol.16
, pp. 343-353
-
-
Iwasaki, A.1
Medzhitov, R.2
-
2
-
-
32944464648
-
Pathogen recognition and innate immunity
-
Akira, S., Uematsu, S. & Takeuchi, O. Pathogen recognition and innate immunity. Cell 124, 783-801 (2006).
-
(2006)
Cell
, vol.124
, pp. 783-801
-
-
Akira, S.1
Uematsu, S.2
Takeuchi, O.3
-
3
-
-
32944462309
-
Evasion of the host immune system by bacterial and viral pathogens
-
Finlay, B. B. & McFadden, G. Anti-immunology: evasion of the host immune system by bacterial and viral pathogens. Cell 124, 767-782 (2006).
-
(2006)
Cell
, vol.124
, pp. 767-782
-
-
Finlay, B.B.1
Anti-Immunology, M.G.2
-
4
-
-
84886731532
-
Strategies of highly pathogenic RNA viruses to block dsRNA detection by RIG-I-like receptors: Hide, mask, hit
-
Zinzula, L. & Tramontano, E. Strategies of highly pathogenic RNA viruses to block dsRNA detection by RIG-I-like receptors: hide, mask, hit. Antiviral Res 100, 615-635 (2013).
-
(2013)
Antiviral Res
, vol.100
, pp. 615-635
-
-
Zinzula, L.1
Tramontano, E.2
-
5
-
-
84910684859
-
Influenza virus non-structural protein NS1: Interferon antagonism and beyond
-
Marc, D. Influenza virus non-structural protein NS1: interferon antagonism and beyond. J Gen Virol 95, 2594-2611 (2014).
-
(2014)
J Gen Virol
, vol.95
, pp. 2594-2611
-
-
Marc, D.1
-
6
-
-
77956859036
-
Inhibition of the type i interferon response in human dendritic cells by dengue virus infection requires a catalytically active NS2B3 complex
-
Rodriguez-Madoz, J. R. et al. Inhibition of the type I interferon response in human dendritic cells by dengue virus infection requires a catalytically active NS2B3 complex. J Virol 84, 9760-9774 (2010).
-
(2010)
J Virol
, vol.84
, pp. 9760-9774
-
-
Rodriguez-Madoz, J.R.1
-
7
-
-
84874606884
-
Efficient replication of the novel human betacoronavirus EMC on primary human epithelium highlights its zoonotic potential
-
Kindler, E. et al. Efficient replication of the novel human betacoronavirus EMC on primary human epithelium highlights its zoonotic potential. MBio 4, e00611-00612 (2013).
-
(2013)
MBio
, vol.4
, pp. e00611-e00612
-
-
Kindler, E.1
-
8
-
-
84876310574
-
Human cell tropism and innate immune system interactions of human respiratory coronavirus EMC compared to those of severe acute respiratory syndrome coronavirus
-
Zielecki, F. et al. Human cell tropism and innate immune system interactions of human respiratory coronavirus EMC compared to those of severe acute respiratory syndrome coronavirus. J Virol 87, 5300-5304 (2013).
-
(2013)
J Virol
, vol.87
, pp. 5300-5304
-
-
Zielecki, F.1
-
9
-
-
84872146295
-
Human coronavirus EMC does not require the SARS-coronavirus receptor and maintains broad replicative capability in mammalian cell lines
-
Muller, M. A. et al. Human coronavirus EMC does not require the SARS-coronavirus receptor and maintains broad replicative capability in mammalian cell lines. MBio 3 (2012).
-
(2012)
MBio
, vol.3
-
-
Muller, M.A.1
-
10
-
-
84878523342
-
Tropism of and innate immune responses to the novel human betacoronavirus lineage C virus in human ex vivo respiratory organ cultures
-
Chan, R. W. et al. Tropism of and innate immune responses to the novel human betacoronavirus lineage C virus in human ex vivo respiratory organ cultures. J Virol 87, 6604-6614 (2013).
-
(2013)
J Virol
, vol.87
, pp. 6604-6614
-
-
Chan, R.W.1
-
11
-
-
28544437130
-
Immunopathogenesis of coronavirus infections: Implications for SARS
-
Perlman, S. & Dandekar, A. A. Immunopathogenesis of coronavirus infections: implications for SARS. Nat Rev Immunol 5, 917-927 (2005).
-
(2005)
Nat Rev Immunol
, vol.5
, pp. 917-927
-
-
Perlman, S.1
Dandekar, A.A.2
-
12
-
-
84920416675
-
Successful recovery of MERS CoV pneumonia in a patient with acquired immunodeficiency syndrome: A case report
-
Shalhoub, S., AlZahrani, A., Simhairi, R. & Mushtaq, A. Successful recovery of MERS CoV pneumonia in a patient with acquired immunodeficiency syndrome: a case report. J Clin Virol 62, 69-71 (2015).
-
(2015)
J Clin Virol
, vol.62
, pp. 69-71
-
-
Shalhoub, S.1
AlZahrani, A.2
Simhairi, R.3
Mushtaq, A.4
-
13
-
-
84884677110
-
Emergence of the Middle East respiratory syndrome coronavirus
-
Coleman, C. M. & Frieman, M. B. Emergence of the Middle East respiratory syndrome coronavirus. PLoS Pathog 9, e1003595 (2013).
-
(2013)
PLoS Pathog
, vol.9
, pp. e1003595
-
-
Coleman, C.M.1
Frieman, M.B.2
-
14
-
-
84897055458
-
The ORF4b-encoded accessory proteins of Middle East respiratory syndrome coronavirus and two related bat coronaviruses localize to the nucleus and inhibit innate immune signalling
-
Matthews, K. L., Coleman, C. M., van der Meer, Y., Snijder, E. J. & Frieman, M. B. The ORF4b-encoded accessory proteins of Middle East respiratory syndrome coronavirus and two related bat coronaviruses localize to the nucleus and inhibit innate immune signalling. J Gen Virol 95, 874-882 (2014).
-
(2014)
J Gen Virol
, vol.95
, pp. 874-882
-
-
Matthews, K.L.1
Coleman, C.M.2
Van Der Meer, Y.3
Snijder, E.J.4
Frieman, M.B.5
-
15
-
-
84871415482
-
Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans
-
van Boheemen, S. et al. Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans. MBio 3 (2012).
-
(2012)
MBio
, vol.3
-
-
Van Boheemen, S.1
-
16
-
-
85016626167
-
Middle East respiratory syndrome coronavirus: Transmission, virology and therapeutic targeting to aid in outbreak control
-
Durai, P., Batool, M., Shah, M. & Choi, S. Middle East respiratory syndrome coronavirus: transmission, virology and therapeutic targeting to aid in outbreak control. Exp Mol Med 47, e181 (2015).
-
(2015)
Exp Mol Med
, vol.47
, pp. e181
-
-
Durai, P.1
Batool, M.2
Shah, M.3
Choi, S.4
-
17
-
-
84874996988
-
Dipeptidyl peptidase 4 is a functional receptor for the emerging human coronavirus-EMC
-
Raj, V. S. et al. Dipeptidyl peptidase 4 is a functional receptor for the emerging human coronavirus-EMC. Nature 495, 251-254 (2013).
-
(2013)
Nature
, vol.495
, pp. 251-254
-
-
Raj, V.S.1
-
18
-
-
84879571351
-
Cell host response to infection with novel human coronavirus EMC predicts potential antivirals and important differences with SARS coronavirus
-
Josset, L. et al. Cell host response to infection with novel human coronavirus EMC predicts potential antivirals and important differences with SARS coronavirus. MBio 4, e00165-00113 (2013).
-
(2013)
MBio
, vol.4
, pp. e00113-e00165
-
-
Josset, L.1
-
19
-
-
84890049888
-
The structural and accessory proteins M, ORF 4a, ORF 4b, and ORF 5 of Middle East respiratory syndrome coronavirus (MERS-CoV) are potent interferon antagonists
-
Yang, Y. et al. The structural and accessory proteins M, ORF 4a, ORF 4b, and ORF 5 of Middle East respiratory syndrome coronavirus (MERS-CoV) are potent interferon antagonists. Protein Cell 4, 951-961 (2013).
-
(2013)
Protein Cell
, vol.4
, pp. 951-961
-
-
Yang, Y.1
-
20
-
-
84878173821
-
Cytosolic sensing of viruses
-
Goubau, D., Deddouche, S. & Reis e Sousa, C. Cytosolic sensing of viruses. Immunity 38, 855-869 (2013).
-
(2013)
Immunity
, vol.38
, pp. 855-869
-
-
Goubau, D.1
Deddouche, S.2
Reis e Sousa, C.3
-
21
-
-
77953298571
-
Murine coronavirus induces type i interferon in oligodendrocytes through recognition by RIG-I and MDA5
-
Li, J., Liu, Y. & Zhang, X. Murine coronavirus induces type I interferon in oligodendrocytes through recognition by RIG-I and MDA5. J Virol 84, 6472-6482 (2010).
-
(2010)
J Virol
, vol.84
, pp. 6472-6482
-
-
Li, J.1
Liu, Y.2
Zhang, X.3
-
22
-
-
84895534920
-
Middle east respiratory syndrome coronavirus 4a protein is a double-stranded RNA-binding protein that suppresses PACT-induced activation of RIG-I and MDA5 in the innate antiviral response
-
Siu, K. L. et al. Middle east respiratory syndrome coronavirus 4a protein is a double-stranded RNA-binding protein that suppresses PACT-induced activation of RIG-I and MDA5 in the innate antiviral response. J Virol 88, 4866-4876 (2014).
-
(2014)
J Virol
, vol.88
, pp. 4866-4876
-
-
Siu, K.L.1
-
23
-
-
84886298565
-
Middle East respiratory syndrome coronavirus accessory protein 4a is a type i interferon antagonist
-
Niemeyer, D. et al. Middle East respiratory syndrome coronavirus accessory protein 4a is a type I interferon antagonist. J Virol 87, 12489-12495 (2013).
-
(2013)
J Virol
, vol.87
, pp. 12489-12495
-
-
Niemeyer, D.1
-
24
-
-
84978640758
-
Toward developing a preventive MERS-CoV vaccine-report from a workshop organized by the Saudi Arabia ministry of health and the international vaccine institute, Riyadh, Saudi Arabia, November 14-15, 2015
-
Excler, J. L. et al. Toward Developing a Preventive MERS-CoV Vaccine-Report from a Workshop Organized by the Saudi Arabia Ministry of Health and the International Vaccine Institute, Riyadh, Saudi Arabia, November 14-15, 2015. Emerg Infect Dis 22 (2016).
-
(2016)
Emerg Infect Dis
, vol.22
-
-
Excler, J.L.1
-
25
-
-
84964068412
-
Vaccines for the prevention against the threat of MERS-CoV
-
Du, L., Tai, W., Zhou, Y. & Jiang, S. Vaccines for the prevention against the threat of MERS-CoV. Expert Rev Vaccines 15, 1123-1134 (2016).
-
(2016)
Expert Rev Vaccines
, vol.15
, pp. 1123-1134
-
-
Du, L.1
Tai, W.2
Zhou, Y.3
Jiang, S.4
-
26
-
-
84991782470
-
A recombinant receptor-binding domain of MERS-CoV in trimeric form protects human dipeptidyl peptidase 4 (hDPP4) transgenic mice from MERS-CoV infection
-
Tai, W. et al. A recombinant receptor-binding domain of MERS-CoV in trimeric form protects human dipeptidyl peptidase 4 (hDPP4) transgenic mice from MERS-CoV infection. Virology 499, 375-382 (2016).
-
(2016)
Virology
, vol.499
, pp. 375-382
-
-
Tai, W.1
-
27
-
-
84999816148
-
The recombinant N-terminal domain of spike proteins is a potential vaccine against Middle East respiratory syndrome coronavirus (MERS-CoV) infection
-
Jiaming, L. et al. The recombinant N-terminal domain of spike proteins is a potential vaccine against Middle East respiratory syndrome coronavirus (MERS-CoV) infection. Vaccine 35, 10-18 (2017).
-
(2017)
Vaccine
, vol.35
, pp. 10-18
-
-
Jiaming, L.1
-
28
-
-
84996844201
-
Introduction of neutralizing immunogenicity index to the rational design of MERS coronavirus subunit vaccines
-
Du, L. et al. Introduction of neutralizing immunogenicity index to the rational design of MERS coronavirus subunit vaccines. Nat Commun 7, 13473 (2016).
-
(2016)
Nat Commun
, vol.7
, pp. 13473
-
-
Du, L.1
-
29
-
-
85014772257
-
Vaccines against Middle East respiratory syndrome coronavirus for humans and camels
-
Alharbi, N. K. Vaccines against Middle East respiratory syndrome coronavirus for humans and camels. Rev Med Virol (2016).
-
(2016)
Rev Med Virol
-
-
Alharbi, N.K.1
-
30
-
-
85021671152
-
Broad-spectrum antiviral GS-5734 inhibits both epidemic and zoonotic coronaviruses
-
Sheahan, T. P. et al. Broad-spectrum antiviral GS-5734 inhibits both epidemic and zoonotic coronaviruses. Sci Transl Med 9 (2017).
-
(2017)
Sci Transl Med
, vol.9
-
-
Sheahan, T.P.1
-
31
-
-
84997483389
-
Alisporivir inhibits MERS- and SARS-coronavirus replication in cell culture, but not SARS-coronavirus infection in a mouse model
-
de Wilde, A. H. et al. Alisporivir inhibits MERS- and SARS-coronavirus replication in cell culture, but not SARS-coronavirus infection in a mouse model. Virus Res 228, 7-13 (2017).
-
(2017)
Virus Res
, vol.228
, pp. 7-13
-
-
De Wilde, A.H.1
-
32
-
-
85020439594
-
Computational modeling of the bat HKU4 coronavirus 3CLpro inhibitors as a tool for the development of antivirals against the emerging Middle East respiratory syndrome (MERS) coronavirus
-
Abuhammad, A., Al-Aqtash, R. A., Anson, B. J., Mesecar, A. D. & Taha, M. O. Computational modeling of the bat HKU4 coronavirus 3CLpro inhibitors as a tool for the development of antivirals against the emerging Middle East respiratory syndrome (MERS) coronavirus. J Mol Recognit (2017).
-
(2017)
J Mol Recognit
-
-
Abuhammad, A.1
Al-Aqtash, R.A.2
Anson, B.J.3
Mesecar, A.D.4
Taha, M.O.5
-
33
-
-
85013824590
-
Identification and evaluation of potent Middle East respiratory syndrome coronavirus (MERS-CoV) 3CLPro inhibitors
-
Kumar, V. et al. Identification and evaluation of potent Middle East respiratory syndrome coronavirus (MERS-CoV) 3CLPro inhibitors. Antiviral Res 141, 101-106 (2017).
-
(2017)
Antiviral Res
, vol.141
, pp. 101-106
-
-
Kumar, V.1
-
34
-
-
26444436343
-
Intermediate states of ribonuclease III in complex with double-stranded RNA
-
Gan, J. et al. Intermediate states of ribonuclease III in complex with double-stranded RNA. Structure 13, 1435-1442 (2005).
-
(2005)
Structure
, vol.13
, pp. 1435-1442
-
-
Gan, J.1
-
35
-
-
84878270899
-
RNA recognition by double-stranded RNA binding domains: A matter of shape and sequence
-
Masliah, G., Barraud, P. & Allain, F. H. RNA recognition by double-stranded RNA binding domains: a matter of shape and sequence. Cell Mol Life Sci 70, 1875-1895 (2013).
-
(2013)
Cell Mol Life Sci
, vol.70
, pp. 1875-1895
-
-
Masliah, G.1
Barraud, P.2
Allain, F.H.3
-
36
-
-
17644392830
-
TM-align: A protein structure alignment algorithm based on the TM-score
-
Zhang, Y. & Skolnick, J. TM-align: a protein structure alignment algorithm based on the TM-score. Nucleic Acids Res 33, 2302-2309 (2005).
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 2302-2309
-
-
Zhang, Y.1
Skolnick, J.2
-
37
-
-
84885655034
-
Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment
-
Yang, J., Roy, A. & Zhang, Y. Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment. Bioinformatics 29, 2588-2595 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 2588-2595
-
-
Yang, J.1
Roy, A.2
Zhang, Y.3
-
38
-
-
2942741128
-
Structure-based method for analyzing protein-protein interfaces
-
Gao, Y., Wang, R. & Lai, L. Structure-based method for analyzing protein-protein interfaces. J Mol Model 10, 44-54 (2004).
-
(2004)
J Mol Model
, vol.10
, pp. 44-54
-
-
Gao, Y.1
Wang, R.2
Lai, L.3
-
39
-
-
77957822421
-
The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific readout of the minor groove
-
Stefl, R. et al. The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific readout of the minor groove. Cell 143, 225-237 (2010).
-
(2010)
Cell
, vol.143
, pp. 225-237
-
-
Stefl, R.1
-
40
-
-
0035878724
-
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements
-
Schaffer, A. A. et al. Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res 29, 2994-3005 (2001).
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2994-3005
-
-
Schaffer, A.A.1
-
41
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. Basic local alignment search tool. J Mol Biol 215, 403-410 (1990).
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
42
-
-
84949215654
-
Comparative protein structure modeling using MODELLER
-
Webb, B. & Sali, A. Comparative Protein Structure Modeling Using MODELLER. Curr Protoc Bioinformatics 47, 5 6 1-32 (2014).
-
(2014)
Curr Protoc Bioinformatics
, vol.47
, Issue.5-6
, pp. 1-32
-
-
Webb, B.1
Sali, A.2
-
43
-
-
84989962639
-
Homology modeling of an antifungal metabolite plipastatin synthase from the Bacillus subtilis 168
-
Batool, M., Khalid, M. H., Hassan, M. N. & Fauzia Yusuf, H. Homology modeling of an antifungal metabolite plipastatin synthase from the Bacillus subtilis 168. Bioinformation 7, 384-387 (2011).
-
(2011)
Bioinformation
, vol.7
, pp. 384-387
-
-
Batool, M.1
Khalid, M.H.2
Hassan, M.N.3
Fauzia Yusuf, H.4
-
44
-
-
77954065271
-
I-TASSER: A unified platform for automated protein structure and function prediction
-
Roy, A., Kucukural, A. & Zhang, Y. I-TASSER: a unified platform for automated protein structure and function prediction. Nat Protoc 5, 725-738 (2010).
-
(2010)
Nat Protoc
, vol.5
, pp. 725-738
-
-
Roy, A.1
Kucukural, A.2
Zhang, Y.3
-
45
-
-
63849246525
-
Protein structure prediction on the Web: A case study using the Phyre server
-
Kelley, L. A. & Sternberg, M. J. Protein structure prediction on the Web: a case study using the Phyre server. Nat Protoc 4, 363-371 (2009).
-
(2009)
Nat Protoc
, vol.4
, pp. 363-371
-
-
Kelley, L.A.1
Sternberg, M.J.2
-
46
-
-
0042622380
-
SWISS-MODEL: An automated protein homology-modeling server
-
Schwede, T., Kopp, J., Guex, N. & Peitsch, M. C. SWISS-MODEL: An automated protein homology-modeling server. Nucleic Acids Res 31, 3381-3385 (2003).
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3381-3385
-
-
Schwede, T.1
Kopp, J.2
Guex, N.3
Peitsch, M.C.4
-
47
-
-
77954293798
-
CPHmodels-3.0-remote homology modeling using structure-guided sequence profiles
-
Nielsen, M., Lundegaard, C., Lund, O. & Petersen, T. N. CPHmodels-3.0-remote homology modeling using structure-guided sequence profiles. Nucleic Acids Res 38, W576-581 (2010).
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W576-W581
-
-
Nielsen, M.1
Lundegaard, C.2
Lund, O.3
Petersen, T.N.4
-
48
-
-
80053296212
-
A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins
-
Hollingsworth, S. A. & Karplus, P. A. A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins. Biomol Concepts 1, 271-283 (2010).
-
(2010)
Biomol Concepts
, vol.1
, pp. 271-283
-
-
Hollingsworth, S.A.1
Karplus, P.A.2
-
49
-
-
67650358909
-
QMEAN server for protein model quality estimation
-
Benkert, P., Kunzli, M. & Schwede, T. QMEAN server for protein model quality estimation. Nucleic Acids Res 37, W510-514 (2009).
-
(2009)
Nucleic Acids Res
, vol.37
, pp. W510-W514
-
-
Benkert, P.1
Kunzli, M.2
Schwede, T.3
-
50
-
-
34547566446
-
ProSA-web: Interactive web service for the recognition of errors in three-dimensional structures of proteins
-
Wiederstein, M. & Sippl, M. J. ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins. Nucleic Acids Res 35, W407-410 (2007).
-
(2007)
Nucleic Acids Res
, vol.35
, pp. W407-W410
-
-
Wiederstein, M.1
Sippl, M.J.2
-
51
-
-
4444221565
-
UCSF chimera - A visualization system for exploratory research and analysis
-
Pettersen, E. F. et al. UCSF Chimera-a visualization system for exploratory research and analysis. J Comput Chem 25, 1605-1612 (2004).
-
(2004)
J Comput Chem
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
-
52
-
-
33847079676
-
Evaluating protein structures determined by structural genomics consortia
-
Bhattacharya, A., Tejero, R. & Montelione, G. T. Evaluating protein structures determined by structural genomics consortia. Proteins 66, 778-795 (2007).
-
(2007)
Proteins
, vol.66
, pp. 778-795
-
-
Bhattacharya, A.1
Tejero, R.2
Montelione, G.T.3
-
53
-
-
77954290877
-
PROSESS: A protein structure evaluation suite and server
-
Berjanskii, M. et al. PROSESS: a protein structure evaluation suite and server. Nucleic Acids Res 38, W633-640 (2010).
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W633-W640
-
-
Berjanskii, M.1
-
54
-
-
42349090335
-
Structural basis of toll-like receptor 3 signaling with double-stranded RNA
-
Liu, L. et al. Structural basis of toll-like receptor 3 signaling with double-stranded RNA. Science 320, 379-381 (2008).
-
(2008)
Science
, vol.320
, pp. 379-381
-
-
Liu, L.1
-
55
-
-
77954275738
-
HexServer: An FFT-based protein docking server powered by graphics processors
-
Macindoe, G., Mavridis, L., Venkatraman, V., Devignes, M. D. & Ritchie, D. W. HexServer: an FFT-based protein docking server powered by graphics processors. Nucleic Acids Res 38, W445-449 (2010).
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W445-W449
-
-
Macindoe, G.1
Mavridis, L.2
Venkatraman, V.3
Devignes, M.D.4
Ritchie, D.W.5
-
56
-
-
84939630932
-
In silico mechanistic analysis of IRF3 inactivation and high-risk HPV E6 species-dependent drug response
-
Shah, M., Anwar, M. A., Park, S., Jafri, S. S. & Choi, S. In silico mechanistic analysis of IRF3 inactivation and high-risk HPV E6 species-dependent drug response. Sci Rep 5, 13446 (2015).
-
(2015)
Sci Rep
, vol.5
, pp. 13446
-
-
Shah, M.1
Anwar, M.A.2
Park, S.3
Jafri, S.S.4
Choi, S.5
-
57
-
-
23144461249
-
I-Mutant2.0: Predicting stability changes upon mutation from the protein sequence or structure
-
Capriotti, E., Fariselli, P. & Casadio, R. I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure. Nucleic Acids Res 33, W306-310 (2005).
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W306-W310
-
-
Capriotti, E.1
Fariselli, P.2
Casadio, R.3
-
58
-
-
84941180719
-
Best bang for your buck: GPU nodes for GROMACS biomolecular simulations
-
Kutzner, C. et al. Best bang for your buck: GPU nodes for GROMACS biomolecular simulations. J Comput Chem 36, 1990-2008 (2015).
-
(2015)
J Comput Chem
, vol.36
, pp. 1990-2008
-
-
Kutzner, C.1
-
59
-
-
77953513118
-
Improved side-chain torsion potentials for the Amber ff99SB protein force field
-
Lindorff-Larsen, K. et al. Improved side-chain torsion potentials for the Amber ff99SB protein force field. Proteins 78, 1950-1958 (2010).
-
(2010)
Proteins
, vol.78
, pp. 1950-1958
-
-
Lindorff-Larsen, K.1
-
60
-
-
77956235807
-
Optimizing working parameters of the smooth particle mesh Ewald algorithm in terms of accuracy and efficiency
-
Wang, H., Dommert, F. & Holm, C. Optimizing working parameters of the smooth particle mesh Ewald algorithm in terms of accuracy and efficiency. J Chem Phys 133, 034117 (2010).
-
(2010)
J Chem Phys
, vol.133
, pp. 034117
-
-
Wang, H.1
Dommert, F.2
Holm, C.3
-
61
-
-
0000388705
-
LINCS: A linear constraint solver for molecular simulations
-
Hess, B., Bekker, H., Berendsen, H. J. & Fraaije, J. G. LINCS: a linear constraint solver for molecular simulations. Journal of computational chemistry 18, 1463-1472 (1997).
-
(1997)
Journal of Computational Chemistry
, vol.18
, pp. 1463-1472
-
-
Hess, B.1
Bekker, H.2
Berendsen, H.J.3
Fraaije, J.G.4
-
62
-
-
84875592758
-
GROMACS 4.5: A high-throughput and highly parallel open source molecular simulation toolkit
-
Pronk, S. et al. GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit. Bioinformatics 29, 845-854 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 845-854
-
-
Pronk, S.1
-
64
-
-
57749191492
-
Principal component analysis for protein folding dynamics
-
Maisuradze, G. G., Liwo, A. & Scheraga, H. A. Principal component analysis for protein folding dynamics. J Mol Biol 385, 312-329 (2009).
-
(2009)
J Mol Biol
, vol.385
, pp. 312-329
-
-
Maisuradze, G.G.1
Liwo, A.2
Scheraga, H.A.3
-
65
-
-
84934436648
-
Principal component analysis: A method for determining the essential dynamics of proteins
-
David, C. C. & Jacobs, D. J. Principal component analysis: a method for determining the essential dynamics of proteins. Methods Mol Biol 1084, 193-226 (2014).
-
(2014)
Methods Mol Biol
, vol.1084
, pp. 193-226
-
-
David, C.C.1
Jacobs, D.J.2
-
66
-
-
2542617639
-
Geometry and symmetry presculpt the free-energy landscape of proteins
-
Hoang, T. X., Trovato, A., Seno, F., Banavar, J. R. & Maritan, A. Geometry and symmetry presculpt the free-energy landscape of proteins. Proc Natl Acad Sci U S A 101, 7960-7964 (2004).
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 7960-7964
-
-
Hoang, T.X.1
Trovato, A.2
Seno, F.3
Banavar, J.R.4
Maritan, A.5
-
67
-
-
0344925000
-
Use of MATHEMATICA software for theoretical analysis of linear sweep voltammograms
-
Mocak, J. & Bond, A. Use of MATHEMATICA software for theoretical analysis of linear sweep voltammograms. Journal of Electroanalytical Chemistry 561, 191-202 (2004).
-
(2004)
Journal of Electroanalytical Chemistry
, vol.561
, pp. 191-202
-
-
Mocak, J.1
Bond, A.2
-
68
-
-
84908406070
-
Dynamics of Gal80p in the Gal80p-Gal3p complex differ significantly from the dynamics in the Gal80p-Gal1p complex: Implications for the higher specificity of Gal3p
-
Upadhyay, S. K. Dynamics of Gal80p in the Gal80p-Gal3p complex differ significantly from the dynamics in the Gal80p-Gal1p complex: implications for the higher specificity of Gal3p. Mol Biosyst 10, 3120-3129 (2014).
-
(2014)
Mol Biosyst
, vol.10
, pp. 3120-3129
-
-
Upadhyay, S.K.1
-
69
-
-
55249121918
-
Thr729 in human topoisomerase i modulates anti-cancer drug resistance by altering protein domain communications as suggested by molecular dynamics simulations
-
Chillemi, G. et al. Thr729 in human topoisomerase I modulates anti-cancer drug resistance by altering protein domain communications as suggested by molecular dynamics simulations. Nucleic Acids Res 36, 5645-5651 (2008).
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 5645-5651
-
-
Chillemi, G.1
-
70
-
-
84904964377
-
Open source drug discovery C. & Lynn, A. G-mmpbsa - A GROMACS tool for high-throughput MMPBSA calculations
-
Kumari, R. & Kumar, R. Open Source Drug Discovery, C. & Lynn, A. g-mmpbsa-a GROMACS tool for high-throughput MMPBSA calculations. J Chem Inf Model 54, 1951-1962 (2014).
-
(2014)
J Chem Inf Model
, vol.54
, pp. 1951-1962
-
-
Kumari, R.1
Kumar, R.2
-
71
-
-
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 32, 866-877 (2011).
-
(2011)
J Comput Chem
, vol.32
, pp. 866-877
-
-
Hou, T.1
Wang, J.2
Li, Y.3
Wang, W.4
-
72
-
-
84857282935
-
Free energy calculations by the molecular mechanics poisson-boltzmann surface area method
-
Homeyer, N. & Gohlke, H. Free Energy Calculations by the Molecular Mechanics Poisson-Boltzmann Surface Area Method. Mol Inform 31, 114-122 (2012).
-
(2012)
Mol Inform
, vol.31
, pp. 114-122
-
-
Homeyer, N.1
Gohlke, H.2
-
73
-
-
84866167816
-
MMPBSA.py: An efficient program for end-state free energy calculations
-
Miller, B. R. 3rd et al. MMPBSA.py: An Efficient Program for End-State Free Energy Calculations. J Chem Theory Comput 8, 3314-3321 (2012).
-
(2012)
J Chem Theory Comput
, vol.8
, pp. 3314-3321
-
-
Miller, B.R.1
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