-
1
-
-
0031804609
-
Inhibitors of HIV-1 protease: A major success of structure-assisted drug design
-
Wlodawer A, Vondrasek J. Inhibitors of HIV-1 protease: a major success of structure-assisted drug design. Artnu Rev Biophys Biomol Struct 1998;27:249-284.
-
(1998)
Artnu Rev Biophys Biomol Struct
, vol.27
, pp. 249-284
-
-
Wlodawer, A.1
Vondrasek, J.2
-
2
-
-
0030910583
-
Sequence requirements of the HIV-1 protease flap region determined by saturation mutagenesis and kinetic analysis of flap mutants
-
Shao W, Everitt L, Manchester M, Loeb DD, Hutchison CA 3rd, Swanstrom R. Sequence requirements of the HIV-1 protease flap region determined by saturation mutagenesis and kinetic analysis of flap mutants. Proc Natl Acad Sci USA 1997;94(6):2243-2248.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, Issue.6
, pp. 2243-2248
-
-
Shao, W.1
Everitt, L.2
Manchester, M.3
Loeb, D.D.4
Hutchison III, C.A.5
Swanstrom, R.6
-
3
-
-
0033814616
-
Systematic mutational analysis of the active-site threonine of HIV-1 proteinase: Rethinking the "fireman's grip" hypothesis
-
Strisovsky K, Tessmer U, Langner J, Konvalinka J, Krausslich HG. Systematic mutational analysis of the active-site threonine of HIV-1 proteinase: rethinking the "fireman's grip" hypothesis. Protein Sci 2000;9(9):1631-1641.
-
(2000)
Protein Sci
, vol.9
, Issue.9
, pp. 1631-1641
-
-
Strisovsky, K.1
Tessmer, U.2
Langner, J.3
Konvalinka, J.4
Krausslich, H.G.5
-
4
-
-
0035966069
-
Folded monomer of HIV-1 protease
-
Ishima R, Ghirlando R, Tozser J, Gronenborn AM, Torchia DA, Louis JM. Folded monomer of HIV-1 protease. J Biol Chem 2001;276(52):49110-49116.
-
(2001)
J Biol Chem
, vol.276
, Issue.52
, pp. 49110-49116
-
-
Ishima, R.1
Ghirlando, R.2
Tozser, J.3
Gronenborn, A.M.4
Torchia, D.A.5
Louis, J.M.6
-
5
-
-
0037350008
-
Adaptability and flexibility of HIV-1 protease
-
Kumar M, Hosur MV. Adaptability and flexibility of HIV-1 protease. Eur J Biochem 2003;270(6):1231-1239.
-
(2003)
Eur J Biochem
, vol.270
, Issue.6
, pp. 1231-1239
-
-
Kumar, M.1
Hosur, M.V.2
-
6
-
-
0036298514
-
Relation between sequence and structure of HIV-1 protease inhibitor complexes: A model system for the analysis of protein flexibility
-
Zoete V, Michielin O, Karplus M. Relation between sequence and structure of HIV-1 protease inhibitor complexes: a model system for the analysis of protein flexibility. J Mol Biol 2002;315(1):21-52.
-
(2002)
J Mol Biol
, vol.315
, Issue.1
, pp. 21-52
-
-
Zoete, V.1
Michielin, O.2
Karplus, M.3
-
7
-
-
0035370444
-
Structural implications of drug-resistant mutants of HIV-1 protease: High-resolution crystal structures of the mutant protease/ substrate analogue complexes
-
Mahalingam B, Louis JM, Hung J, Harrison RW, Weber IT. Structural implications of drug-resistant mutants of HIV-1 protease: high-resolution crystal structures of the mutant protease/ substrate analogue complexes. Proteins 2001;43(4):455-464.
-
(2001)
Proteins
, vol.43
, Issue.4
, pp. 455-464
-
-
Mahalingam, B.1
Louis, J.M.2
Hung, J.3
Harrison, R.W.4
Weber, I.T.5
-
8
-
-
0036643501
-
Combining mutations in HIV-1 protease to understand mechanisms of resistance
-
Mahalingam B, Boross P, Wang YF, et al. Combining mutations in HIV-1 protease to understand mechanisms of resistance. Proteins 2002;48(1):107-116.
-
(2002)
Proteins
, vol.48
, Issue.1
, pp. 107-116
-
-
Mahalingam, B.1
Boross, P.2
Wang, Y.F.3
-
9
-
-
0035937259
-
Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: Structure-based assessment of amino acid variation
-
Chasman D, Adams RM. Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: structure-based assessment of amino acid variation. J Mol Biol 2001;307(2): 683-706.
-
(2001)
J Mol Biol
, vol.307
, Issue.2
, pp. 683-706
-
-
Chasman, D.1
Adams, R.M.2
-
10
-
-
20844461337
-
LS-SNP: Large-scale annotation of coding non-synonymous SNPs based on multiple information sources
-
Karchin R, Diekhans M, Kelly L, et al. LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources. Bioinformatics 2005;21(12):2814-2820.
-
(2005)
Bioinformatics
, vol.21
, Issue.12
, pp. 2814-2820
-
-
Karchin, R.1
Diekhans, M.2
Kelly, L.3
-
11
-
-
0344033683
-
A comparative study of machine-learning methods to predict the effects of single nucleotide polymorphisms on protein function
-
Krishnan VG, Westhead DR. A comparative study of machine-learning methods to predict the effects of single nucleotide polymorphisms on protein function. Bioinformatics 2003;19(17):2199-2209.
-
(2003)
Bioinformatics
, vol.19
, Issue.17
, pp. 2199-2209
-
-
Krishnan, V.G.1
Westhead, D.R.2
-
12
-
-
0043122919
-
SIFT: Predicting amino acid changes that affect protein function
-
Ng PC, Henikoff S. SIFT: predicting amino acid changes that affect protein function. Nucleic Acids Res 2003;31(13):3812-3814.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3812-3814
-
-
Ng, P.C.1
Henikoff, S.2
-
13
-
-
12844272252
-
A hierarchical Bayesian model for predicting the functional consequences of amino acid polymorphisms
-
Verzilli CJ, Whittaker JC, Stallard N, Chasman D. A hierarchical Bayesian model for predicting the functional consequences of amino acid polymorphisms. Appl Statistics 2005;54:191-206.
-
(2005)
Appl Statistics
, vol.54
, pp. 191-206
-
-
Verzilli, C.J.1
Whittaker, J.C.2
Stallard, N.3
Chasman, D.4
-
14
-
-
0035065485
-
SNPs, protein structure, and disease
-
Wang Z, Moult J. SNPs, protein structure, and disease. Hum Mutat 2001;17(4):263-270.
-
(2001)
Hum Mutat
, vol.17
, Issue.4
, pp. 263-270
-
-
Wang, Z.1
Moult, J.2
-
15
-
-
0037691515
-
Comprehensive mutagenesis of HIV-1 protease: A computational geometry approach
-
Masso M, Vaisman II. Comprehensive mutagenesis of HIV-1 protease: a computational geometry approach. Biochem Biophys Res Commun 2003;305(2):322-326.
-
(2003)
Biochem Biophys Res Commun
, vol.305
, Issue.2
, pp. 322-326
-
-
Masso, M.1
Vaisman, I.I.2
-
16
-
-
0024406911
-
Complete mutagenesis of the HIV-1 protease
-
Loeb DD, Swanstrom R, Everitt L, Manchester M, Stamper SE, Hutchison CA 3rd. Complete mutagenesis of the HIV-1 protease. Nature 1989;340(6232):397-400.
-
(1989)
Nature
, vol.340
, Issue.6232
, pp. 397-400
-
-
Loeb, D.D.1
Swanstrom, R.2
Everitt, L.3
Manchester, M.4
Stamper, S.E.5
Hutchison III, C.A.6
-
17
-
-
0025955349
-
Systematic mutation of bacteriophage T4 lysozyme
-
Rennell D, Bouvier SE, Hardy LW, Poteete AR. Systematic mutation of bacteriophage T4 lysozyme. J Mol Biol 1991;222(1):67-88.
-
(1991)
J Mol Biol
, vol.222
, Issue.1
, pp. 67-88
-
-
Rennell, D.1
Bouvier, S.E.2
Hardy, L.W.3
Poteete, A.R.4
-
18
-
-
0031881696
-
A genetic approach for identifying critical residues in the fingers and palm subdomains of HIV-1 reverse transcriptase
-
Wrobel JA, Chao SF, Conrad MJ, et al. A genetic approach for identifying critical residues in the fingers and palm subdomains of HIV-1 reverse transcriptase. Proc Natl Acad Sci USA 1998;95(2): 638-645.
-
(1998)
Proc Natl Acad Sci USA
, vol.95
, Issue.2
, pp. 638-645
-
-
Wrobel, J.A.1
Chao, S.F.2
Conrad, M.J.3
-
19
-
-
0030054951
-
Delaunay tessellation of proteins: Four body nearest-neighbor propensities of amino acid residues
-
Singh RK, Tropsha A, Vaisman II. Delaunay tessellation of proteins: four body nearest-neighbor propensities of amino acid residues. J Comput Biol 1996;3(2):213-221.
-
(1996)
J Comput Biol
, vol.3
, Issue.2
, pp. 213-221
-
-
Singh, R.K.1
Tropsha, A.2
Vaisman, I.I.3
-
20
-
-
27944432693
-
Compositional preferences in quadruplets of nearest neighbor residues in protein structures: Statistical geometry analysis
-
Vaisman II, Tropsha A, Zheng W. Compositional preferences in quadruplets of nearest neighbor residues in protein structures: statistical geometry analysis. Proceedings of the IEEE Symposia on Intelligence and Systems 1998:163-168.
-
(1998)
Proceedings of the IEEE Symposia on Intelligence and Systems
, pp. 163-168
-
-
Vaisman, I.I.1
Tropsha, A.2
Zheng, W.3
-
21
-
-
0031310710
-
A new approach to protein fold recognition based on Delaunay tessellation of protein structure
-
Zheng W, Cho SJ, Vaisman II, Tropsha A. A new approach to protein fold recognition based on Delaunay tessellation of protein structure. Pac Symp Biocomput 1997:486-497.
-
(1997)
Pac Symp Biocomput
, pp. 486-497
-
-
Zheng, W.1
Cho, S.J.2
Vaisman, I.I.3
Tropsha, A.4
-
24
-
-
0033130236
-
Comparison of amino acid sequences and three-dimensional structures of aspartic proteases for use in their protein engineering
-
Pechik IV, Kashparov IV, Novikova LA, Andreeva NS. Comparison of amino acid sequences and three-dimensional structures of aspartic proteases for use in their protein engineering. Mol Biol 1999;33(3):491-502.
-
(1999)
Mol Biol
, vol.33
, Issue.3
, pp. 491-502
-
-
Pechik, I.V.1
Kashparov, I.V.2
Novikova, L.A.3
Andreeva, N.S.4
-
25
-
-
0042121237
-
Multiple sequence alignment with the Clustal series of programs
-
Chenna R, Sugawara H, Koike T, et al. Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res 2003;31(13):3497-3500.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3497-3500
-
-
Chenna, R.1
Sugawara, H.2
Koike, T.3
-
26
-
-
0000228203
-
A model for evolutionary change in proteins
-
Dayhoff MO, editor. Washington, DC: National Biomedical Research Foundation
-
Dayhoff MO, Schwartz RM, Orcut BC. A model for evolutionary change in proteins. In: Dayhoff MO, editor. Atlas of protein sequence and structure. Vol 5. Washington, DC: National Biomedical Research Foundation; 1978. p 345-352.
-
(1978)
Atlas of Protein Sequence and Structure
, vol.5
, pp. 345-352
-
-
Dayhoff, M.O.1
Schwartz, R.M.2
Orcut, B.C.3
-
27
-
-
0037444296
-
Mutagenesis of the dimer interface residues of tethered and untethered HIV-1 protease result in differential activity and suggest multiple mechanisms of compensation
-
Choudhury S, Everitt L, Pettit SC, Kaplan AH. Mutagenesis of the dimer interface residues of tethered and untethered HIV-1 protease result in differential activity and suggest multiple mechanisms of compensation. Virology 2003;307(2):204-212.
-
(2003)
Virology
, vol.307
, Issue.2
, pp. 204-212
-
-
Choudhury, S.1
Everitt, L.2
Pettit, S.C.3
Kaplan, A.H.4
-
28
-
-
0033575743
-
Probing the role of interfacial residues in a dimerization inhibitor of HIV-1 protease
-
Shultz MD, Chmielewski J. Probing the role of interfacial residues in a dimerization inhibitor of HIV-1 protease. Bioorg Med Chem Lett 1999;9(16):2431-2436.
-
(1999)
Bioorg Med Chem Lett
, vol.9
, Issue.16
, pp. 2431-2436
-
-
Shultz, M.D.1
Chmielewski, J.2
-
29
-
-
0036391284
-
Novel strategies for targeting the dimerization interface of HIV protease with cross-linked interfacial peptides
-
Bowman MJ, Chmielewski J. Novel strategies for targeting the dimerization interface of HIV protease with cross-linked interfacial peptides. Biopolymers 2002;66(2):126-133.
-
(2002)
Biopolymers
, vol.66
, Issue.2
, pp. 126-133
-
-
Bowman, M.J.1
Chmielewski, J.2
-
30
-
-
0032561137
-
The structural stability of the HIV-1 protease
-
Todd MJ, Semo N, Freire E. The structural stability of the HIV-1 protease. J Mol Biol 1998;283(2):475-488.
-
(1998)
J Mol Biol
, vol.283
, Issue.2
, pp. 475-488
-
-
Todd, M.J.1
Semo, N.2
Freire, E.3
-
31
-
-
0037458740
-
Revisiting monomeric HIV-1 protease. Characterization and redesign for improved properties
-
Louis JM, Ishima R, Nesheiwat I, et al. Revisiting monomeric HIV-1 protease. Characterization and redesign for improved properties. J Biol Chem 2003;278(8):6085-6092.
-
(2003)
J Biol Chem
, vol.278
, Issue.8
, pp. 6085-6092
-
-
Louis, J.M.1
Ishima, R.2
Nesheiwat, I.3
-
32
-
-
4444221565
-
UCSF Chimera: A visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, et al. UCSF Chimera: a visualization system for exploratory research and analysis. J Comput Chem 2004;25(13):1605- 1612.
-
(2004)
J Comput Chem
, vol.25
, Issue.13
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
|