-
1
-
-
66149125584
-
Targeting HSP90α for cancer therapy
-
Mahalingam D, Swords R, Carew JS, Nawrocki ST, Bhalla K, Giles FJ (2009) Targeting HSP90α for cancer therapy. Br J Cancer 100:1523-1529.
-
(2009)
Br J Cancer
, vol.100
, pp. 1523-1529
-
-
Mahalingam, D.1
Swords, R.2
Carew, J.S.3
Nawrocki, S.T.4
Bhalla, K.5
Giles, F.J.6
-
4
-
-
0043288724
-
Heat shock protein 90 as a molecular target for cancer therapeutics
-
Isaacs JS, Xu W, Neckers L (2003) Heat shock protein 90 as a molecular target for cancer therapeutics. Cancer Cell 3:213-217.
-
(2003)
Cancer Cell
, vol.3
, pp. 213-217
-
-
Isaacs, J.S.1
Xu, W.2
Neckers, L.3
-
5
-
-
41149111451
-
The Hsp90α molecular chaperone: An open and shut case for treatment
-
Pearl LH, Prodromou C, Workman P (2008) The Hsp90α molecular chaperone: an open and shut case for treatment. Biochem J 41:439-453.
-
(2008)
Biochem J
, vol.41
, pp. 439-453
-
-
Pearl, L.H.1
Prodromou, C.2
Workman, P.3
-
6
-
-
0033502429
-
Geldanamycin as a potential anti-cancer agent: Its molecular target and biochemical activity
-
Neckers L, Schulte TW, Mimnaugh E (1999) Geldanamycin as a potential anti-cancer agent: its molecular target and biochemical activity. Invest New Drugs 17:361-373.
-
(1999)
Invest New Drugs
, vol.17
, pp. 361-373
-
-
Neckers, L.1
Schulte, T.W.2
Mimnaugh, E.3
-
8
-
-
38849117688
-
Discovery and development of purine scaffold Hsp90α inhibitors
-
Chiosis G, Kang Y, Sun W (2008) Discovery and development of purine scaffold Hsp90α inhibitors. Expert Opin Drug Discov 3:99-114.
-
(2008)
Expert Opin Drug Discov
, vol.3
, pp. 99-114
-
-
Chiosis, G.1
Kang, Y.2
Sun, W.3
-
9
-
-
35148840116
-
A novel class of Hsp90α inhibitors isolated by structure-based virtual screening
-
Hwangseo P, Yun-Jung K, Ji-Sook H (2007) A novel class of Hsp90α inhibitors isolated by structure-based virtual screening. Bioorg Med Chem Lett 17:6345-6349.
-
(2007)
Bioorg Med Chem Lett
, vol.17
, pp. 6345-6349
-
-
Hwangseo, P.1
Yun-Jung, K.2
Ji-Sook, H.3
-
10
-
-
33645002986
-
4-Amino derivatives of the Hsp90α inhibitor CCT018159
-
Barril X, Beswick M, Collier A, Drysdale M, Dymock B, Fink A, Grant K, Howes R, Jordan A, Massey A (2006) 4-Amino derivatives of the Hsp90α inhibitor CCT018159. Bioorg Med Chem Lett 16:2543-2548.
-
(2006)
Bioorg Med Chem Lett
, vol.16
, pp. 2543-2548
-
-
Barril, X.1
Beswick, M.2
Collier, A.3
Drysdale, M.4
Dymock, B.5
Fink, A.6
Grant, K.7
Howes, R.8
Jordan, A.9
Massey, A.10
-
11
-
-
26844524967
-
Structure-based discovery of a new class of Hsp90α inhibitors
-
Barril X, Brough P, Drysdale M, Hubbard RE, Massey A, Surgenor A, Wright L (2005) Structure-based discovery of a new class of Hsp90α inhibitors. Bioorg Med Chem Lett 15:5187-5191.
-
(2005)
Bioorg Med Chem Lett
, vol.15
, pp. 5187-5191
-
-
Barril, X.1
Brough, P.2
Drysdale, M.3
Hubbard, R.E.4
Massey, A.5
Surgenor, A.6
Wright, L.7
-
12
-
-
0036836964
-
Development of a purine-scaffold novel vlass of Hsp90α binders that inhibit the proliferation of cancer cells and induce the degradation of Her2tyrosine kinase
-
Chiosis G, Lucas B, Shtil A, Huezoa H, Rosen N (2002) Development of a purine-scaffold novel vlass of Hsp90α binders that inhibit the proliferation of cancer cells and induce the degradation of Her2tyrosine kinase. Bioorg Med Chem 10:3555-3564.
-
(2002)
Bioorg Med Chem
, vol.10
, pp. 3555-3564
-
-
Chiosis, G.1
Lucas, B.2
Shtil, A.3
Huezoa, H.4
Rosen, N.5
-
13
-
-
33746379315
-
Using natural product inhibitors to validate Hsp90α as a molecular target in cancer
-
Neckers L (2006) Using natural product inhibitors to validate Hsp90α as a molecular target in cancer. Curr Top Med Chem 6:1163-1171.
-
(2006)
Curr Top Med Chem
, vol.6
, pp. 1163-1171
-
-
Neckers, L.1
-
14
-
-
33749507014
-
Effectiveness of Hsp90α inhibitors as anti-cancer drugs
-
Xiao L, Lu X, Ruden DM (2006) Effectiveness of Hsp90α inhibitors as anti-cancer drugs. Mini-Rev Med Chem 6:1137-1143.
-
(2006)
Mini-Rev Med Chem
, vol.6
, pp. 1137-1143
-
-
Xiao, L.1
Lu, X.2
Ruden, D.M.3
-
16
-
-
34447297884
-
Discovery and design of novel HSP90Α inhibitors using multiple fragment-based design strategies
-
Jeffrey RH, Chang P, Andrew MP, Aaron RK, Michael DW, Xilu W, Christopher LL, Jamey CM, Kerry MS, Russell AJ, Jun C, Paul LR, Sha J, Stephen KT, Edward DM, Sarah AD, Uri SL, Jean MS, Karl AW, Diane MB, Stephen WF, Steven WE, Philip JH (2007) Discovery and design of novel HSP90Α inhibitors using multiple fragment-based design strategies. Chem Biol Drug 70:1-12.
-
(2007)
Chem Biol Drug
, vol.70
, pp. 1-12
-
-
Jeffrey, R.H.1
Chang, P.2
Andrew, M.P.3
Aaron, R.K.4
Michael, D.W.5
Xilu, W.6
Christopher, L.L.7
Jamey, C.M.8
Kerry, M.S.9
Russell, A.J.10
Jun, C.11
Paul, L.R.12
Sha, J.13
Stephen, K.T.14
Edward, D.M.15
Sarah, A.D.16
Uri, S.L.17
Jean, M.S.18
Karl, A.W.19
Diane, M.B.20
Stephen, W.F.21
Steven, W.E.22
Philip, J.H.23
more..
-
17
-
-
79953167563
-
Docking-based comparative intermolecular contacts analysis as new 3-D QSAR concept for validating docking studies and in silico screening: NMTand GP inhibitors as case studies
-
Taha MO, Habash M, Al-Hadidi Z, Al-Bakri A, Younis K, Sisan S (2011) Docking-based comparative intermolecular contacts analysis as new 3-D QSAR concept for validating docking studies and in silico screening: NMTand GP inhibitors as case studies. J Chem Inf Model 51:647-669.
-
(2011)
J Chem Inf Model
, vol.51
, pp. 647-669
-
-
Taha, M.O.1
Habash, M.2
Al-Hadidi, Z.3
Al-Bakri, A.4
Younis, K.5
Sisan, S.6
-
19
-
-
1642540577
-
Evaluation of docking performance: Comparative data on docking algorithms
-
Kontoyianni M, McClellan LM, Sokol GS (2004) Evaluation of docking performance: comparative data on docking algorithms. J Med Chem 47:558-565.
-
(2004)
J Med Chem
, vol.47
, pp. 558-565
-
-
Kontoyianni, M.1
Mcclellan, L.M.2
Sokol, G.S.3
-
20
-
-
77950207644
-
Tackling the challenges posed by target flexibility in drug design
-
Beier C, Zacharias M (2010) Tackling the challenges posed by target flexibility in drug design. Expert Opin Drug Dis 5:347-359.
-
(2010)
Expert Opin Drug Dis
, vol.5
, pp. 347-359
-
-
Beier, C.1
Zacharias, M.2
-
21
-
-
79953203460
-
FlexX suite
-
Boyd S (2007) FlexX suite. Chem World UK 4:72.
-
(2007)
Chem World UK
, vol.4
, pp. 72
-
-
Boyd, S.1
-
22
-
-
0030599010
-
A fast flexible docking method using an incremental construction algorithm
-
Rarey M, Kramer B, Lengauer T, Klebe G (1996) A fast flexible docking method using an incremental construction algorithm. J Mol Biol 261:470-489.
-
(1996)
J Mol Biol
, vol.261
, pp. 470-489
-
-
Rarey, M.1
Kramer, B.2
Lengauer, T.3
Klebe, G.4
-
23
-
-
0035025191
-
DOCK 4.0: Search strategies for automated molecular docking of flexible molecule databases
-
Ewing TJA, Makino S, Skillman AG, Kuntz ID (2001) DOCK 4.0: search strategies for automated molecular docking of flexible molecule databases. J Comput Aid Mol Des 15:411-428.
-
(2001)
J Comput Aid Mol des
, vol.15
, pp. 411-428
-
-
Ewing, T.J.A.1
Makino, S.2
Skillman, A.G.3
Kuntz, I.D.4
-
24
-
-
0031552362
-
Development and validation of a genetic algorithm for flexible docking
-
Jones G, Willett P, Glen RC, Leach AR, Taylor R (1997) Development and validation of a genetic algorithm for flexible docking. J Mol Biol 267:727-748.
-
(1997)
J Mol Biol
, vol.267
, pp. 727-748
-
-
Jones, G.1
Willett, P.2
Glen, R.C.3
Leach, A.R.4
Taylor, R.5
-
25
-
-
39449120398
-
Protein-ligand docking: A review of recent advances and future perspectives
-
Vaque M, Ardrevol A, Blade C, Salvado MJ, Blay M, Fernandez- Larrea J, Arola L, Pujadas G (2008) Protein-ligand docking: a review of recent advances and future perspectives. Curr Pharm Anal 4:1-19.
-
(2008)
Curr Pharm Anal
, vol.4
, pp. 1-19
-
-
Vaque, M.1
Ardrevol, A.2
Blade, C.3
Salvado, M.J.4
Blay, M.5
Fernandez-Larrea, J.6
Arola, L.7
Pujadas, G.8
-
26
-
-
77952809660
-
Virtual screening with AutoDock: Theory and practice
-
Cosconati S, Forli S, Perryman AL, Harris R, Goodsell DS, Olson AJ (2010) Virtual screening with AutoDock: theory and practice. Expert Opin Drug Dis 5:597-607.
-
(2010)
Expert Opin Drug Dis
, vol.5
, pp. 597-607
-
-
Cosconati, S.1
Forli, S.2
Perryman, A.L.3
Harris, R.4
Goodsell, D.S.5
Olson, A.J.6
-
27
-
-
11644261806
-
Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function
-
Morris GM, Goodsell DS, Halliday RS, Huey R, Hart WE, Belew RK, Olson AJ (1998) Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function. J Comput Chem 19:1639-1662.
-
(1998)
J Comput Chem
, vol.19
, pp. 1639-1662
-
-
Morris, G.M.1
Goodsell, D.S.2
Halliday, R.S.3
Huey, R.4
Hart, W.E.5
Belew, R.K.6
Olson, A.J.7
-
28
-
-
1642310340
-
Glide: A new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening
-
Halgren TA, Murphy RB, Friesner RA, Beard HS, Frye LL, Pollard WT, Banks JL (2004) Glide: a new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening. J Med Chem 47:1750-1759.
-
(2004)
J Med Chem
, vol.47
, pp. 1750-1759
-
-
Halgren, T.A.1
Murphy, R.B.2
Friesner, R.A.3
Beard, H.S.4
Frye, L.L.5
Pollard, W.T.6
Banks, J.L.7
-
29
-
-
84870533337
-
-
Accelrys Inc., Accelrys Inc. San Diego
-
Accelrys Inc. (2000) Cerius2 LigandFit 4.10. Accelrys Inc., San Diego.
-
(2000)
Cerius2 LigandFit 4.10
-
-
-
30
-
-
0035342434
-
High throughput docking for library design and library prioritization
-
Diller DJ, Merz KM (2001) High throughput docking for library design and library prioritization. Proteins 43:113-124.
-
(2001)
Proteins
, vol.43
, pp. 113-124
-
-
Diller, D.J.1
Merz, K.M.2
-
31
-
-
65749110436
-
Computational intelligence methods for docking scores
-
Hecht D, Fogel GB (2009) Computational intelligence methods for docking scores. Curr Comput Aid Drug 5:56-68.
-
(2009)
Curr Comput Aid Drug
, vol.5
, pp. 56-68
-
-
Hecht, D.1
Fogel, G.B.2
-
32
-
-
0034649618
-
Protein-based virtual screening of chemical databases. 1. Evaluation of different docking/scoring combinations
-
Bissantz C, Folkers G, Rognan D (2000) Protein-based virtual screening of chemical databases. 1. Evaluation of different docking/scoring combinations. J Med Chem 43:4759-4767.
-
(2000)
J Med Chem
, vol.43
, pp. 4759-4767
-
-
Bissantz, C.1
Folkers, G.2
Rognan, D.3
-
33
-
-
0001704085
-
SCORE: A new empirical method for estimating the binding affinity of a protein-ligand complex
-
Gao WR, Lai YL (1998) SCORE: a new empirical method for estimating the binding affinity of a protein-ligand complex. J Mol Model 4:379-394.
-
(1998)
J Mol Model
, vol.4
, pp. 379-394
-
-
Gao, W.R.1
Lai, Y.L.2
-
34
-
-
15244346501
-
LigScore: A novel scoring function for predicting binding affinities
-
Krammer A, Kirchhoff PD, Jiang X, Venkatachalam CM, Waldman M (2005) LigScore: a novel scoring function for predicting binding affinities. J Mol Graph Model 23:395-407.
-
(2005)
J Mol Graph Model
, vol.23
, pp. 395-407
-
-
Krammer, A.1
Kirchhoff, P.D.2
Jiang, X.3
Venkatachalam, C.M.4
Waldman, M.5
-
35
-
-
26444588137
-
Drug score-knowledgebased scoring function derived from small molecule crystal data with superior recognition rate of near-native ligand poses and better affinity prediction
-
Velec HFG, Gohlke H, Klebe G (2005) Drug score-knowledgebased scoring function derived from small molecule crystal data with superior recognition rate of near-native ligand poses and better affinity prediction. J Med Chem 48:6296-6303.
-
(2005)
J Med Chem
, vol.48
, pp. 6296-6303
-
-
Velec, H.F.G.1
Gohlke, H.2
Klebe, G.3
-
36
-
-
33749513370
-
Scoring functions for protein-ligand docking
-
Jain AN (2006) Scoring functions for protein-ligand docking. Curr Protein Pept Sci 7:407-420.
-
(2006)
Curr Protein Pept Sci
, vol.7
, pp. 407-420
-
-
Jain, A.N.1
-
37
-
-
34249278087
-
Ranking poses in structure-based lead discovery and optimization: Current trends in scoring function development
-
Rajamani R, Good AC (2007) Ranking poses in structure-based lead discovery and optimization: current trends in scoring function development. Curr Opin Drug Disc 10:308-315.
-
(2007)
Curr Opin Drug Disc
, vol.10
, pp. 308-315
-
-
Rajamani, R.1
Good, A.C.2
-
38
-
-
2942720960
-
Impact of scoring functions on enrichment in docking- based virtual screening: An application study on renin inhibitors
-
Krovat EM, Langer T (2004) Impact of scoring functions on enrichment in docking- based virtual screening: an application study on renin inhibitors. J Chem Inf Comput Sci 44:1123-1129.
-
(2004)
J Chem Inf Comput Sci
, vol.44
, pp. 1123-1129
-
-
Krovat, E.M.1
Langer, T.2
-
39
-
-
33845335781
-
Towards predictive ligand design with free-energy based computational methods?
-
Foloppe N, Hubbard R (2006) Towards predictive ligand design with free-energy based computational methods? Curr Med Chem 13:3583-3608.
-
(2006)
Curr Med Chem
, vol.13
, pp. 3583-3608
-
-
Foloppe, N.1
Hubbard, R.2
-
40
-
-
67650077384
-
Docking ligands into flexible and solvated macromolecules
-
Are popular scoring functions accurate for this class of proteins?
-
Englebienne P, Moitessier N (2009) Docking ligands into flexible and solvated macromolecules. Are popular scoring functions accurate for this class of proteins? J Chem Inf Model 49:1568-1580.
-
(2009)
J Chem Inf Model
, vol.49
, pp. 1568-1580
-
-
Englebienne, P.1
Moitessier, N.2
-
41
-
-
0030255303
-
Scoring non-covalent protein-ligand interactions: A continuous differentiable function tuned to compute binding affinities
-
Jain AN (1996) Scoring non-covalent protein-ligand interactions: a continuous differentiable function tuned to compute binding affinities. J Comput Aided Mol Des 10:427-440.
-
(1996)
J Comput Aided Mol des
, vol.10
, pp. 427-440
-
-
Jain, A.N.1
-
42
-
-
0032112137
-
Prediction of binding constants of protein ligands: A fast method for the prioritization of hits obtained from de novo design or 3D database search programs
-
Böhm HJ (1998) Prediction of binding constants of protein ligands: a fast method for the prioritization of hits obtained from de novo design or 3D database search programs. J Comput Aided Mol Des 12:309-323.
-
(1998)
J Comput Aided Mol des
, vol.12
, pp. 309-323
-
-
Böhm, H.J.1
-
43
-
-
0031226772
-
Empirical scoring functions: I. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes
-
Eldridge MD, Murray CW, Auton TR, Paolini GV, Mee RP (1997) Empirical scoring functions: I. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes. J Comput Aided Mol Des 11:425-445.
-
(1997)
J Comput Aided Mol des
, vol.11
, pp. 425-445
-
-
Eldridge, M.D.1
Murray, C.W.2
Auton, T.R.3
Paolini, G.V.4
Mee, R.P.5
-
44
-
-
0001704085
-
SCORE: A new empirical method for estimating the binding affinity of a protein-ligand complex
-
Wang R, Gao Y, Lai L (1998) SCORE: a new empirical method for estimating the binding affinity of a protein-ligand complex. J Mol Model 4:379-394.
-
(1998)
J Mol Model
, vol.4
, pp. 379-394
-
-
Wang, R.1
Gao, Y.2
Lai, L.3
-
45
-
-
0039012103
-
Reduced dimensionality in ligand-protein structure prediction: Covalent inhibitors of serine proteases and design of site-directed combinatorial libraries
-
Parrill L, Rami Reddy M (eds), American Chemical Society, Washington, DC
-
Gehlhaar DK, Bouzida D, Rejto P (1999) Reduced dimensionality in ligand-protein structure prediction: covalent inhibitors of serine proteases and design of site-directed combinatorial libraries. In: Parrill L, Rami Reddy M (eds) Rational drug design: novel methodology and practical applications. American Chemical Society, Washington, DC, pp 292-311.
-
(1999)
Rational Drug Design: Novel Methodology and Practical Applications
, pp. 292-311
-
-
Gehlhaar, D.K.1
Bouzida, D.2
Rejto, P.3
-
46
-
-
0036022960
-
Further development and of empirical scoring functions for structure-based binding validation affinity prediction
-
Wang R, Lai L, Wang S (2002) Further development and of empirical scoring functions for structure-based binding validation affinity prediction. J Comput Aided Mol Des 16:11-26.
-
(2002)
J Comput Aided Mol des
, vol.16
, pp. 11-26
-
-
Wang, R.1
Lai, L.2
Wang, S.3
-
47
-
-
0033545622
-
A general and fast scoring function for protein-ligand interactions: A simplified potential approach
-
Muegge I, Martin YC (1999) A general and fast scoring function for protein-ligand interactions: a simplified potential approach. J Med Chem 42:791-804.
-
(1999)
J Med Chem
, vol.42
, pp. 791-804
-
-
Muegge, I.1
Martin, Y.C.2
-
48
-
-
0033673508
-
A knowledge-based scoring function for protein- ligand interactions: Probing the reference state
-
Muegge I (2000) A knowledge-based scoring function for protein- ligand interactions: probing the reference state. Perspect Drug Discov 20:99-114.
-
(2000)
Perspect Drug Discov
, vol.20
, pp. 99-114
-
-
Muegge, I.1
-
49
-
-
0001745748
-
Effect of ligand volume correction on PMF scoring
-
Muegge I (2001) Effect of ligand volume correction on PMF scoring. J Comput Chem 22:418-425.
-
(2001)
J Comput Chem
, vol.22
, pp. 418-425
-
-
Muegge, I.1
-
50
-
-
0034645763
-
Knowledge-based scoring function to predict protein-ligand interactions
-
Gohlke H, Hendlich M, Klebe G (2000) Knowledge-based scoring function to predict protein-ligand interactions. J Mol Biol 295:337-356.
-
(2000)
J Mol Biol
, vol.295
, pp. 337-356
-
-
Gohlke, H.1
Hendlich, M.2
Klebe, G.3
-
51
-
-
33749242403
-
PMF scoring revisited
-
Muegge I (2006) PMF scoring revisited. J Med Chem 49:5895- 5902.
-
(2006)
J Med Chem
, vol.49
, pp. 5895-5902
-
-
Muegge, I.1
-
52
-
-
69249141491
-
Recent advances in computeraided drug design
-
Song CM, Lim SJ, Tong JC (2009) Recent advances in computeraided drug design. Brief Bioinform 10:579-591.
-
(2009)
Brief Bioinform
, vol.10
, pp. 579-591
-
-
Song, C.M.1
Lim, S.J.2
Tong, J.C.3
-
53
-
-
67649225348
-
Efficient drug lead discovery and optimization
-
Jorgensen WL (2009) Efficient drug lead discovery and optimization. Acc Chem Res 42:724-733.
-
(2009)
Acc Chem Res
, vol.42
, pp. 724-733
-
-
Jorgensen, W.L.1
-
54
-
-
33749245117
-
Prediction of protein- ligand interactions
-
Docking and scoring: Successes and gaps
-
Leach AR, Shoichet BK, Peishoff CE (2006) Prediction of protein- ligand interactions. Docking and scoring: successes and gaps. J Med Chem 49:5851-5855.
-
(2006)
J Med Chem
, vol.49
, pp. 5851-5855
-
-
Leach, A.R.1
Shoichet, B.K.2
Peishoff, C.E.3
-
55
-
-
33745199815
-
Virtual ligand screening: Strategies, perspectives and limitations
-
Klebe G (2006) Virtual ligand screening: strategies, perspectives and limitations. Drug Discov Today 11:580-594.
-
(2006)
Drug Discov Today
, vol.11
, pp. 580-594
-
-
Klebe, G.1
-
56
-
-
72449167058
-
Crystal contacts as nature's docking solutions
-
Krissinel E (2009) Crystal contacts as nature's docking solutions. J Comput Chem 31:133-143.
-
(2009)
J Comput Chem
, vol.31
, pp. 133-143
-
-
Krissinel, E.1
-
57
-
-
77950650980
-
Towards accurate free energy calculations in ligand protein-binding studies
-
Steinbrecher T, Labahn A (2010) Towards accurate free energy calculations in ligand protein-binding studies. Curr Med Chem 17:767-785.
-
(2010)
Curr Med Chem
, vol.17
, pp. 767-785
-
-
Steinbrecher, T.1
Labahn, A.2
-
58
-
-
29144472246
-
Effects of variable docking conditions and scoring functions on the qualities of protein aligned CoMFA models constructed from diverse h-PTP 1B inhibitors
-
Taha MO, AlDhamin M (2005) Effects of variable docking conditions and scoring functions on the qualities of protein aligned CoMFA models constructed from diverse h-PTP 1B inhibitors. J Med Chem 48:8016-8034.
-
(2005)
J Med Chem
, vol.48
, pp. 8016-8034
-
-
Taha, M.O.1
Aldhamin, M.2
-
59
-
-
0032993815
-
Scoring functions: A view from the bench
-
Tame JRH (1999) Scoring functions: a view from the bench. J Comput Aided Mol Des 13:99-108.
-
(1999)
J Comput Aided Mol des
, vol.13
, pp. 99-108
-
-
Tame, J.R.H.1
-
60
-
-
7044239742
-
Free energy calculations: Applications to chemical and biochemical phenomena
-
Kollman P (1993) Free energy calculations: applications to chemical and biochemical phenomena. Chem Rev 93:2395-2417.
-
(1993)
Chem Rev
, vol.93
, pp. 2395-2417
-
-
Kollman, P.1
-
61
-
-
34447108978
-
Water, water everywhere-except where it matters
-
Homans SW (2007) Water, water everywhere-except where it matters. Drug Discov Today 12:534-539.
-
(2007)
Drug Discov Today
, vol.12
, pp. 534-539
-
-
Homans, S.W.1
-
62
-
-
0029450365
-
Hydration in drug design
-
1.Multiple hydrogen-bonding features of water molecules in mediating protein- ligand interactions
-
Poornima CS, Dean PM (1995) Hydration in drug design. 1.Multiple hydrogen-bonding features of water molecules in mediating protein- ligand interactions. J Comput Aided Mol Des 9:500-512.
-
(1995)
J Comput Aided Mol des
, vol.9
, pp. 500-512
-
-
Poornima, C.S.1
Dean, P.M.2
-
63
-
-
0029444719
-
Hydration in drug design
-
2. Influence of local site surface shape on water binding
-
Poornima CS, Dean PM (1995) Hydration in drug design. 2. Influence of local site surface shape on water binding. J Comput Aided Mol Des 9:513-520.
-
(1995)
J Comput Aided Mol des
, vol.9
, pp. 513-520
-
-
Poornima, C.S.1
Dean, P.M.2
-
64
-
-
0029450636
-
Hydration in drug design
-
3. Conserved water molecules at the ligand-binding sites of homologous proteins
-
Poornima CS, Dean PM (1995) Hydration in drug design. 3. Conserved water molecules at the ligand-binding sites of homologous proteins. J Comput Aided Mol Des 9:521-531.
-
(1995)
J Comput Aided Mol des
, vol.9
, pp. 521-531
-
-
Poornima, C.S.1
Dean, P.M.2
-
65
-
-
0009939918
-
Modeling drug-receptor interactions
-
Cohen NC (ed), Academic, San Diego
-
Koehler KF, Rao SN, Snyder JP (1996) Modeling drug-receptor interactions. In: Cohen NC (ed) Guidebook on molecular modeling in drug design. Academic, San Diego, pp 235-336.
-
(1996)
Guidebook on Molecular Modeling in Drug Design
, pp. 235-336
-
-
Koehler, K.F.1
Rao, S.N.2
Snyder, J.P.3
-
66
-
-
0031442549
-
A strategy for the incorporation of water molecules present in a ligand binding site into a three-dimensional quantitative structure-activity relationship analysis
-
Pastor M, Cruciani G, Watson K (1997) A strategy for the incorporation of water molecules present in a ligand binding site into a three-dimensional quantitative structure-activity relationship analysis. J Med Chem 40:4089-4102.
-
(1997)
J Med Chem
, vol.40
, pp. 4089-4102
-
-
Pastor, M.1
Cruciani, G.2
Watson, K.3
-
68
-
-
29144505998
-
New methods for structure-based de novo drug design
-
Harvey AL (ed), Wiley, Chichester
-
Waszkowycz B (1998) New methods for structure-based de novo drug design. In: Harvey AL (ed) Advances in drug discovery techniques. Wiley, Chichester, pp 150-153.
-
(1998)
Advances in Drug Discovery Techniques
, pp. 150-153
-
-
Waszkowycz, B.1
-
69
-
-
37249031360
-
Lessons in molecular recognition
-
2. Assessing and improving crossdocking accuracy
-
Sutherland JJ, Nandigam RK, Erickson JA, Vieth M (2007) Lessons in molecular recognition. 2. Assessing and improving crossdocking accuracy. J Chem Inf Model 47:2293-2302.
-
(2007)
J Chem Inf Model
, vol.47
, pp. 2293-2302
-
-
Sutherland, J.J.1
Nandigam, R.K.2
Erickson, J.A.3
Vieth, M.4
-
70
-
-
2942721004
-
Virtual screening using protein-ligand docking: Avoiding artificial enrichment
-
Verdonk ML, Berdini V, Hartshorn MJ, Mooij WTM, Murray CW, Watson P (2004) Virtual screening using protein-ligand docking: avoiding artificial enrichment. J Chem Inf Comput Sci 44:793-806.
-
(2004)
J Chem Inf Comput Sci
, vol.44
, pp. 793-806
-
-
Verdonk, M.L.1
Berdini, V.2
Hartshorn, M.J.3
Mooij, W.T.M.4
Murray, C.W.5
Watson, P.6
-
71
-
-
0037763817
-
Comparative evaluation of 11 scoring functions for molecular docking
-
Wang R, Lu Y, Wang S (2003) Comparative evaluation of 11 scoring functions for molecular docking. J Med Chem 46:2287-2303.
-
(2003)
J Med Chem
, vol.46
, pp. 2287-2303
-
-
Wang, R.1
Lu, Y.2
Wang, S.3
-
72
-
-
34548289768
-
Combining docking, scoring and molecular field analyses to probe influenza neuraminidase- ligand interactions
-
Abu-Hammad AM, Afifi F, Taha MO (2007) Combining docking, scoring and molecular field analyses to probe influenza neuraminidase- ligand interactions. J Mol Graph Model 26:443-456.
-
(2007)
J Mol Graph Model
, vol.26
, pp. 443-456
-
-
Abu-Hammad, A.M.1
Afifi, F.2
Taha, M.O.3
-
73
-
-
64249106202
-
Homology modeling of MCH1 receptor and validation by docking/scoring and protein-aligned CoMFA
-
Abu-Hammad A, Zalloum WA, Zalloum H, Abu-Sheikha G, Taha MO (2009) Homology modeling of MCH1 receptor and validation by docking/scoring and protein-aligned CoMFA. Eur J Med Chem 44:2583-2596.
-
(2009)
Eur J Med Chem
, vol.44
, pp. 2583-2596
-
-
Abu-Hammad, A.1
Zalloum, W.A.2
Zalloum, H.3
Abu-Sheikha, G.4
Taha, M.O.5
-
74
-
-
0037212102
-
LigandFit: A novel method for the shape-directed rapid docking of ligands to protein active sites
-
Venkatachalam CM, Jiang X, Oldfield T, Waldman M (2003) LigandFit: a novel method for the shape-directed rapid docking of ligands to protein active sites. J Mol Graph Model 21:289-307.
-
(2003)
J Mol Graph Model
, vol.21
, pp. 289-307
-
-
Venkatachalam, C.M.1
Jiang, X.2
Oldfield, T.3
Waldman, M.4
-
75
-
-
38349157746
-
4, 5-Diarylisoxazole Hsp90α chaperone inhibitors: Potential therapeutic agents for the treatment of cancer
-
Brough PA, Aherne W, Barril X, Borgognoni J, Boxall K, Cansfield JE, Cheung K-MJ et al (2008) 4, 5-Diarylisoxazole Hsp90α chaperone inhibitors: potential therapeutic agents for the treatment of cancer. J Med Chem 51:196-218.
-
(2008)
J Med Chem
, vol.51
, pp. 196-218
-
-
Brough, P.A.1
Aherne, W.2
Barril, X.3
Borgognoni, J.4
Boxall, K.5
Cansfield, J.E.6
Cheung, K.-M.J.7
-
76
-
-
33746341544
-
Discovery and development of pyrazole-scaffold Hsp90α inhibitors
-
McDonald E, Jones K, Brough PA, Drysdale MJ, Workman P (2006) Discovery and development of pyrazole-scaffold Hsp90α inhibitors. Curr Top Med Chem 6:1193-1203.
-
(2006)
Curr Top Med Chem
, vol.6
, pp. 1193-1203
-
-
Mcdonald, E.1
Jones, K.2
Brough, P.A.3
Drysdale, M.J.4
Workman, P.5
-
77
-
-
39149136212
-
Discovery of benzisoxazoles as potent inhibitors of chaperone heat shock protein 90
-
Gopalsamy A, Shi M, Golas J, Vogan E, Jacob J, Johnson M, Lee F, Nilakantan R, Petersen R, Svenson K, Chopra R, Tam MS, Wen Y, Ellingboe J, Arndt K, Boschelli F (2008) Discovery of benzisoxazoles as potent inhibitors of chaperone heat shock protein 90. J Med Chem 51:373-375.
-
(2008)
J Med Chem
, vol.51
, pp. 373-375
-
-
Gopalsamy, A.1
Shi, M.2
Golas, J.3
Vogan, E.4
Jacob, J.5
Johnson, M.6
Lee, F.7
Nilakantan, R.8
Petersen, R.9
Svenson, K.10
Chopra, R.11
Tam, M.S.12
Wen, Y.13
Ellingboe, J.14
Arndt, K.15
Boschelli, F.16
-
78
-
-
49149147973
-
Iterative partial equalization of orbital electronegativity- A rapid access to atomic charges
-
Gasteiger J, Marsili M (1980) Iterative partial equalization of orbital electronegativity-a rapid access to atomic charges. Tetrahedron 36:3219-3228.
-
(1980)
Tetrahedron
, vol.36
, pp. 3219-3228
-
-
Gasteiger, J.1
Marsili, M.2
-
79
-
-
0029294584
-
Molecular recognition of the inhibitor AG-1343 by HIV-1 protease: Conformationally flexible docking by evolutionary programming
-
Gehlhaar DK, Verkhivker GM, Rejto PA, Sherman CJ, Fogel DB, Fogel LJ, Freer ST (1995) Molecular recognition of the inhibitor AG-1343 by HIV-1 protease: conformationally flexible docking by evolutionary programming. Chem Biol 2:317-324.
-
(1995)
Chem Biol
, vol.2
, pp. 317-324
-
-
Gehlhaar, D.K.1
Verkhivker, G.M.2
Rejto, P.A.3
Sherman, C.J.4
Fogel, D.B.5
Fogel, L.J.6
Freer, S.T.7
-
80
-
-
84861335128
-
-
Accelrys Inc., Accelrys Inc. San Diego
-
Accelrys Inc. (2009) Discovery Studio 2.5. Accelrys Inc., San Diego.
-
(2009)
Discovery Studio 2.5
-
-
-
81
-
-
33749239830
-
Discovery of potent inhibitors of pseudomonal quorum sensing via pharmacophore modeling and in silico screening
-
Taha MO, Al-Bakri AG, Zalloum WA (2006) Discovery of potent inhibitors of pseudomonal quorum sensing via pharmacophore modeling and in silico screening. Bioorg Med Chem Lett 16:5902-5906.
-
(2006)
Bioorg Med Chem Lett
, vol.16
, pp. 5902-5906
-
-
Taha, M.O.1
Al-Bakri, A.G.2
Zalloum, W.A.3
-
82
-
-
33846794737
-
Discovery of new potent human protein tyrosine phosphatase inhibitors via pharmacophore and QSAR analysis followed by in silico screening
-
Taha MO, Bustanji Y, Al-Bakri AG, Al-Motassem Y, Zalloum WA, Al-Masri IM, Atallah N (2007) Discovery of new potent human protein tyrosine phosphatase inhibitors via pharmacophore and QSAR analysis followed by in silico screening. J Mol Graph Model 25:870-884.
-
(2007)
J Mol Graph Model
, vol.25
, pp. 870-884
-
-
Taha, M.O.1
Bustanji, Y.2
Al-Bakri, A.G.3
Al-Motassem, Y.4
Zalloum, W.A.5
Al-Masri, I.M.6
Atallah, N.7
-
83
-
-
33646036989
-
Highthroughput screening for Hsp90α ATPase inhibitors
-
Avila C, Hadden MK, Ma Z, Kornilayev BA, Ye QZ, Blagg BS (2006) Highthroughput screening for Hsp90α ATPase inhibitors. Bioorg Med Chem Lett 16:3005-3008.
-
(2006)
Bioorg Med Chem Lett
, vol.16
, pp. 3005-3008
-
-
Avila, C.1
Hadden, M.K.2
Ma, Z.3
Kornilayev, B.A.4
Ye, Q.Z.5
Blagg, B.S.6
-
85
-
-
30344445980
-
Development and optimization of a useful assay for determining Hsp90s inherent ATPase activity
-
Christopher A, Boris AK, Brian SJ (2006) Development and optimization of a useful assay for determining Hsp90s inherent ATPase activity. Bioorg Med Chem 14:1134-1142.
-
(2006)
Bioorg Med Chem
, vol.14
, pp. 1134-1142
-
-
Christopher, A.1
Boris, A.K.2
Brian, S.J.3
-
86
-
-
80052837394
-
Some sulfonamide drugs inhibit AT pase activity of heat shock protein 90: Investigation by docking simulation and experimental validation
-
Abu Sheikha G, Al-Sha'er MA, Taha MO (2011) Some sulfonamide drugs inhibit ATPase activity of heat shock protein 90: investigation by docking simulation and experimental validation. J Enzym Inhibit Med Chem 26:603-609.
-
(2011)
J Enzym Inhibit Med Chem
, vol.26
, pp. 603-609
-
-
Abu, S.G.1
Al-Sha'er, M.A.2
Taha, M.O.3
-
87
-
-
77957221382
-
Elaborate ligand-based modeling reveal new nanomolar heat shock protein 90a inhibitors
-
Al-Sha'er MA, Taha MO (2010) Elaborate ligand-based modeling reveal new nanomolar heat shock protein 90a inhibitors. J Chem Inf Model 50:1706-1723.
-
(2010)
J Chem Inf Model
, vol.50
, pp. 1706-1723
-
-
Al-Sha'er, M.A.1
Taha, M.O.2
-
88
-
-
56049116069
-
Discovery of DPP IV inhibitors by pharmacophore modeling and QSAR analysis followed by in silico screening
-
Al-masri IM, Mohammad MK, Taha MO (2008) Discovery of DPP IV inhibitors by pharmacophore modeling and QSAR analysis followed by in silico screening. Chem Med Chem 3:1763-1779.
-
(2008)
Chem Med Chem
, vol.3
, pp. 1763-1779
-
-
Al-Masri, I.M.1
Mohammad, M.K.2
Taha, M.O.3
-
89
-
-
77955557891
-
Discovery of novel CDK1 inhibitors by combining pharmacophore modeling, QSAR analysis and in silico screening followed by in vitro bioassay
-
Al-Sha'er MA, Taha MO (2010) Discovery of novel CDK1 inhibitors by combining pharmacophore modeling, QSAR analysis and in silico screening followed by in vitro bioassay. Eur J Med Chem 45:4316-4330.
-
(2010)
Eur J Med Chem
, vol.45
, pp. 4316-4330
-
-
Al-Sha'er, M.A.1
Taha, M.O.2
-
90
-
-
13844312649
-
ZINC-A free database of commercially available compounds for virtual screening
-
Irwin JJ, Shoichet BK (2005) ZINC-a free database of commercially available compounds for virtual screening. J Chem Inf Model 45:177-182.
-
(2005)
J Chem Inf Model
, vol.45
, pp. 177-182
-
-
Irwin, J.J.1
Shoichet, B.K.2
-
91
-
-
41349106585
-
Evaluation of the performance of 3D virtual screening protocols: RMSD comparisons, enrichment assessments, and decoy selection
-
Kirchmair J, Markt P, Distinto S, Wolber G, Langer T (2008) Evaluation of the performance of 3D virtual screening protocols: RMSD comparisons, enrichment assessments, and decoy selection. What can we learn from earliermistakes? J Comput Aided Mol Des 22:213-228.
-
(2008)
What Can We Learn from Earliermistakes? J Comput Aided Mol des
, vol.22
, pp. 213-228
-
-
Kirchmair, J.1
Markt, P.2
Distinto, S.3
Wolber, G.4
Langer, T.5
-
92
-
-
0346996357
-
Improving structure-based virtual screening by multivariate analysis of scoring data
-
Jacobsson M, Liden P, Stjernschantz E, Bostroem H, Norinder U (2003) Improving structure-based virtual screening by multivariate analysis of scoring data. J Med Chem 46:5781-5789.
-
(2003)
J Med Chem
, vol.46
, pp. 5781-5789
-
-
Jacobsson, M.1
Liden, P.2
Stjernschantz, E.3
Bostroem, H.4
Norinder, U.5
-
93
-
-
17144385534
-
Virtual screening workflow development guided by the "receiver operating characteristic" curve approach
-
Application to high-throughput docking on metabotropic glutamate receptor subtype
-
Triballeau N, Acher F, Brabet I, Pin JP, Bertrand HO (2005) Virtual screening workflow development guided by the "receiver operating characteristic" curve approach. Application to high-throughput docking on metabotropic glutamate receptor subtype. J Med Chem 48:2534-2547.
-
(2005)
J Med Chem
, vol.48
, pp. 2534-2547
-
-
Triballeau, N.1
Acher, F.2
Brabet, I.3
Pin, J.P.4
Bertrand, H.O.5
-
94
-
-
13244266921
-
Lead- and drug-like compounds: The rule-offive revolution
-
Lipinski CA (2004) Lead- and drug-like compounds: the rule-offive revolution. Drug Discov Today Technol 1:337-341.
-
(2004)
Drug Discov Today Technol
, vol.1
, pp. 337-341
-
-
Lipinski, C.A.1
-
95
-
-
33644665083
-
A fluorescence polarization assay for inhibitors of Hsp90
-
Howes R, Barril X, Dymock BW, Grant K, NorthWeld CJ, Robertson AGS, Surgenor A, Wayne J, Wright L, James K, Matthews T, Cheung KM, McDonald E, Workman P, Drysdale MJ (2006) A fluorescence polarization assay for inhibitors of Hsp90. Anal Biochem 350:202-213.
-
(2006)
Anal Biochem
, vol.350
, pp. 202-213
-
-
Howes, R.1
Barril, X.2
Dymock, B.W.3
Grant, K.4
Northweld, C.J.5
Robertson, A.G.S.6
Surgenor, A.7
Wayne, J.8
Wright, L.9
James, K.10
Matthews, T.11
Cheung, K.M.12
Mcdonald, E.13
Workman, P.14
Drysdale, M.J.15
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