-
2
-
-
84907463401
-
Design, Synthesis, and Structure - Activity and Structure - Pharmacokinetic Relationship Studies of Novel [6,6,5] Tricyclic Fused Oxazolidinones Leading to the Discovery of a Potent, Selective, and Orally Bioavailable FXa Inhibitor
-
Xue, T.; Ding, S.; Guo, B.; Zhou, Y.; Sun, P.; Wang, H.; Chu, W.; Gong, G.; Wang, Y.; Chen, X.; Yang, Y. Design, Synthesis, and Structure-Activity and Structure-Pharmacokinetic Relationship Studies of Novel [6,6,5] Tricyclic Fused Oxazolidinones Leading to the Discovery of a Potent, Selective, and Orally Bioavailable FXa Inhibitor J. Med. Chem. 2014, 57, 7770-7791
-
(2014)
J. Med. Chem.
, vol.57
, pp. 7770-7791
-
-
Xue, T.1
Ding, S.2
Guo, B.3
Zhou, Y.4
Sun, P.5
Wang, H.6
Chu, W.7
Gong, G.8
Wang, Y.9
Chen, X.10
Yang, Y.11
-
3
-
-
84893807769
-
Cofactor-Independent Phosphoglycerate Mutase from Nematodes Has Limited Druggability, as Revealed by Two High-Throughput Screens
-
Crowther, G. J.; Booker, M. L.; He, M.; Li, T.; Raverdy, S.; Novelli, J. F.; He, P.; Dale, N. R. G.; Fife, A. M.; Barker, R. H.; Kramer, M. L.; Van Voorhis, W. C.; Carlow, C. K. S.; Wang, M.-W. Cofactor-Independent Phosphoglycerate Mutase from Nematodes Has Limited Druggability, as Revealed by Two High-Throughput Screens PLoS Negl. Trop. Dis. 2014, 8, e2628
-
(2014)
PLoS Negl. Trop. Dis.
, vol.8
-
-
Crowther, G.J.1
Booker, M.L.2
He, M.3
Li, T.4
Raverdy, S.5
Novelli, J.F.6
He, P.7
Dale, N.R.G.8
Fife, A.M.9
Barker, R.H.10
Kramer, M.L.11
Van Voorhis, W.C.12
Carlow, C.K.S.13
Wang, M.-W.14
-
4
-
-
17144373303
-
Druggability Indices for Protein Targets Derived from NMR-Based Screening Data
-
Hajduk, P. J.; Huth, J. R.; Fesik, S. W. Druggability Indices for Protein Targets Derived from NMR-Based Screening Data J. Med. Chem. 2005, 48, 2518-2525
-
(2005)
J. Med. Chem.
, vol.48
, pp. 2518-2525
-
-
Hajduk, P.J.1
Huth, J.R.2
Fesik, S.W.3
-
5
-
-
33846155913
-
Structure-Based Maximal Affinity Model Predicts Small-Molecule Druggability
-
Cheng, A. C.; Coleman, R. G.; Smyth, K. T.; Cao, Q.; Soulard, P.; Caffrey, D. R.; Salzberg, A. C.; Huang, E. S. Structure-Based Maximal Affinity Model Predicts Small-Molecule Druggability Nat. Biotechnol. 2007, 25, 71-75
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 71-75
-
-
Cheng, A.C.1
Coleman, R.G.2
Smyth, K.T.3
Cao, Q.4
Soulard, P.5
Caffrey, D.R.6
Salzberg, A.C.7
Huang, E.S.8
-
6
-
-
0842274205
-
Rediscovering the Sweet Spot in Drug Discovery
-
Brown, D.; Superti-Furga, G. Rediscovering the Sweet Spot in Drug Discovery Drug Discovery Today 2003, 8, 1067-1077
-
(2003)
Drug Discovery Today
, vol.8
, pp. 1067-1077
-
-
Brown, D.1
Superti-Furga, G.2
-
7
-
-
54849423239
-
Predicting Selectivity and Druggability in Drug Discovery
-
Cheng, A. C. Predicting Selectivity and Druggability in Drug Discovery Annu. Rep. Comput. Chem. 2008, 4, 23-37
-
(2008)
Annu. Rep. Comput. Chem.
, vol.4
, pp. 23-37
-
-
Cheng, A.C.1
-
8
-
-
79960985571
-
Structure-Based Druggability Assessment - Identifying Suitable Targets for Small Molecule Therapeutics
-
Fauman, E. B.; Rai, B. K.; Huang, E. S. Structure-Based Druggability Assessment - Identifying Suitable Targets for Small Molecule Therapeutics Curr. Opin. Chem. Biol. 2011, 15, 463-468
-
(2011)
Curr. Opin. Chem. Biol.
, vol.15
, pp. 463-468
-
-
Fauman, E.B.1
Rai, B.K.2
Huang, E.S.3
-
10
-
-
65249117514
-
Identifying and Characterizing Binding Sites and Assessing Druggability
-
Halgren, T. a. Identifying and Characterizing Binding Sites and Assessing Druggability J. Chem. Inf. Model. 2009, 49, 377-389
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 377-389
-
-
Halgren, T.A.1
-
11
-
-
84865516554
-
Comparison and Druggability Prediction of Protein-Ligand Binding Sites from Pharmacophore-Annotated Cavity Shapes
-
Desaphy, J.; Azdimousa, K.; Kellenberger, E.; Rognan, D. Comparison and Druggability Prediction of Protein-Ligand Binding Sites from Pharmacophore-Annotated Cavity Shapes J. Chem. Inf. Model. 2012, 52, 2287-2299
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 2287-2299
-
-
Desaphy, J.1
Azdimousa, K.2
Kellenberger, E.3
Rognan, D.4
-
12
-
-
77955397914
-
Understanding and Predicting Druggability. A High-Throughput Method for Detection of Drug Binding Sites
-
Schmidtke, P.; Barril, X. Understanding and Predicting Druggability. A High-Throughput Method for Detection of Drug Binding Sites J. Med. Chem. 2010, 53, 5858-5867
-
(2010)
J. Med. Chem.
, vol.53
, pp. 5858-5867
-
-
Schmidtke, P.1
Barril, X.2
-
13
-
-
84862000655
-
Development of a Rule-Based Method for the Assessment of Protein Druggability
-
Perola, E.; Herman, L.; Weiss, J. Development of a Rule-Based Method for the Assessment of Protein Druggability J. Chem. Inf. Model. 2012, 52, 1027-1038
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 1027-1038
-
-
Perola, E.1
Herman, L.2
Weiss, J.3
-
14
-
-
82355186340
-
DrugPred: A Structure-Based Approach to Predict Protein Druggability Developed Using an Extensive Nonredundant Data Set
-
Krasowski, A.; Muthas, D.; Sarkar, A.; Schmitt, S.; Brenk, R. DrugPred: A Structure-Based Approach to Predict Protein Druggability Developed Using an Extensive Nonredundant Data Set J. Chem. Inf. Model. 2011, 51, 2829-2842
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 2829-2842
-
-
Krasowski, A.1
Muthas, D.2
Sarkar, A.3
Schmitt, S.4
Brenk, R.5
-
15
-
-
84857531280
-
Combining Global and Local Measures for Structure-Based Druggability Predictions
-
Volkamer, A.; Kuhn, D.; Grombacher, T.; Rippmann, F.; Rarey, M. Combining Global and Local Measures for Structure-Based Druggability Predictions J. Chem. Inf. Model. 2012, 52, 360-372
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 360-372
-
-
Volkamer, A.1
Kuhn, D.2
Grombacher, T.3
Rippmann, F.4
Rarey, M.5
-
16
-
-
77955517509
-
Druggable Pockets and Binding Site Centric Chemical Space: A Paradigm Shift in Drug Discovery
-
Pérot, S.; Sperandio, O.; Miteva, M. a; Camproux, A.-C.; Villoutreix, B. O. Druggable Pockets and Binding Site Centric Chemical Space: A Paradigm Shift in Drug Discovery Drug Discovery Today 2010, 15, 656-667
-
(2010)
Drug Discovery Today
, vol.15
, pp. 656-667
-
-
Pérot, S.1
Sperandio, O.2
Miteva, M.A.3
Camproux, A.-C.4
Villoutreix, B.O.5
-
17
-
-
84887265599
-
A Comprehensive Survey of Small-Molecule Binding Pockets in Proteins
-
Gao, M.; Skolnick, J. A Comprehensive Survey of Small-Molecule Binding Pockets in Proteins PLoS Comput. Biol. 2013, 9, e1003302
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Gao, M.1
Skolnick, J.2
-
18
-
-
0031370977
-
LIGSITE: Automatic and Efficient Detection of Potential Small Molecule-Binding Sites in Proteins
-
Hendlich, M.; Rippmann, F.; Barnickel, G. LIGSITE: Automatic and Efficient Detection of Potential Small Molecule-Binding Sites in Proteins J. Mol. Graphics Modell. 1997, 15 (359-363) 389
-
(1997)
J. Mol. Graphics Modell.
, vol.15
, Issue.359-363
, pp. 389
-
-
Hendlich, M.1
Rippmann, F.2
Barnickel, G.3
-
19
-
-
78649499434
-
Analyzing the Topology of Active Sites: On the Prediction of Pockets and Subpockets
-
Volkamer, A.; Griewel, A.; Grombacher, T.; Rarey, M. Analyzing the Topology of Active Sites: On the Prediction of Pockets and Subpockets J. Chem. Inf. Model. 2010, 50, 2041-2052
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 2041-2052
-
-
Volkamer, A.1
Griewel, A.2
Grombacher, T.3
Rarey, M.4
-
20
-
-
67649422714
-
Fpocket: An Open Source Platform for Ligand Pocket Detection
-
Le Guilloux, V.; Schmidtke, P.; Tuffery, P. Fpocket: An Open Source Platform for Ligand Pocket Detection BMC Bioinformatics 2009, 10, 168
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 168
-
-
Le Guilloux, V.1
Schmidtke, P.2
Tuffery, P.3
-
21
-
-
44349119204
-
A Simple and Fuzzy Method to Align and Compare Druggable Ligand-Binding Sites
-
Schalon, C.; Surgand, J.-S.; Kellenberger, E.; Rognan, D. A Simple and Fuzzy Method to Align and Compare Druggable Ligand-Binding Sites Proteins 2008, 71, 1755-1778
-
(2008)
Proteins
, vol.71
, pp. 1755-1778
-
-
Schalon, C.1
Surgand, J.-S.2
Kellenberger, E.3
Rognan, D.4
-
22
-
-
75749155406
-
Alignment-Free Ultra-High-Throughput Comparison of Druggable Protein-Ligand Binding Sites
-
Weill, N.; Rognan, D. Alignment-Free Ultra-High-Throughput Comparison of Druggable Protein-Ligand Binding Sites J. Chem. Inf. Model. 2010, 50, 123-135
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 123-135
-
-
Weill, N.1
Rognan, D.2
-
23
-
-
60649117152
-
PocketMatch: A New Algorithm to Compare Binding Sites in Protein Structures
-
Yeturu, K.; Chandra, N. PocketMatch: A New Algorithm to Compare Binding Sites in Protein Structures BMC Bioinformatics 2008, 9, 543
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 543
-
-
Yeturu, K.1
Chandra, N.2
-
24
-
-
77956040809
-
Pocket Similarity: Are Alpha Carbons Enough?
-
Feldman, H. J.; Labute, P. Pocket Similarity: Are Alpha Carbons Enough? J. Chem. Inf. Model. 2010, 50, 1466-1475
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 1466-1475
-
-
Feldman, H.J.1
Labute, P.2
-
25
-
-
84901317146
-
Knowledge-Based Fragment Binding Prediction
-
Tang, G. W.; Altman, R. B. Knowledge-Based Fragment Binding Prediction PLoS Comput. Biol. 2014, 10, e1003589
-
(2014)
PLoS Comput. Biol.
, vol.10
-
-
Tang, G.W.1
Altman, R.B.2
-
26
-
-
84888182124
-
A Molecular Pathway for the Egress of Ammonia Produced by Nitrogenase
-
Dance, I. A Molecular Pathway for the Egress of Ammonia Produced by Nitrogenase Sci. Rep. 2013, 3, 3237
-
(2013)
Sci. Rep.
, vol.3
, pp. 3237
-
-
Dance, I.1
-
27
-
-
84889100365
-
Druggability of Non-Mevalonate Pathway Enzymes
-
Masini, T.; Kroezen, B. S.; Hirsch, A. K. H. H. Druggability of Non-Mevalonate Pathway Enzymes Drug Discovery Today 2013, 18, 1256-1262
-
(2013)
Drug Discovery Today
, vol.18
, pp. 1256-1262
-
-
Masini, T.1
Kroezen, B.S.2
Hirsch, A.K.H.H.3
-
28
-
-
84908114976
-
Tertiary Structure Prediction and Identification of Druggable Pocket in the Cancer Biomarker - Osteopontin-C
-
Sivakumar, S.; Niranjali Devaraj, S. Tertiary Structure Prediction and Identification of Druggable Pocket in the Cancer Biomarker-Osteopontin-C J. Diabetes Metab. Disord. 2014, 13, 13
-
(2014)
J. Diabetes Metab. Disord.
, vol.13
, pp. 13
-
-
Sivakumar, S.1
Niranjali Devaraj, S.2
-
29
-
-
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. 2005, 33, 2302-2309
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 2302-2309
-
-
Zhang, Y.1
Skolnick, J.2
-
31
-
-
84928672137
-
-
version 4.0
-
Petitjean, M. RADI, version 4.0, 2014. http://petitjeanmichel.free.fr/itoweb.petitjean.freeware.html.
-
(2014)
RADI
-
-
Petitjean, M.1
-
32
-
-
77956040404
-
Predicting Polypharmacology by Binding Site Similarity: From Kinases to the Protein Universe
-
Milletti, F.; Vulpetti, A. Predicting Polypharmacology by Binding Site Similarity: From Kinases to the Protein Universe J. Chem. Inf. Model. 2010, 50, 1418-1431
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 1418-1431
-
-
Milletti, F.1
Vulpetti, A.2
-
33
-
-
33745597909
-
Predicting Protein Interaction Sites: Binding Hot-Spots in Protein-Protein and Protein-Ligand Interfaces
-
Burgoyne, N. J.; Jackson, R. M. Predicting Protein Interaction Sites: Binding Hot-Spots in Protein-Protein and Protein-Ligand Interfaces Bioinformatics 2006, 22, 1335-1342
-
(2006)
Bioinformatics
, vol.22
, pp. 1335-1342
-
-
Burgoyne, N.J.1
Jackson, R.M.2
-
34
-
-
34547583152
-
Transient Pockets on Protein Surfaces Involved in Protein-Protein Interaction
-
Eyrisch, S.; Helms, V. Transient Pockets on Protein Surfaces Involved in Protein-Protein Interaction J. Med. Chem. 2007, 50, 3457-3464
-
(2007)
J. Med. Chem.
, vol.50
, pp. 3457-3464
-
-
Eyrisch, S.1
Helms, V.2
-
35
-
-
0020475449
-
A Simple Method for Displaying the Hydropathic Character of a Protein
-
Kyte, J.; Doolittle, R. F. A Simple Method for Displaying the Hydropathic Character of a Protein J. Mol. Biol. 1982, 157, 105-132
-
(1982)
J. Mol. Biol.
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
36
-
-
0000764772
-
The Use of Multiple Measurements in Taxonomic Problems
-
Fisher, R. The Use of Multiple Measurements in Taxonomic Problems Ann. Eugen. 1936, 7, 179-188
-
(1936)
Ann. Eugen.
, vol.7
, pp. 179-188
-
-
Fisher, R.1
-
37
-
-
84912569628
-
Extraction of Protein Binding Pockets in Close Neighborhood of Bound Ligands Makes Comparisons Simple due to Inherent Shape Similarity
-
Krotzky, T.; Rickmeyer, T. Extraction of Protein Binding Pockets in Close Neighborhood of Bound Ligands Makes Comparisons Simple due to Inherent Shape Similarity J. Chem. Inf. Model. 2014, 54, 3229-3237
-
(2014)
J. Chem. Inf. Model.
, vol.54
, pp. 3229-3237
-
-
Krotzky, T.1
Rickmeyer, T.2
-
38
-
-
84874754249
-
APoc: Large-Scale Identification of Similar Protein Pockets
-
Gao, M.; Skolnick, J. APoc: Large-Scale Identification of Similar Protein Pockets Bioinformatics 2013, 29, 597-604
-
(2013)
Bioinformatics
, vol.29
, pp. 597-604
-
-
Gao, M.1
Skolnick, J.2
-
39
-
-
84924426339
-
A Collective Variable for the Rapid Exploration of Protein Druggability
-
Cuchillo, R.; Pinto-gil, K.; Michel, J. A Collective Variable for the Rapid Exploration of Protein Druggability J. Chem. Theory Comput. 2015, 11, 1292-1307
-
(2015)
J. Chem. Theory Comput.
, vol.11
, pp. 1292-1307
-
-
Cuchillo, R.1
Pinto-Gil, K.2
Michel, J.3
-
40
-
-
84860838201
-
Structure-Based Computational Analysis of Protein Binding Sites for Function and Druggability Prediction
-
Nisius, B.; Sha, F.; Gohlke, H. Structure-Based Computational Analysis of Protein Binding Sites for Function and Druggability Prediction J. Biotechnol. 2011, 159, 123-134
-
(2011)
J. Biotechnol.
, vol.159
, pp. 123-134
-
-
Nisius, B.1
Sha, F.2
Gohlke, H.3
-
41
-
-
0028301575
-
Amino Acid Preferences at Protein Binding Sites
-
Villar, H. O.; Kauvar, L. M. Amino Acid Preferences at Protein Binding Sites FEBS Lett. 1994, 349, 125-130
-
(1994)
FEBS Lett.
, vol.349
, pp. 125-130
-
-
Villar, H.O.1
Kauvar, L.M.2
-
42
-
-
84879254821
-
Insights into an Original Pocket-Ligand Pair Classification: A Promising Tool for Ligand Profile Prediction
-
Pérot, S.; Regad, L.; Reynès, C.; Spérandio, O.; Miteva, M. a.; Villoutreix, B. O.; Camproux,.-C. Insights into an Original Pocket-Ligand Pair Classification: A Promising Tool for Ligand Profile Prediction PLoS One 2013, 8, e63730
-
(2013)
PLoS One
, vol.8
-
-
Pérot, S.1
Regad, L.2
Reynès, C.3
Spérandio, O.4
Miteva, M.A.5
Villoutreix, B.O.6
Camproux, A.-C.7
-
43
-
-
0000697995
-
Applications of the Radius-Diameter Diagram to the Classification of Topological and Geometrical Shapes of Chemical Compounds
-
Petitjean, M. Applications of the Radius-Diameter Diagram to the Classification of Topological and Geometrical Shapes of Chemical Compounds J. Chem. Inf. Comput. Sci. 1992, 32, 331-337
-
(1992)
J. Chem. Inf. Comput. Sci.
, vol.32
, pp. 331-337
-
-
Petitjean, M.1
|