-
1
-
-
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 (7) 2518-2525 10.1021/jm049131r
-
(2005)
J. Med. Chem.
, vol.48
, Issue.7
, pp. 2518-2525
-
-
Hajduk, P.J.1
Huth, J.R.2
Fesik, S.W.3
-
2
-
-
0021871375
-
A Computational Procedure for Determining Energetically Favorable Binding Sites on Biologically Important Macromolecules
-
Goodford, P. J. A Computational Procedure for Determining Energetically Favorable Binding Sites on Biologically Important Macromolecules J. Med. Chem. 1985, 28 (7) 849-857 10.1021/jm00145a002
-
(1985)
J. Med. Chem.
, vol.28
, Issue.7
, pp. 849-857
-
-
Goodford, P.J.1
-
3
-
-
0033047007
-
SuperStar: A Knowledge-Based Approach for Identifying Interaction Sites in Proteins
-
Verdonk, M. L.; Cole, J. C.; Taylor, R. SuperStar: A Knowledge-Based Approach for Identifying Interaction Sites in Proteins J. Mol. Biol. 1999, 289 (4) 1093-1108 10.1006/jmbi.1999.2809
-
(1999)
J. Mol. Biol.
, vol.289
, Issue.4
, pp. 1093-1108
-
-
Verdonk, M.L.1
Cole, J.C.2
Taylor, R.3
-
4
-
-
0031261930
-
IsoStar: A Library of Information about Nonbonded Interactions
-
Bruno, I. J.; Cole, J. C.; Lommerse, J. P. M.; Rowland, R. S.; Taylor, R.; Verdonk, M. L. IsoStar: A Library of Information about Nonbonded Interactions J. Comput.-Aided Mol. Des. 1997, 11 (6) 525-537 10.1023/A:1007934413448
-
(1997)
J. Comput.-Aided Mol. Des.
, vol.11
, Issue.6
, pp. 525-537
-
-
Bruno, I.J.1
Cole, J.C.2
Lommerse, J.P.M.3
Rowland, R.S.4
Taylor, R.5
Verdonk, M.L.6
-
5
-
-
0001752768
-
The Cambridge Structural Database: A Quarter of a Million Crystal Structures and Rising
-
Allen, F. H. The Cambridge Structural Database: A Quarter of a Million Crystal Structures and Rising Acta Crystallogr., Sect. B: Struct. Sci. 2002, 58 (3) 380-388 10.1107/S0108768102003890
-
(2002)
Acta Crystallogr., Sect. B: Struct. Sci.
, vol.58
, Issue.3
, pp. 380-388
-
-
Allen, F.H.1
-
6
-
-
0344558911
-
An Experimental Approach to Mapping the Binding Surfaces of Crystalline Proteins
-
Allen, K. N.; Bellamacina, C. R.; Ding, X.; Jeffery, C. J.; Mattos, C.; Petsko, G. A.; Ringe, D. An Experimental Approach to Mapping the Binding Surfaces of Crystalline Proteins † J. Phys. Chem. 1996, 100 (7) 2605-2611 10.1021/jp952516o
-
(1996)
J. Phys. Chem.
, vol.100
, Issue.7
, pp. 2605-2611
-
-
Allen, K.N.1
Bellamacina, C.R.2
Ding, X.3
Jeffery, C.J.4
Mattos, C.5
Petsko, G.A.6
Ringe, D.7
-
7
-
-
33645067372
-
Multiple Solvent Crystal Structures: Probing Binding Sites, Plasticity and Hydration
-
Mattos, C.; Bellamacina, C. R.; Peisach, E.; Pereira, A.; Vitkup, D.; Petsko, G. A.; Ringe, D. Multiple Solvent Crystal Structures: Probing Binding Sites, Plasticity and Hydration J. Mol. Biol. 2006, 357 (5) 1471-1482 10.1016/j.jmb.2006.01.039
-
(2006)
J. Mol. Biol.
, vol.357
, Issue.5
, pp. 1471-1482
-
-
Mattos, C.1
Bellamacina, C.R.2
Peisach, E.3
Pereira, A.4
Vitkup, D.5
Petsko, G.A.6
Ringe, D.7
-
8
-
-
0035044857
-
Experimental and Computational Mapping of the Binding Surface of a Crystalline Protein
-
English, A. C.; Groom, C. R.; Hubbard, R. E. Experimental and Computational Mapping of the Binding Surface of a Crystalline Protein Protein Eng., Des. Sel. 2001, 14 (1) 47-59 10.1093/protein/14.1.47
-
(2001)
Protein Eng., Des. Sel.
, vol.14
, Issue.1
, pp. 47-59
-
-
English, A.C.1
Groom, C.R.2
Hubbard, R.E.3
-
9
-
-
29144483936
-
Predicting Protein Druggability
-
Hajduk, P. J.; Huth, J. R.; Tse, C. Predicting Protein Druggability Drug Discovery Today 2005, 10 (23-24) 1675-1682 10.1016/S1359-6446(05)03624-X
-
(2005)
Drug Discovery Today
, vol.10
, Issue.2324
, pp. 1675-1682
-
-
Hajduk, P.J.1
Huth, J.R.2
Tse, C.3
-
10
-
-
61449104961
-
Fragment-Based Identification of Druggable "Hot Spots" of Proteins Using Fourier Domain Correlation Techniques
-
Brenke, R.; Kozakov, D.; Chuang, G.-Y.; Beglov, D.; Hall, D.; Landon, M. R.; Mattos, C.; Vajda, S. Fragment-Based Identification of Druggable "Hot Spots" of Proteins Using Fourier Domain Correlation Techniques Bioinformatics 2009, 25 (5) 621-627 10.1093/bioinformatics/btp036
-
(2009)
Bioinformatics
, vol.25
, Issue.5
, pp. 621-627
-
-
Brenke, R.1
Kozakov, D.2
Chuang, G.-Y.3
Beglov, D.4
Hall, D.5
Landon, M.R.6
Mattos, C.7
Vajda, S.8
-
11
-
-
84555195240
-
Robust Identification of Binding Hot Spots Using Continuum Electrostatics: Application to Hen Egg-White Lysozyme
-
Hall, D. H.; Grove, L. E.; Yueh, C.; Ngan, C. H.; Kozakov, D.; Vajda, S. Robust Identification of Binding Hot Spots Using Continuum Electrostatics: Application to Hen Egg-White Lysozyme J. Am. Chem. Soc. 2011, 133 (51) 20668-20671 10.1021/ja207914y
-
(2011)
J. Am. Chem. Soc.
, vol.133
, Issue.51
, pp. 20668-20671
-
-
Hall, D.H.1
Grove, L.E.2
Yueh, C.3
Ngan, C.H.4
Kozakov, D.5
Vajda, S.6
-
12
-
-
84858044079
-
Hot Spot Analysis for Driving the Development of Hits into Leads in Fragment-Based Drug Discovery
-
Hall, D. R.; Ngan, C. H.; Zerbe, B. S.; Kozakov, D.; Vajda, S. Hot Spot Analysis for Driving the Development of Hits into Leads in Fragment-Based Drug Discovery J. Chem. Inf. Model. 2012, 52 (1) 199-209 10.1021/ci200468p
-
(2012)
J. Chem. Inf. Model.
, vol.52
, Issue.1
, pp. 199-209
-
-
Hall, D.R.1
Ngan, C.H.2
Zerbe, B.S.3
Kozakov, D.4
Vajda, S.5
-
13
-
-
84946216702
-
New Frontiers in Druggability
-
Kozakov, D.; Hall, D. R.; Napoleon, R. L.; Yueh, C.; Whitty, A.; Vajda, S. New Frontiers in Druggability J. Med. Chem. 2015, 58 (23) 9063-9088 10.1021/acs.jmedchem.5b00586
-
(2015)
J. Med. Chem.
, vol.58
, Issue.23
, pp. 9063-9088
-
-
Kozakov, D.1
Hall, D.R.2
Napoleon, R.L.3
Yueh, C.4
Whitty, A.5
Vajda, S.6
-
14
-
-
84929452807
-
The FTMap Family of Web Servers for Determining and Characterizing Ligand-Binding Hot Spots of Proteins
-
Kozakov, D.; Grove, L. E.; Hall, D. R.; Bohnuud, T.; Mottarella, S. E.; Luo, L.; Xia, B.; Beglov, D.; Vajda, S. The FTMap Family of Web Servers for Determining and Characterizing Ligand-Binding Hot Spots of Proteins Nat. Protoc. 2015, 10 (5) 733-755 10.1038/nprot.2015.043
-
(2015)
Nat. Protoc.
, vol.10
, Issue.5
, pp. 733-755
-
-
Kozakov, D.1
Grove, L.E.2
Hall, D.R.3
Bohnuud, T.4
Mottarella, S.E.5
Luo, L.6
Xia, B.7
Beglov, D.8
Vajda, S.9
-
15
-
-
84900498772
-
Is It the Shape of the Cavity, or the Shape of the Water in the Cavity?
-
Snyder, P. W.; Lockett, M. R.; Moustakas, D. T.; Whitesides, G. M. Is It the Shape of the Cavity, or the Shape of the Water in the Cavity? Eur. Phys. J.: Spec. Top. 2014, 223 (5) 853-891 10.1140/epjst/e2013-01818-y
-
(2014)
Eur. Phys. J.: Spec. Top.
, vol.223
, Issue.5
, pp. 853-891
-
-
Snyder, P.W.1
Lockett, M.R.2
Moustakas, D.T.3
Whitesides, G.M.4
-
16
-
-
33847655150
-
Classification of Water Molecules in Protein Binding Sites
-
Barillari, C.; Taylor, J.; Viner, R.; Essex, J. W. Classification of Water Molecules in Protein Binding Sites J. Am. Chem. Soc. 2007, 129 (9) 2577-2587 10.1021/ja066980q
-
(2007)
J. Am. Chem. Soc.
, vol.129
, Issue.9
, pp. 2577-2587
-
-
Barillari, C.1
Taylor, J.2
Viner, R.3
Essex, J.W.4
-
17
-
-
79960220867
-
Diverse Fragment Clustering and Water Exclusion Identify Protein Hot Spots
-
Kulp, J. L., III; Kulp, J. L., Jr.; Pompliano, D. L.; Guarnieri, F. Diverse Fragment Clustering and Water Exclusion Identify Protein Hot Spots J. Am. Chem. Soc. 2011, 133 (28) 10740-10743 10.1021/ja203929x
-
(2011)
J. Am. Chem. Soc.
, vol.133
, Issue.28
, pp. 10740-10743
-
-
Kulp, J.L.1
Kulp, J.L.2
Pompliano, D.L.3
Guarnieri, F.4
-
18
-
-
84899432247
-
Structure-Based Drug Design of Chromone Antagonists of the Adenosine A2A Receptor
-
Andrews, S. P.; Mason, J. S.; Hurrell, E.; Congreve, M. Structure-Based Drug Design of Chromone Antagonists of the Adenosine A2A Receptor MedChemComm 2014, 5 (5) 571 10.1039/c3md00338h
-
(2014)
MedChemComm
, vol.5
, Issue.5
, pp. 571
-
-
Andrews, S.P.1
Mason, J.S.2
Hurrell, E.3
Congreve, M.4
-
19
-
-
33846524439
-
Motifs for Molecular Recognition Exploiting Hydrophobic Enclosure in Protein-Ligand Binding
-
Young, T.; Abel, R.; Kim, B.; Berne, B. J.; Friesner, R. A. Motifs for Molecular Recognition Exploiting Hydrophobic Enclosure in Protein-Ligand Binding Proc. Natl. Acad. Sci. U. S. A. 2007, 104 (3) 808-813 10.1073/pnas.0610202104
-
(2007)
Proc. Natl. Acad. Sci. U. S. A.
, vol.104
, Issue.3
, pp. 808-813
-
-
Young, T.1
Abel, R.2
Kim, B.3
Berne, B.J.4
Friesner, R.A.5
-
20
-
-
0032537184
-
Surface Topography Dependence of Biomolecular Hydrophobic Hydration
-
Cheng, Y. K.; Rossky, P. J. Surface Topography Dependence of Biomolecular Hydrophobic Hydration Nature 1998, 392 (6677) 696-699 10.1038/33653
-
(1998)
Nature
, vol.392
, Issue.6677
, pp. 696-699
-
-
Cheng, Y.K.1
Rossky, P.J.2
-
21
-
-
84915805158
-
The Importance of Hydration Thermodynamics in Fragment-to-Lead Optimization
-
Ichihara, O.; Shimada, Y.; Yoshidome, D. The Importance of Hydration Thermodynamics in Fragment-to-Lead Optimization ChemMedChem 2014, 9 (12) 2708-2717 10.1002/cmdc.201402207
-
(2014)
ChemMedChem
, vol.9
, Issue.12
, pp. 2708-2717
-
-
Ichihara, O.1
Shimada, Y.2
Yoshidome, D.3
-
22
-
-
84908374552
-
Molecular Simulations with Solvent Competition Quantify Water Displaceability and Provide Accurate Interaction Maps of Protein Binding Sites
-
Alvarez-Garcia, D.; Barril, X. Molecular Simulations with Solvent Competition Quantify Water Displaceability and Provide Accurate Interaction Maps of Protein Binding Sites J. Med. Chem. 2014, 57 (20) 8530-8539 10.1021/jm5010418
-
(2014)
J. Med. Chem.
, vol.57
, Issue.20
, pp. 8530-8539
-
-
Alvarez-Garcia, D.1
Barril, X.2
-
23
-
-
84900532536
-
Protoss: A Holistic Approach to Predict Tautomers and Protonation States in Protein-Ligand Complexes
-
Bietz, S.; Urbaczek, S.; Schulz, B.; Rarey, M. Protoss: A Holistic Approach to Predict Tautomers and Protonation States in Protein-Ligand Complexes J. Cheminf. 2014, 6 (1) 12 10.1186/1758-2946-6-12
-
(2014)
J. Cheminf.
, vol.6
, Issue.1
, pp. 12
-
-
Bietz, S.1
Urbaczek, S.2
Schulz, B.3
Rarey, M.4
-
24
-
-
0033539482
-
Crystal Structure of the RNA-Dependent RNA Polymerase of Hepatitis C Virus
-
Bressanelli, S.; Tomei, L.; Roussel, A.; Incitti, I.; Vitale, R. L.; Mathieu, M.; De Francesco, R.; Rey, F. A. Crystal Structure of the RNA-Dependent RNA Polymerase of Hepatitis C Virus Proc. Natl. Acad. Sci. U. S. A. 1999, 96 (23) 13034-13039 10.1073/pnas.96.23.13034
-
(1999)
Proc. Natl. Acad. Sci. U. S. A.
, vol.96
, Issue.23
, pp. 13034-13039
-
-
Bressanelli, S.1
Tomei, L.2
Roussel, A.3
Incitti, I.4
Vitale, R.L.5
Mathieu, M.6
De Francesco, R.7
Rey, F.A.8
-
25
-
-
80051966197
-
Structural Conservation of Druggable Hot Spots in Protein-Protein Interfaces
-
Kozakov, D.; Hall, D. R.; Chuang, G.-Y.; Cencic, R.; Brenke, R.; Grove, L. E.; Beglov, D.; Pelletier, J.; Whitty, A.; Vajda, S. Structural Conservation of Druggable Hot Spots in Protein-Protein Interfaces Proc. Natl. Acad. Sci. U. S. A. 2011, 108 (33) 13528-13533 10.1073/pnas.1101835108
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, Issue.33
, pp. 13528-13533
-
-
Kozakov, D.1
Hall, D.R.2
Chuang, G.-Y.3
Cencic, R.4
Brenke, R.5
Grove, L.E.6
Beglov, D.7
Pelletier, J.8
Whitty, A.9
Vajda, S.10
-
26
-
-
54449102045
-
Group Efficiency: A Guideline for Hits-to-Leads Chemistry
-
Verdonk, M. L.; Rees, D. C. Group Efficiency: A Guideline for Hits-to-Leads Chemistry ChemMedChem 2008, 3 (8) 1179-1180 10.1002/cmdc.200800132
-
(2008)
ChemMedChem
, vol.3
, Issue.8
, pp. 1179-1180
-
-
Verdonk, M.L.1
Rees, D.C.2
-
27
-
-
77950022453
-
Non-Additivity of Functional Group Contributions in Protein-Ligand Binding: A Comprehensive Study by Crystallography and Isothermal Titration Calorimetry
-
Baum, B.; Muley, L.; Smolinski, M.; Heine, A.; Hangauer, D.; Klebe, G. Non-Additivity of Functional Group Contributions in Protein-Ligand Binding: A Comprehensive Study by Crystallography and Isothermal Titration Calorimetry J. Mol. Biol. 2010, 397 (4) 1042-1054 10.1016/j.jmb.2010.02.007
-
(2010)
J. Mol. Biol.
, vol.397
, Issue.4
, pp. 1042-1054
-
-
Baum, B.1
Muley, L.2
Smolinski, M.3
Heine, A.4
Hangauer, D.5
Klebe, G.6
-
28
-
-
84954028329
-
Optimization of Inhibitors of Mycobacterium Tuberculosis Pantothenate Synthetase Based on Group Efficiency Analysis
-
Hung, A. W.; Silvestre, H. L.; Wen, S.; George, G. P. C.; Boland, J.; Blundell, T. L.; Ciulli, A.; Abell, C. Optimization of Inhibitors of Mycobacterium Tuberculosis Pantothenate Synthetase Based on Group Efficiency Analysis ChemMedChem 2016, 11 (1) 38-42 10.1002/cmdc.201500414
-
(2016)
ChemMedChem
, vol.11
, Issue.1
, pp. 38-42
-
-
Hung, A.W.1
Silvestre, H.L.2
Wen, S.3
George, G.P.C.4
Boland, J.5
Blundell, T.L.6
Ciulli, A.7
Abell, C.8
-
29
-
-
84871126379
-
What Can. We Learn from the Evolution of Protein-Ligand Interactions to Aid the Design of New Therapeutics?
-
Higueruelo, A. P.; Schreyer, A.; Bickerton, G. R. J.; Blundell, T. L.; Pitt, W. R. What Can. We Learn from the Evolution of Protein-Ligand Interactions to Aid the Design of New Therapeutics? PLoS One 2012, 7 (12) e51742 10.1371/journal.pone.0051742
-
(2012)
PLoS One
, vol.7
, Issue.12
, pp. e51742
-
-
Higueruelo, A.P.1
Schreyer, A.2
Bickerton, G.R.J.3
Blundell, T.L.4
Pitt, W.R.5
-
30
-
-
56549131177
-
The Thermodynamics of Protein-Ligand Interaction and Solvation: Insights for Ligand Design
-
Olsson, T. S. G.; Williams, M. A.; Pitt, W. R.; Ladbury, J. E. The Thermodynamics of Protein-Ligand Interaction and Solvation: Insights for Ligand Design J. Mol. Biol. 2008, 384 (4) 1002-1017 10.1016/j.jmb.2008.09.073
-
(2008)
J. Mol. Biol.
, vol.384
, Issue.4
, pp. 1002-1017
-
-
Olsson, T.S.G.1
Williams, M.A.2
Pitt, W.R.3
Ladbury, J.E.4
-
31
-
-
0035324944
-
Molecular Complexity and Its Impact on the Probability of Finding Leads for Drug Discovery
-
Hann, M. M.; Leach, A. R.; Harper, G. Molecular Complexity and Its Impact on the Probability of Finding Leads for Drug Discovery J. Chem. Inf. Model. 2001, 41 (3) 856-864 10.1021/ci000403i
-
(2001)
J. Chem. Inf. Model.
, vol.41
, Issue.3
, pp. 856-864
-
-
Hann, M.M.1
Leach, A.R.2
Harper, G.3
-
32
-
-
0031370977
-
LIGSITE: Automatic and Efficient Detection of Potential Small Molecule-Binding Sites in Proteins
-
389
-
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 (6) 359-363 389 10.1016/S1093-3263(98)00002-3
-
(1997)
J. Mol. Graphics Modell.
, vol.15
, Issue.6
, pp. 359-363
-
-
Hendlich, M.1
Rippmann, F.2
Barnickel, G.3
|