-
1
-
-
0027310845
-
The Control of Protein Stability and Association by Weak Interactions with Water: How Do Solvents Affect These Processes?
-
Timasheff, S. N. The Control of Protein Stability and Association by Weak Interactions with Water: How Do Solvents Affect These Processes? Annu. Rev. Biophys. Biomol. Struct. 1993, 22, 67-97
-
(1993)
Annu. Rev. Biophys. Biomol. Struct.
, vol.22
, pp. 67-97
-
-
Timasheff, S.N.1
-
2
-
-
68049087927
-
Protein Hydration Dynamics and Molecular Mechanism of Coupled Water-Protein Fluctuations
-
Zhang, L.; Yang, Y.; Kao, Y.-T.; Wang, L.; Zhong, D. Protein Hydration Dynamics and Molecular Mechanism of Coupled Water-Protein Fluctuations J. Am. Chem. Soc. 2009, 131, 10677-10691
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 10677-10691
-
-
Zhang, L.1
Yang, Y.2
Kao, Y.-T.3
Wang, L.4
Zhong, D.5
-
3
-
-
33745032291
-
Water Mediation in Protein Folding and Molecular Recognition
-
Levy, Y.; Onuchic, J. N. Water Mediation in Protein Folding and Molecular Recognition Annu. Rev. Biophys. Biomol. Struct. 2006, 35, 389-415
-
(2006)
Annu. Rev. Biophys. Biomol. Struct.
, vol.35
, pp. 389-415
-
-
Levy, Y.1
Onuchic, J.N.2
-
4
-
-
0036534542
-
Protein-water Interactions in a Dynamic World
-
Mattos, C. Protein-water Interactions in a Dynamic World Trends Biochem. Sci. 2002, 27, 203-208
-
(2002)
Trends Biochem. Sci.
, vol.27
, pp. 203-208
-
-
Mattos, C.1
-
5
-
-
47049084664
-
Thermostable Bacillus Subtilis Lipases: In Vitro Evolution and Structural Insight
-
Ahmad, S.; Kamal, M. Z.; Sankaranarayanan, R.; Rao, N. M. Thermostable Bacillus Subtilis Lipases: In Vitro Evolution and Structural Insight J. Mol. Biol. 2008, 381, 324-340
-
(2008)
J. Mol. Biol.
, vol.381
, pp. 324-340
-
-
Ahmad, S.1
Kamal, M.Z.2
Sankaranarayanan, R.3
Rao, N.M.4
-
6
-
-
0035997128
-
Alternate Conformations Observed in Catalytic Serine of Bacillus Subtilis Lipase Determined at 1.3 Å Resolution
-
Kawasaki, K.; Kondo, H.; Suzuki, M.; Ohgiya, S.; Tsuda, S. Alternate Conformations Observed in Catalytic Serine of Bacillus Subtilis Lipase Determined at 1.3 Å Resolution Acta Crystallogr. Sect. D Biol. Crystallogr. 2002, 58, 1168-1174
-
(2002)
Acta Crystallogr. Sect. D Biol. Crystallogr.
, vol.58
, pp. 1168-1174
-
-
Kawasaki, K.1
Kondo, H.2
Suzuki, M.3
Ohgiya, S.4
Tsuda, S.5
-
7
-
-
0015901579
-
Structure of the Complex Formed by Bovine Trypsin and Bovine Pancreatic Trypsin Inhibitor
-
Rühlmann, A.; Kukla, D.; Schwager, P.; Bartels, K.; Huber, R. Structure of the Complex Formed by Bovine Trypsin and Bovine Pancreatic Trypsin Inhibitor J. Mol. Biol. 1973, 77, 417-436
-
(1973)
J. Mol. Biol.
, vol.77
, pp. 417-436
-
-
Rühlmann, A.1
Kukla, D.2
Schwager, P.3
Bartels, K.4
Huber, R.5
-
8
-
-
17144452894
-
How Does Active Site Water Affect Enzymatic Stereorecognition?
-
Phillips, R. S. How Does Active Site Water Affect Enzymatic Stereorecognition? J. Mol. Catal. B Enzym. 2002, 19-20, 103-107
-
(2002)
J. Mol. Catal. B Enzym.
, vol.19-20
, pp. 103-107
-
-
Phillips, R.S.1
-
9
-
-
0034612327
-
Analysis of a Water Mediated Protein-Protein Interactions within RNase T1
-
Langhorst, U.; Backmann, J.; Loris, R.; Steyaert, J. Analysis of a Water Mediated Protein-Protein Interactions within RNase T1 Biochemistry 2000, 39, 6586-6593
-
(2000)
Biochemistry
, vol.39
, pp. 6586-6593
-
-
Langhorst, U.1
Backmann, J.2
Loris, R.3
Steyaert, J.4
-
10
-
-
19544372768
-
Hydration of Protein-Protein Interfaces
-
Rodier, F.; Bahadur, R. P.; Chakrabarti, P.; Janin, J. Hydration of Protein-Protein Interfaces Proteins 2005, 60, 36-45
-
(2005)
Proteins
, vol.60
, pp. 36-45
-
-
Rodier, F.1
Bahadur, R.P.2
Chakrabarti, P.3
Janin, J.4
-
11
-
-
0033572790
-
Wet and Dry Interfaces: The Role of Solvent in Protein-protein and protein-DNA Recognition
-
Janin, J. Wet and Dry Interfaces: The Role of Solvent in Protein-protein and protein-DNA Recognition Structure 1999, 7, R277-R279
-
(1999)
Structure
, vol.7
, pp. R277-R279
-
-
Janin, J.1
-
12
-
-
79953251130
-
Adhesive Water Networks Facilitate Binding of Protein Interfaces
-
Ahmad, M.; Gu, W.; Geyer, T.; Helms, V. Adhesive Water Networks Facilitate Binding of Protein Interfaces Nat. Commun. 2011, 2, 261
-
(2011)
Nat. Commun.
, vol.2
, pp. 261
-
-
Ahmad, M.1
Gu, W.2
Geyer, T.3
Helms, V.4
-
13
-
-
0016708122
-
Principles of Protein-protein Recognition
-
Chothia, C.; Janin, J. Principles of Protein-protein Recognition Nature 1975, 256, 705-708
-
(1975)
Nature
, vol.256
, pp. 705-708
-
-
Chothia, C.1
Janin, J.2
-
14
-
-
0028332007
-
A Role for Surface Hydrophobicity in Protein-Protein Recognition
-
Young, L.; Jernigan, R. L.; Covell, D. G. A Role for Surface Hydrophobicity in Protein-Protein Recognition Protein Sci. 1994, 3, 717-729
-
(1994)
Protein Sci.
, vol.3
, pp. 717-729
-
-
Young, L.1
Jernigan, R.L.2
Covell, D.G.3
-
15
-
-
1842405464
-
Studies of Protein-Protein Interfaces: A Statistical Analysis of the Hydrophobic Effect
-
Tsai, C. J.; Lin, S. L.; Wolfson, H. J.; Nussinov, R. Studies of Protein-Protein Interfaces: A Statistical Analysis of the Hydrophobic Effect Protein Sci. 1997, 6, 53-64
-
(1997)
Protein Sci.
, vol.6
, pp. 53-64
-
-
Tsai, C.J.1
Lin, S.L.2
Wolfson, H.J.3
Nussinov, R.4
-
16
-
-
26944481188
-
Interfaces and the Driving Force of Hydrophobic Assembly
-
Chandler, D. Interfaces and the Driving Force of Hydrophobic Assembly Nature 2005, 437, 640-647
-
(2005)
Nature
, vol.437
, pp. 640-647
-
-
Chandler, D.1
-
17
-
-
33749238188
-
Contribution of Ligand Desolvation to Binding Thermodynamics in a Ligand-Protein Interaction
-
Shimokhina, N.; Bronowska, A.; Homans, S. W. Contribution of Ligand Desolvation to Binding Thermodynamics in a Ligand-Protein Interaction Angew. Chem., Int. Ed. Engl. 2006, 45, 6374-6376
-
(2006)
Angew. Chem., Int. Ed. Engl.
, vol.45
, pp. 6374-6376
-
-
Shimokhina, N.1
Bronowska, A.2
Homans, S.W.3
-
18
-
-
81055130316
-
Mechanism of the Hydrophobic Effect in the Biomolecular Recognition of Arylsulfonamides by Carbonic Anhydrase
-
Snyder, P. W.; Mecinovic, J.; Moustakas, D. T.; Thomas, S. W.; Harder, M.; Mack, E. T.; Lockett, M. R.; Héroux, A.; Sherman, W.; Whitesides, G. M. Mechanism of the Hydrophobic Effect in the Biomolecular Recognition of Arylsulfonamides by Carbonic Anhydrase Proc. Natl. Acad. Sci. U. S. A. 2011, 108, 17889-17894
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 17889-17894
-
-
Snyder, P.W.1
Mecinovic, J.2
Moustakas, D.T.3
Thomas, S.W.4
Harder, M.5
Mack, E.T.6
Lockett, M.R.7
Héroux, A.8
Sherman, W.9
Whitesides, G.M.10
-
19
-
-
84873351927
-
Dissecting the Hydrophobic Effect on the Molecular Level: The Role of Water, Enthalpy, and Entropy in Ligand Binding to Thermolysin
-
Biela, A.; Nasief, N. N.; Betz, M.; Heine, A.; Hangauer, D.; Klebe, G. Dissecting the Hydrophobic Effect on the Molecular Level: The Role of Water, Enthalpy, and Entropy in Ligand Binding to Thermolysin Angew. Chem., Int. Ed. Engl. 2013, 52, 1822-1828
-
(2013)
Angew. Chem., Int. Ed. Engl.
, vol.52
, pp. 1822-1828
-
-
Biela, A.1
Nasief, N.N.2
Betz, M.3
Heine, A.4
Hangauer, D.5
Klebe, G.6
-
20
-
-
0030466444
-
Just Add Water! The Effect of Water on the Specificity of Protein-Ligand Binding Sites and Its Potential Application to Drug Design
-
Ladbury, J. E. Just Add Water! The Effect of Water on the Specificity of Protein-Ligand Binding Sites and Its Potential Application to Drug Design Chem. Biol. 1996, 3, 973-980
-
(1996)
Chem. Biol.
, vol.3
, pp. 973-980
-
-
Ladbury, J.E.1
-
21
-
-
84859706377
-
Impact of Ligand and Protein Desolvation on Ligand Binding to the S1 Pocket of Thrombin
-
Biela, A.; Khayat, M.; Tan, H.; Kong, J.; Heine, A.; Hangauer, D.; Klebe, G. Impact of Ligand and Protein Desolvation on Ligand Binding to the S1 Pocket of Thrombin J. Mol. Biol. 2012, 418, 350-366
-
(2012)
J. Mol. Biol.
, vol.418
, pp. 350-366
-
-
Biela, A.1
Khayat, M.2
Tan, H.3
Kong, J.4
Heine, A.5
Hangauer, D.6
Klebe, G.7
-
22
-
-
0032558981
-
Structure-Based Design of Potent Inhibitors of Scytalone Dehydratase: Displacement of a Water Molecule from the Active Site
-
Chen, J. M.; Xu, S. L.; Wawrzak, Z.; Basarab, G. S.; Jordan, D. B. Structure-Based Design of Potent Inhibitors of Scytalone Dehydratase: Displacement of a Water Molecule from the Active Site Biochemistry 1998, 37, 17735-17744
-
(1998)
Biochemistry
, vol.37
, pp. 17735-17744
-
-
Chen, J.M.1
Xu, S.L.2
Wawrzak, Z.3
Basarab, G.S.4
Jordan, D.B.5
-
23
-
-
0034710707
-
4-Anilino-6,7-Dialkoxyquinoline-3-Carbonitrile Inhibitors of Epidermal Growth Factor Receptor Kinase and Their Bioisosteric Relationship to the 4-Anilino-6,7-Dialkoxyquinazoline Inhibitors
-
Wissner, A.; Berger, D. M.; Boschelli, D. H.; Floyd, M. B.; Greenberger, L. M.; Gruber, B. C.; Johnson, B. D.; Mamuya, N.; Nilakantan, R.; Reich, M. F.; Shen, R.; Tsou, H.-R.; Upeslacis, E.; Wang, Y. F.; Wu, B.; Ye, F.; Zhang, N. 4-Anilino-6,7-Dialkoxyquinoline-3-Carbonitrile Inhibitors of Epidermal Growth Factor Receptor Kinase and Their Bioisosteric Relationship to the 4-Anilino-6,7-Dialkoxyquinazoline Inhibitors J. Med. Chem. 2000, 43, 3244-3256
-
(2000)
J. Med. Chem.
, vol.43
, pp. 3244-3256
-
-
Wissner, A.1
Berger, D.M.2
Boschelli, D.H.3
Floyd, M.B.4
Greenberger, L.M.5
Gruber, B.C.6
Johnson, B.D.7
Mamuya, N.8
Nilakantan, R.9
Reich, M.F.10
Shen, R.11
Tsou, H.-R.12
Upeslacis, E.13
Wang, Y.F.14
Wu, B.15
Ye, F.16
Zhang, N.17
-
24
-
-
34247559015
-
Structure-Based Design and Synthesis of N(omega)-Nitro-L-Arginine-Containing Peptidomimetics as Selective Inhibitors of Neuronal Nitric Oxide Synthase. Displacement of the Heme Structural Water
-
Seo, J.; Igarashi, J.; Li, H.; Martasek, P.; Roman, L. J.; Poulos, T. L.; Silverman, R. B. Structure-Based Design and Synthesis of N(omega)-Nitro-L-Arginine-Containing Peptidomimetics as Selective Inhibitors of Neuronal Nitric Oxide Synthase. Displacement of the Heme Structural Water J. Med. Chem. 2007, 50, 2089-2099
-
(2007)
J. Med. Chem.
, vol.50
, pp. 2089-2099
-
-
Seo, J.1
Igarashi, J.2
Li, H.3
Martasek, P.4
Roman, L.J.5
Poulos, T.L.6
Silverman, R.B.7
-
25
-
-
0029937870
-
Hydrophilicity of Cavities in Proteins
-
Zhang, L.; Hermans, J. Hydrophilicity of Cavities in Proteins Proteins 1996, 24, 433-438
-
(1996)
Proteins
, vol.24
, pp. 433-438
-
-
Zhang, L.1
Hermans, J.2
-
26
-
-
0141907191
-
WaterScore: A Novel Method for Distinguishing between Bound and Displaceable Water Molecules in the Crystal Structure of the Binding Site of Protein-Ligand Complexes
-
García-Sosa, A. T.; Mancera, R. L.; Dean, P. M. WaterScore: A Novel Method for Distinguishing between Bound and Displaceable Water Molecules in the Crystal Structure of the Binding Site of Protein-Ligand Complexes J. Mol. Model. 2003, 9, 172-182
-
(2003)
J. Mol. Model.
, vol.9
, pp. 172-182
-
-
García-Sosa, A.T.1
Mancera, R.L.2
Dean, P.M.3
-
27
-
-
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, 2577-2587
-
(2007)
J. Am. Chem. Soc.
, vol.129
, pp. 2577-2587
-
-
Barillari, C.1
Taylor, J.2
Viner, R.3
Essex, J.W.4
-
28
-
-
39749105264
-
Robust Classification of "Relevant" Water Molecules in Putative Protein Binding Sites
-
Amadasi, A.; Surface, J. A.; Spyrakis, F.; Cozzini, P.; Mozzarelli, A.; Kellogg, G. E. Robust Classification of "Relevant" Water Molecules in Putative Protein Binding Sites J. Med. Chem. 2008, 51, 1063-1067
-
(2008)
J. Med. Chem.
, vol.51
, pp. 1063-1067
-
-
Amadasi, A.1
Surface, J.A.2
Spyrakis, F.3
Cozzini, P.4
Mozzarelli, A.5
Kellogg, G.E.6
-
29
-
-
33744713394
-
Grand Canonical Ensemble Monte Carlo for a Lennard-Jones Fluid
-
Adams, D. J. Grand Canonical Ensemble Monte Carlo for a Lennard-Jones Fluid Mol. Phys. 1975, 29, 307-311
-
(1975)
Mol. Phys.
, vol.29
, pp. 307-311
-
-
Adams, D.J.1
-
30
-
-
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, 849-857
-
(1985)
J. Med. Chem.
, vol.28
, pp. 849-857
-
-
Goodford, P.J.1
-
31
-
-
0035971738
-
A Smooth Permittivity Function for Poisson-Boltzmann Solvation Methods
-
Grant, J. A.; Pickup, B. T.; Nicholls, A. A Smooth Permittivity Function for Poisson-Boltzmann Solvation Methods J. Comput. Chem. 2001, 22, 608-640
-
(2001)
J. Comput. Chem.
, vol.22
, pp. 608-640
-
-
Grant, J.A.1
Pickup, B.T.2
Nicholls, A.3
-
32
-
-
40949163431
-
Role of the Active-Site Solvent in the Thermodynamics of Factor Xa Ligand Binding
-
Abel, R.; Young, T.; Farid, R.; Berne, B. J.; Friesner, R. A. Role of the Active-Site Solvent in the Thermodynamics of Factor Xa Ligand Binding J. Am. Chem. Soc. 2008, 130, 2817-2831
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 2817-2831
-
-
Abel, R.1
Young, T.2
Farid, R.3
Berne, B.J.4
Friesner, R.A.5
-
33
-
-
79957585828
-
Contribution of Explicit Solvent Effects to the Binding Affinity of Small-Molecule Inhibitors in Blood Coagulation Factor Serine Proteases
-
Abel, R.; Salam, N. K.; Shelley, J.; Farid, R.; Friesner, R. A.; Sherman, W. Contribution of Explicit Solvent Effects to the Binding Affinity of Small-Molecule Inhibitors in Blood Coagulation Factor Serine Proteases ChemMedChem. 2011, 6, 1049-1066
-
(2011)
ChemMedChem.
, vol.6
, pp. 1049-1066
-
-
Abel, R.1
Salam, N.K.2
Shelley, J.3
Farid, R.4
Friesner, R.A.5
Sherman, W.6
-
34
-
-
70349683018
-
Prediction of the Water Content in Protein Binding Sites
-
Michel, J.; Tirado-Rives, J.; Jorgensen, W. L. Prediction of the Water Content in Protein Binding Sites J. Phys. Chem. B 2009, 113, 13337-13346
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 13337-13346
-
-
Michel, J.1
Tirado-Rives, J.2
Jorgensen, W.L.3
-
35
-
-
84867555063
-
Grid Inhomogeneous Solvation Theory: Hydration Structure and Thermodynamics of the Miniature Receptor cucurbit[7]uril
-
Nguyen, C. N.; Young, T. K.; Gilson, M. K. Grid Inhomogeneous Solvation Theory: Hydration Structure and Thermodynamics of the Miniature Receptor cucurbit[7]uril J. Chem. Phys. 2012, 137, 044101
-
(2012)
J. Chem. Phys.
, vol.137
, pp. 044101
-
-
Nguyen, C.N.1
Young, T.K.2
Gilson, M.K.3
-
36
-
-
84857748866
-
Rapid and Accurate Prediction and Scoring of Water Molecules in Protein Binding Sites
-
Ross, G. A.; Morris, G. M.; Biggin, P. C. Rapid and Accurate Prediction and Scoring of Water Molecules in Protein Binding Sites PLoS One 2012, 7, e32036
-
(2012)
PLoS One
, vol.7
-
-
Ross, G.A.1
Morris, G.M.2
Biggin, P.C.3
-
37
-
-
0029450365
-
Hydration in Drug Design. 1. Multiple Hydrogen-Bonding Features of Water Molecules in Mediating Protein-Ligand Interactions
-
Poornima, C. S.; Dean, P. M. Hydration in Drug Design. 1. Multiple Hydrogen-Bonding Features of Water Molecules in Mediating Protein-Ligand Interactions J. Comput. Aided. Mol. Des. 1995, 9, 500-512
-
(1995)
J. Comput. Aided. Mol. Des.
, vol.9
, pp. 500-512
-
-
Poornima, C.S.1
Dean, P.M.2
-
38
-
-
34247187356
-
Analysis of Ligand-Bound Water Molecules in High-Resolution Crystal Structures of Protein-Ligand Complexes
-
Lu, Y.; Wang, R.; Yang, C.-Y.; Wang, S. Analysis of Ligand-Bound Water Molecules in High-Resolution Crystal Structures of Protein-Ligand Complexes J. Chem. Inf. Model. 2007, 47, 668-675
-
(2007)
J. Chem. Inf. Model.
, vol.47
, pp. 668-675
-
-
Lu, Y.1
Wang, R.2
Yang, C.-Y.3
Wang, S.4
-
39
-
-
23044435317
-
Statistical and Molecular Dynamics Studies of Buried Waters in Globular Proteins
-
Park, S.; Saven, J. G. Statistical and Molecular Dynamics Studies of Buried Waters in Globular Proteins Proteins 2005, 60, 450-463
-
(2005)
Proteins
, vol.60
, pp. 450-463
-
-
Park, S.1
Saven, J.G.2
-
40
-
-
80053090565
-
Bound Water at Protein-Protein Interfaces: Partners, Roles and Hydrophobic Bubbles as a Conserved Motif
-
Ahmed, M. H.; Spyrakis, F.; Cozzini, P.; Tripathi, P. K.; Mozzarelli, A.; Scarsdale, J. N.; Safo, M. A.; Kellogg, G. E. Bound Water at Protein-Protein Interfaces: Partners, Roles and Hydrophobic Bubbles as a Conserved Motif PLoS One 2011, 6, e24712
-
(2011)
PLoS One
, vol.6
-
-
Ahmed, M.H.1
Spyrakis, F.2
Cozzini, P.3
Tripathi, P.K.4
Mozzarelli, A.5
Scarsdale, J.N.6
Safo, M.A.7
Kellogg, G.E.8
-
41
-
-
0028228418
-
The Entropic Cost of Bound Water in Crystals and Biomolecules
-
Dunitz, J. D. The Entropic Cost of Bound Water in Crystals and Biomolecules Science 1994, 264, 670
-
(1994)
Science
, vol.264
, pp. 670
-
-
Dunitz, J.D.1
-
42
-
-
84860354431
-
Benchmarking the Thermodynamic Analysis of Water Molecules around a Model Beta Sheet
-
Huggins, D. J. Benchmarking the Thermodynamic Analysis of Water Molecules around a Model Beta Sheet J. Comput. Chem. 2012, 33, 1383-1392
-
(2012)
J. Comput. Chem.
, vol.33
, pp. 1383-1392
-
-
Huggins, D.J.1
-
43
-
-
84867739791
-
Application of Inhomogeneous Fluid Solvation Theory to Model the Distribution and Thermodynamics of Water Molecules around Biomolecules
-
Huggins, D. J. Application of Inhomogeneous Fluid Solvation Theory to Model the Distribution and Thermodynamics of Water Molecules around Biomolecules Phys. Chem. Chem. Phys. 2012, 14, 15106-15117
-
(2012)
Phys. Chem. Chem. Phys.
, vol.14
, pp. 15106-15117
-
-
Huggins, D.J.1
-
44
-
-
84856776282
-
Thermodynamic Analysis of Water Molecules at the Surface of Proteins and Applications to Binding Site Prediction and Characterization
-
Beuming, T.; Che, Y.; Abel, R.; Kim, B.; Shanmugasundaram, V.; Sherman, W. Thermodynamic Analysis of Water Molecules at the Surface of Proteins and Applications to Binding Site Prediction and Characterization Proteins 2012, 80, 871-883
-
(2012)
Proteins
, vol.80
, pp. 871-883
-
-
Beuming, T.1
Che, Y.2
Abel, R.3
Kim, B.4
Shanmugasundaram, V.5
Sherman, W.6
-
45
-
-
63449104638
-
Importance of Translational Entropy of Water in Biological Self-Assembly Processes like Protein Folding
-
Kinoshita, M. Importance of Translational Entropy of Water in Biological Self-Assembly Processes like Protein Folding Int. J. Mol. Sci. 2009, 10, 1064-1080
-
(2009)
Int. J. Mol. Sci.
, vol.10
, pp. 1064-1080
-
-
Kinoshita, M.1
-
46
-
-
84889120137
-
Improved Methods for Building Protein Models in Electron Density Maps and the Location of Errors in These Models
-
Jones, T. A.; Zou, J. Y.; Cowan, S. W.; Kjeldgaard, M. Improved Methods for Building Protein Models in Electron Density Maps and the Location of Errors in These Models Acta Crystallogr. Sect. A Found. Crystallogr. 1991, 47, 110-119
-
(1991)
Acta Crystallogr. Sect. A Found. Crystallogr.
, vol.47
, pp. 110-119
-
-
Jones, T.A.1
Zou, J.Y.2
Cowan, S.W.3
Kjeldgaard, M.4
-
47
-
-
84901610512
-
The Application of Statistical Methods to Cognate Docking: A Path Forward?
-
Hawkins, P. C. D.; Kelley, B. P.; Warren, G. L. The Application of Statistical Methods to Cognate Docking: A Path Forward? J. Chem. Inf. Model. 2014, 54, 1339-1355
-
(2014)
J. Chem. Inf. Model.
, vol.54
, pp. 1339-1355
-
-
Hawkins, P.C.D.1
Kelley, B.P.2
Warren, G.L.3
-
48
-
-
0027918556
-
Water: Now You See It, Now You Don't
-
Levitt, M.; Park, B. H. Water: Now You See It, Now You Don't Structure 1993, 1, 223-226
-
(1993)
Structure
, vol.1
, pp. 223-226
-
-
Levitt, M.1
Park, B.H.2
-
49
-
-
0033954256
-
The Protein Data Bank
-
Berman, H. M.; Westbrook, J.; Feng, Z.; Gilliland, G.; Bhat, T. N.; Weissig, H.; Shindyalov, I. N.; Bourne, P. E. The Protein Data Bank Nucleic Acids Res. 2000, 28, 235-242
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
50
-
-
14644420979
-
The Uppsala Electron-Density Server
-
Kleywegt, G. J.; Harris, M. R.; Zou, J. Y.; Taylor, T. C.; Wählby, A.; Jones, T. A. The Uppsala Electron-Density Server Acta Crystallogr. D. Biol. Crystallogr. 2004, 60, 2240-2249
-
(2004)
Acta Crystallogr. D. Biol. Crystallogr.
, vol.60
, pp. 2240-2249
-
-
Kleywegt, G.J.1
Harris, M.R.2
Zou, J.Y.3
Taylor, T.C.4
Wählby, A.5
Jones, T.A.6
-
51
-
-
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. Cheminform. 2014, 6, 12
-
(2014)
J. Cheminform.
, vol.6
, pp. 12
-
-
Bietz, S.1
Urbaczek, S.2
Schulz, B.3
Rarey, M.4
-
52
-
-
4444221565
-
UCSF Chimera - A Visualization System for Exploratory Research and Analysis
-
Pettersen, E. F.; Goddard, T. D.; Huang, C. C.; Couch, G. S.; Greenblatt, D. M.; Meng, E. C.; Ferrin, T. E. UCSF Chimera - a Visualization System for Exploratory Research and Analysis J. Comput. Chem. 2004, 25, 1605-1612
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
53
-
-
0037306916
-
The Refined Crystal Structure of an Eel Pout Type III Antifreeze Protein RD1 at 0.62-A Resolution Reveals Structural Microheterogeneity of Protein and Solvation
-
Ko, T.-P.; Robinson, H.; Gao, Y.-G.; Cheng, C.-H. C.; DeVries, A. L.; Wang, A. H.-J. The Refined Crystal Structure of an Eel Pout Type III Antifreeze Protein RD1 at 0.62-A Resolution Reveals Structural Microheterogeneity of Protein and Solvation Biophys. J. 2003, 84, 1228-1237
-
(2003)
Biophys. J.
, vol.84
, pp. 1228-1237
-
-
Ko, T.-P.1
Robinson, H.2
Gao, Y.-G.3
Cheng, C.-H.C.4
DeVries, A.L.5
Wang, A.H.-J.6
-
55
-
-
0033081137
-
How Many Water Molecules Can Be Detected by Protein Crystallography?
-
Carugo, O.; Bordo, D. How Many Water Molecules Can Be Detected by Protein Crystallography? Acta Crystallogr. Sect. D Biol. Crystallogr. 1999, 55, 479-483
-
(1999)
Acta Crystallogr. Sect. D Biol. Crystallogr.
, vol.55
, pp. 479-483
-
-
Carugo, O.1
Bordo, D.2
-
56
-
-
0030991939
-
Are There Hydrogen Bonds in Supercritical Water?
-
Hoffmann, M. M.; Conradi, M. S. Are There Hydrogen Bonds in Supercritical Water? J. Am. Chem. Soc. 1997, 119, 3811-3817
-
(1997)
J. Am. Chem. Soc.
, vol.119
, pp. 3811-3817
-
-
Hoffmann, M.M.1
Conradi, M.S.2
-
57
-
-
2442545593
-
Site-site Pair Correlation Functions of Water from 25 to 400 C: Revised Analysis of New and Old Diffraction Data
-
Soper, A. K.; Bruni, F.; Ricci, M. A. Site-site Pair Correlation Functions of Water from 25 to 400 C: Revised Analysis of New and Old Diffraction Data J. Chem. Phys. 1997, 106, 247
-
(1997)
J. Chem. Phys.
, vol.106
, pp. 247
-
-
Soper, A.K.1
Bruni, F.2
Ricci, M.A.3
-
58
-
-
2342558053
-
The Structure of the First Coordination Shell in Liquid Water
-
Wernet, P.; Nordlund, D.; Bergmann, U.; Cavalleri, M.; Odelius, M.; Ogasawara, H.; Näslund, L. A.; Hirsch, T. K.; Ojamäe, L.; Glatzel, P.; Pettersson, L. G. M.; Nilsson, A. The Structure of the First Coordination Shell in Liquid Water Science 2004, 304, 995-999
-
(2004)
Science
, vol.304
, pp. 995-999
-
-
Wernet, P.1
Nordlund, D.2
Bergmann, U.3
Cavalleri, M.4
Odelius, M.5
Ogasawara, H.6
Näslund, L.A.7
Hirsch, T.K.8
Ojamäe, L.9
Glatzel, P.10
Pettersson, L.G.M.11
Nilsson, A.12
-
59
-
-
0021766921
-
Cavities in Proteins: Structure of a Metmyoglobin Xenon Complex Solved to 1.9.ANG
-
Tilton, R. F.; Kuntz, I. D.; Petsko, G. A. Cavities in Proteins: Structure of a Metmyoglobin Xenon Complex Solved to 1.9.ANG Biochemistry 1984, 23, 2849-2857
-
(1984)
Biochemistry
, vol.23
, pp. 2849-2857
-
-
Tilton, R.F.1
Kuntz, I.D.2
Petsko, G.A.3
-
60
-
-
0002306796
-
Exploring Hydrophobic Sites in Proteins with Xenon or Krypton
-
Prangé, T.; Schiltz, M.; Pernot, L.; Colloc'h, N.; Longhi, S.; Bourguet, W.; Fourme, R. Exploring Hydrophobic Sites in Proteins with Xenon or Krypton Proteins 1998, 30, 61-73
-
(1998)
Proteins
, vol.30
, pp. 61-73
-
-
Prangé, T.1
Schiltz, M.2
Pernot, L.3
Colloc'h, N.4
Longhi, S.5
Bourguet, W.6
Fourme, R.7
-
61
-
-
0346753473
-
Use of Noble Gases Xenon and Krypton as Heavy Atoms in Protein Structure Determination
-
Schiltz, M.; Fourme, R.; Prangé, T. Use of Noble Gases Xenon and Krypton as Heavy Atoms in Protein Structure Determination Methods Enzymol. 2003, 374, 83-119
-
(2003)
Methods Enzymol.
, vol.374
, pp. 83-119
-
-
Schiltz, M.1
Fourme, R.2
Prangé, T.3
-
62
-
-
0028095182
-
Buried Waters and Internal Cavities in Monomeric Proteins
-
Williams, M. A.; Goodfellow, J. M.; Thornton, J. M. Buried Waters and Internal Cavities in Monomeric Proteins Protein Sci. 1994, 3, 1224-1235
-
(1994)
Protein Sci.
, vol.3
, pp. 1224-1235
-
-
Williams, M.A.1
Goodfellow, J.M.2
Thornton, J.M.3
-
63
-
-
80051662513
-
S66: A Well-Balanced Database of Benchmark Interaction Energies Relevant to Biomolecular Structures
-
Rezáč, J.; Riley, K. E.; Hobza, P. S66: A Well-Balanced Database of Benchmark Interaction Energies Relevant to Biomolecular Structures J. Chem. Theory Comput. 2011, 7, 2427-2438
-
(2011)
J. Chem. Theory Comput.
, vol.7
, pp. 2427-2438
-
-
Rezáč, J.1
Riley, K.E.2
Hobza, P.3
-
64
-
-
0023645203
-
Interior and Surface of Monomeric Proteins
-
Miller, S.; Janin, J.; Lesk, A. M.; Chothia, C. Interior and Surface of Monomeric Proteins J. Mol. Biol. 1987, 196, 641-656
-
(1987)
J. Mol. Biol.
, vol.196
, pp. 641-656
-
-
Miller, S.1
Janin, J.2
Lesk, A.M.3
Chothia, C.4
-
65
-
-
0035876479
-
Protein Surface Amino Acid Compositions Distinctively Differ between Thermophilic and Mesophilic Bacteria
-
Fukuchi, S.; Nishikawa, K. Protein Surface Amino Acid Compositions Distinctively Differ between Thermophilic and Mesophilic Bacteria J. Mol. Biol. 2001, 309, 835-843
-
(2001)
J. Mol. Biol.
, vol.309
, pp. 835-843
-
-
Fukuchi, S.1
Nishikawa, K.2
-
66
-
-
34250845103
-
Metastable Water Clusters in the Nonpolar Cavities of the Thermostable Protein Tetrabrachion
-
Yin, H.; Hummer, G.; Rasaiah, J. C. Metastable Water Clusters in the Nonpolar Cavities of the Thermostable Protein Tetrabrachion J. Am. Chem. Soc. 2007, 129, 7369-7377
-
(2007)
J. Am. Chem. Soc.
, vol.129
, pp. 7369-7377
-
-
Yin, H.1
Hummer, G.2
Rasaiah, J.C.3
-
67
-
-
10344238615
-
Water Clusters in Nonpolar Cavities
-
Vaitheeswaran, S.; Yin, H.; Rasaiah, J. C.; Hummer, G. Water Clusters in Nonpolar Cavities Proc. Natl. Acad. Sci. U. S. A. 2004, 101, 17002-17005
-
(2004)
Proc. Natl. Acad. Sci. U. S. A.
, vol.101
, pp. 17002-17005
-
-
Vaitheeswaran, S.1
Yin, H.2
Rasaiah, J.C.3
Hummer, G.4
|