-
1
-
-
33646559968
-
The paradoxical thermodynamic basis for the interaction of ethylene glycol, glycine, and sarcosine chains with bovine carbonic anhydrase II: an unexpected manifestation of enthalpy/entropy compensation
-
Krishnamurthy V.M., Bohall B.R., Semetey V., Whitesides G.M. The paradoxical thermodynamic basis for the interaction of ethylene glycol, glycine, and sarcosine chains with bovine carbonic anhydrase II: an unexpected manifestation of enthalpy/entropy compensation. J. Am. Chem. Soc. 2006, 128:5802-5812.
-
(2006)
J. Am. Chem. Soc.
, vol.128
, pp. 5802-5812
-
-
Krishnamurthy, V.M.1
Bohall, B.R.2
Semetey, V.3
Whitesides, G.M.4
-
2
-
-
67349109896
-
More than a simple lipophilic contact: a detailed thermodynamic analysis of nonbasic residues in the S1 pocket of thrombin
-
Baum B., Mohamed M., Zayed M., Gerlach C., Heine A., Hangauer D., Klebe G. More than a simple lipophilic contact: a detailed thermodynamic analysis of nonbasic residues in the S1 pocket of thrombin. J. Mol. Biol. 2009, 390:56-69.
-
(2009)
J. Mol. Biol.
, vol.390
, pp. 56-69
-
-
Baum, B.1
Mohamed, M.2
Zayed, M.3
Gerlach, C.4
Heine, A.5
Hangauer, D.6
Klebe, G.7
-
3
-
-
67651174267
-
Think twice: understanding the high potency of bis(phenyl)methane inhibitors of thrombin
-
Baum B., Muley L., Heine A., Smolinski M., Hangauer D., Klebe G. Think twice: understanding the high potency of bis(phenyl)methane inhibitors of thrombin. J. Mol. Biol. 2009, 391:552-564.
-
(2009)
J. Mol. Biol.
, vol.391
, pp. 552-564
-
-
Baum, B.1
Muley, L.2
Heine, A.3
Smolinski, M.4
Hangauer, D.5
Klebe, G.6
-
4
-
-
74149083849
-
Adding calorimetric data to decision making in lead discovery: a hot tip
-
Ladbury J.E., Klebe G., Freire E. Adding calorimetric data to decision making in lead discovery: a hot tip. Nat. Rev. Drug Discov. 2010, 9:23-27.
-
(2010)
Nat. Rev. Drug Discov.
, vol.9
, pp. 23-27
-
-
Ladbury, J.E.1
Klebe, G.2
Freire, E.3
-
5
-
-
36148970033
-
Thermodynamic inhibition profile of a cyclopentyl and a cyclohexyl derivative towards thrombin: the same but for different reasons
-
Gerlach C., Smolinski M., Steuber H., Sotriffer C.A., Heine A., Hangauer D., Klebe G. Thermodynamic inhibition profile of a cyclopentyl and a cyclohexyl derivative towards thrombin: the same but for different reasons. Angew. Chem. Int. Ed. Engl. 2007, 46:8511-8514.
-
(2007)
Angew. Chem. Int. Ed. Engl.
, vol.46
, pp. 8511-8514
-
-
Gerlach, C.1
Smolinski, M.2
Steuber, H.3
Sotriffer, C.A.4
Heine, A.5
Hangauer, D.6
Klebe, G.7
-
6
-
-
49149124735
-
Structure of thermolysin
-
Matthews B.W., Colman P.M., Jansonius J.N., Titani K., Walsh K.A., Neurath H. Structure of thermolysin. Nat. New Biol. 1972, 238:41-43.
-
(1972)
Nat. New Biol.
, vol.238
, pp. 41-43
-
-
Matthews, B.W.1
Colman, P.M.2
Jansonius, J.N.3
Titani, K.4
Walsh, K.A.5
Neurath, H.6
-
7
-
-
0014212886
-
The specificities of various neutral and alkaline proteinases from microorganisms
-
Morihara K. The specificities of various neutral and alkaline proteinases from microorganisms. Biochem. Biophys. Res. Commun. 1967, 26:656-661.
-
(1967)
Biochem. Biophys. Res. Commun.
, vol.26
, pp. 656-661
-
-
Morihara, K.1
-
8
-
-
0015152594
-
The role of calcium in thermolysin: effect on kinetic properties and autodigestion
-
Drucker H., Borchers S.L. The role of calcium in thermolysin: effect on kinetic properties and autodigestion. Arch. Biochem. Biophys. 1971, 147:242-248.
-
(1971)
Arch. Biochem. Biophys.
, vol.147
, pp. 242-248
-
-
Drucker, H.1
Borchers, S.L.2
-
9
-
-
0021780973
-
The design and properties of N-carboxyalkyldipeptide inhibitors of angiotensin-converting enzyme
-
Patchett A.A., Cordes E.H. The design and properties of N-carboxyalkyldipeptide inhibitors of angiotensin-converting enzyme. Adv. Enzymol. Relat. Areas Mol. Biol. 1985, 57:1-84.
-
(1985)
Adv. Enzymol. Relat. Areas Mol. Biol.
, vol.57
, pp. 1-84
-
-
Patchett, A.A.1
Cordes, E.H.2
-
10
-
-
29244438204
-
Structural analysis of silanediols as transition-state-analogue inhibitors of the benchmark metalloprotease thermolysin
-
Juers D.H., Kim J., Matthews B.W., Sieburth S.M. Structural analysis of silanediols as transition-state-analogue inhibitors of the benchmark metalloprotease thermolysin. Biochemistry 2005, 44:16524-16528.
-
(2005)
Biochemistry
, vol.44
, pp. 16524-16528
-
-
Juers, D.H.1
Kim, J.2
Matthews, B.W.3
Sieburth, S.M.4
-
11
-
-
0026455197
-
Mechanistic studies on the human matrix metalloproteinase stromelysin
-
Harrison R.K., Chang B., Niedzwiecki L., Stein R.L. Mechanistic studies on the human matrix metalloproteinase stromelysin. Biochemistry 1992, 31:10757-10762.
-
(1992)
Biochemistry
, vol.31
, pp. 10757-10762
-
-
Harrison, R.K.1
Chang, B.2
Niedzwiecki, L.3
Stein, R.L.4
-
12
-
-
0001651169
-
Design and therapeutic application of matrix metalloproteinase inhibitors
-
Whittaker M., Floyd C.D., Brown P., Gearing A.J. Design and therapeutic application of matrix metalloproteinase inhibitors. Chem. Rev. 1999, 99:2735-2776.
-
(1999)
Chem. Rev.
, vol.99
, pp. 2735-2776
-
-
Whittaker, M.1
Floyd, C.D.2
Brown, P.3
Gearing, A.J.4
-
13
-
-
0032442820
-
Molecular modelling and site-directed mutagenesis of the active site of endothelin-converting enzyme
-
Sansom C.E., Hoang M.V., Turner A.J. Molecular modelling and site-directed mutagenesis of the active site of endothelin-converting enzyme. Protein Eng. 1998, 11:1235-1241.
-
(1998)
Protein Eng.
, vol.11
, pp. 1235-1241
-
-
Sansom, C.E.1
Hoang, M.V.2
Turner, A.J.3
-
14
-
-
0023040231
-
Crystallographic structural analysis of phosphoramidates as inhibitors and transition-state analogs of thermolysin
-
Tronrud D.E., Monzingo A.F., Matthews B.W. Crystallographic structural analysis of phosphoramidates as inhibitors and transition-state analogs of thermolysin. Eur. J. Biochem. 1986, 157:261-268.
-
(1986)
Eur. J. Biochem.
, vol.157
, pp. 261-268
-
-
Tronrud, D.E.1
Monzingo, A.F.2
Matthews, B.W.3
-
15
-
-
0023667724
-
Slow- and fast-binding inhibitors of thermolysin display different modes of binding: crystallographic analysis of extended phosphonamidate transition-state analogues
-
Holden H.M., Tronrud D.E., Monzingo A.F., Weaver L.H., Matthews B.W. Slow- and fast-binding inhibitors of thermolysin display different modes of binding: crystallographic analysis of extended phosphonamidate transition-state analogues. Biochemistry 1987, 26:8542-8553.
-
(1987)
Biochemistry
, vol.26
, pp. 8542-8553
-
-
Holden, H.M.1
Tronrud, D.E.2
Monzingo, A.F.3
Weaver, L.H.4
Matthews, B.W.5
-
16
-
-
0023491806
-
Phosphorus-containing peptide analogs as peptidase inhibitors
-
Bartlett P.A., Marlowe C.K., Giannousis P.P., Hanson J.E. Phosphorus-containing peptide analogs as peptidase inhibitors. Cold Spring Harbor Symp. Quant. Biol. 1987, 52:83-90.
-
(1987)
Cold Spring Harbor Symp. Quant. Biol.
, vol.52
, pp. 83-90
-
-
Bartlett, P.A.1
Marlowe, C.K.2
Giannousis, P.P.3
Hanson, J.E.4
-
17
-
-
0021113924
-
Phosphonamidates as transition-state analogue inhibitors of thermolysin
-
Bartlett P.A., Marlowe C.K. Phosphonamidates as transition-state analogue inhibitors of thermolysin. Biochemistry 1983, 22:4618-4624.
-
(1983)
Biochemistry
, vol.22
, pp. 4618-4624
-
-
Bartlett, P.A.1
Marlowe, C.K.2
-
18
-
-
0023121559
-
Structures of two thermolysin-inhibitor complexes that differ by a single hydrogen bond
-
Tronrud D.E., Holden H.M., Matthews B.W. Structures of two thermolysin-inhibitor complexes that differ by a single hydrogen bond. Science 1987, 235:571-574.
-
(1987)
Science
, vol.235
, pp. 571-574
-
-
Tronrud, D.E.1
Holden, H.M.2
Matthews, B.W.3
-
19
-
-
0017400132
-
A crystallographic study of the complex of phosphoramidon with thermolysin. A model for the presumed catalytic transition state and for the binding of extended substances
-
Weaver L.H., Kester W.R., Matthews B.W. A crystallographic study of the complex of phosphoramidon with thermolysin. A model for the presumed catalytic transition state and for the binding of extended substances. J. Mol. Biol. 1977, 114:119-132.
-
(1977)
J. Mol. Biol.
, vol.114
, pp. 119-132
-
-
Weaver, L.H.1
Kester, W.R.2
Matthews, B.W.3
-
21
-
-
47249120797
-
Why are dimethyl sulfoxide and dimethyl sulfone such good solvents?
-
Clark T., Murray J.S., Lane P., Politzer P. Why are dimethyl sulfoxide and dimethyl sulfone such good solvents?. J. Mol. Model. 2008, 14:689-697.
-
(2008)
J. Mol. Model.
, vol.14
, pp. 689-697
-
-
Clark, T.1
Murray, J.S.2
Lane, P.3
Politzer, P.4
-
23
-
-
0016619961
-
Studies on inhibitory effect of phosphoramidon and its analogs on thermolysin
-
Komiyama T., Suda H., Aoyagi T., Takeuchi T., Umezawa H. Studies on inhibitory effect of phosphoramidon and its analogs on thermolysin. Arch. Biochem. Biophys. 1975, 171:727-731.
-
(1975)
Arch. Biochem. Biophys.
, vol.171
, pp. 727-731
-
-
Komiyama, T.1
Suda, H.2
Aoyagi, T.3
Takeuchi, T.4
Umezawa, H.5
-
24
-
-
77953092035
-
Fragment-based lead discovery: screening and optimizing fragments for thermolysin inhibition
-
Englert L., Silber K., Steuber H., Brass S., Over B., Gerber H.D., Heine A., Diederich W.E., Klebe G. Fragment-based lead discovery: screening and optimizing fragments for thermolysin inhibition. ChemMedChem 2010, 5:930-940.
-
(2010)
ChemMedChem
, vol.5
, pp. 930-940
-
-
Englert, L.1
Silber, K.2
Steuber, H.3
Brass, S.4
Over, B.5
Gerber, H.D.6
Heine, A.7
Diederich, W.E.8
Klebe, G.9
-
25
-
-
0000433140
-
Prediction of solvation free energies of small organic molecules: additive-constitutive models based on molecular fingerprints and atomic constants
-
Viswanadhan V.N., Ghose A.K., Chandra Singh U., Wendoloski J.J. Prediction of solvation free energies of small organic molecules: additive-constitutive models based on molecular fingerprints and atomic constants. J. Chem. Inf. Comput. Sci. 1999, 39:405-412.
-
(1999)
J. Chem. Inf. Comput. Sci.
, vol.39
, pp. 405-412
-
-
Viswanadhan, V.N.1
Ghose, A.K.2
Chandra Singh, U.3
Wendoloski, J.J.4
-
26
-
-
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
-
27
-
-
0017884417
-
The hydrophobic effect and the organization of living matter
-
Tanford C. The hydrophobic effect and the organization of living matter. Science 1978, 200:1012-1018.
-
(1978)
Science
, vol.200
, pp. 1012-1018
-
-
Tanford, C.1
-
28
-
-
61449156398
-
A review about nothing: are apolar cavities in proteins really empty?
-
Matthews B.W., Liu L. A review about nothing: are apolar cavities in proteins really empty?. Protein Sci. 2009, 18:494-502.
-
(2009)
Protein Sci.
, vol.18
, pp. 494-502
-
-
Matthews, B.W.1
Liu, L.2
-
29
-
-
0026189146
-
A molecular dynamics study of thermodynamic and structural aspects of the hydration of cavities in proteins
-
Wade R.C., Mazor M.H., McCammon J.A., Quiocho F.A. A molecular dynamics study of thermodynamic and structural aspects of the hydration of cavities in proteins. Biopolymers 1991, 31:919-931.
-
(1991)
Biopolymers
, vol.31
, pp. 919-931
-
-
Wade, R.C.1
Mazor, M.H.2
McCammon, J.A.3
Quiocho, F.A.4
-
30
-
-
0028093141
-
On the probability of finding a water molecule in a nonpolar cavity
-
Wolfenden R., Radzicka A. On the probability of finding a water molecule in a nonpolar cavity. Science 1994, 265:936-937.
-
(1994)
Science
, vol.265
, pp. 936-937
-
-
Wolfenden, R.1
Radzicka, A.2
-
31
-
-
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
-
32
-
-
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
-
33
-
-
55749086402
-
Use of experimental crystallographic phases to examine the hydration of polar and nonpolar cavities in T4 lysozyme
-
Liu L., Quillin M.L., Matthews B.W. Use of experimental crystallographic phases to examine the hydration of polar and nonpolar cavities in T4 lysozyme. Proc. Natl Acad. Sci. U. S. A. 2008, 105:14406-14411.
-
(2008)
Proc. Natl Acad. Sci. U. S. A.
, vol.105
, pp. 14406-14411
-
-
Liu, L.1
Quillin, M.L.2
Matthews, B.W.3
-
34
-
-
0030038545
-
Direct observation of protein solvation and discrete disorder with experimental crystallographic phases
-
Burling F.T., Weis W.I., Flaherty K.M., Brunger A.T. Direct observation of protein solvation and discrete disorder with experimental crystallographic phases. Science 1996, 271:72-77.
-
(1996)
Science
, vol.271
, pp. 72-77
-
-
Burling, F.T.1
Weis, W.I.2
Flaherty, K.M.3
Brunger, A.T.4
-
35
-
-
23944481864
-
Van der Waals interactions dominate ligand-protein association in a protein binding site occluded from solvent water
-
Barratt E., Bingham R.J., Warner D.J., Laughton C.A., Phillips S.E., Homans S.W. Van der Waals interactions dominate ligand-protein association in a protein binding site occluded from solvent water. J. Am. Chem. Soc. 2005, 127:11827-11834.
-
(2005)
J. Am. Chem. Soc.
, vol.127
, pp. 11827-11834
-
-
Barratt, E.1
Bingham, R.J.2
Warner, D.J.3
Laughton, C.A.4
Phillips, S.E.5
Homans, S.W.6
-
36
-
-
34447108978
-
Water, water everywhere-except where it matters?
-
Homans S.W. Water, water everywhere-except where it matters?. Drug Discovery Today 2007, 12:534-539.
-
(2007)
Drug Discovery Today
, vol.12
, pp. 534-539
-
-
Homans, S.W.1
-
37
-
-
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, 104:808-813.
-
(2007)
Proc. Natl Acad. Sci. U. S. A.
, vol.104
, pp. 808-813
-
-
Young, T.1
Abel, R.2
Kim, B.3
Berne, B.J.4
Friesner, R.A.5
-
38
-
-
10944261243
-
Understanding noncovalent interactions: ligand binding energy and catalytic efficiency from ligand-induced reductions in motion within receptors and enzymes
-
Williams D.H., Stephens E., O'Brien D.P., Zhou M. Understanding noncovalent interactions: ligand binding energy and catalytic efficiency from ligand-induced reductions in motion within receptors and enzymes. Angew. Chem. Int. Ed. Engl. 2004, 43:6596-6616.
-
(2004)
Angew. Chem. Int. Ed. Engl.
, vol.43
, pp. 6596-6616
-
-
Williams, D.H.1
Stephens, E.2
O'Brien, D.P.3
Zhou, M.4
-
39
-
-
0020462668
-
Structure of thermolysin refined at 1.6 A resolution
-
Holmes M.A., Matthews B.W. Structure of thermolysin refined at 1.6 A resolution. J. Mol. Biol. 1982, 160:623-639.
-
(1982)
J. Mol. Biol.
, vol.160
, pp. 623-639
-
-
Holmes, M.A.1
Matthews, B.W.2
-
40
-
-
0031059866
-
-
Academic Press, C.W. Carter (Ed.)
-
Otwinowski Z., Minor W. Methods Enzymol. 1997, Vol. 276:307-326. Academic Press. C.W. Carter (Ed.).
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
41
-
-
3543012707
-
Crystallography & NMR system: a new software suite for macromolecular structure determination
-
Brunger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., Jiang J.S., Kuszewski J., Nilges M., Pannu N.S., Read R.J., Rice L.M., Simonson T., Warren G.L. Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr., Sect. D: Biol. Crystallogr. 1998, 54:905-921.
-
(1998)
Acta Crystallogr., Sect. D: Biol. Crystallogr.
, vol.54
, pp. 905-921
-
-
Brunger, A.T.1
Adams, P.D.2
Clore, G.M.3
DeLano, W.L.4
Gros, P.5
Grosse-Kunstleve, R.W.6
Jiang, J.S.7
Kuszewski, J.8
Nilges, M.9
Pannu, N.S.10
Read, R.J.11
Rice, L.M.12
Simonson, T.13
Warren, G.L.14
-
42
-
-
0030880598
-
-
Academic Press, W.C.J. Charles, M.S. Robert (Eds.)
-
Sheldrick G.M., Schneider T.R. Methods Enzymol. 1997, Vol. 277:319-343. Academic Press. W.C.J. Charles, M.S. Robert (Eds.).
-
(1997)
Methods Enzymol.
, vol.277
, pp. 319-343
-
-
Sheldrick, G.M.1
Schneider, T.R.2
-
44
-
-
0000252066
-
The gamma-turn. Evidence for a new folded conformation in proteins
-
Matthews B.W. The gamma-turn. Evidence for a new folded conformation in proteins. Macromolecules 1972, 5:818-819.
-
(1972)
Macromolecules
, vol.5
, pp. 818-819
-
-
Matthews, B.W.1
-
45
-
-
0000541786
-
Some methods for examining the interactions between two molecules
-
Sheriff S. Some methods for examining the interactions between two molecules. Immunomethods 1993, 3:191-196.
-
(1993)
Immunomethods
, vol.3
, pp. 191-196
-
-
Sheriff, S.1
-
46
-
-
0023660979
-
Structure of myohemerythrin in the azidomet state at 1.7/1.3 A resolution
-
Sheriff S., Hendrickson W.A., Smith J.L. Structure of myohemerythrin in the azidomet state at 1.7/1.3 A resolution. J. Mol. Biol. 1987, 197:273-296.
-
(1987)
J. Mol. Biol.
, vol.197
, pp. 273-296
-
-
Sheriff, S.1
Hendrickson, W.A.2
Smith, J.L.3
-
47
-
-
33646056411
-
A quenched fluorescent dipeptide for assaying dispase- and thermolysin-like proteases
-
Weimer S., Oertel K., Fuchsbauer H.L. A quenched fluorescent dipeptide for assaying dispase- and thermolysin-like proteases. Anal. Biochem. 2006, 352:110-119.
-
(2006)
Anal. Biochem.
, vol.352
, pp. 110-119
-
-
Weimer, S.1
Oertel, K.2
Fuchsbauer, H.L.3
-
49
-
-
0000243829
-
PROCHECK: a program to check the stereochemical quality of protein structures
-
Laskowski R.A., MacArthur M.W., Moss D.S., Thornton J.M. PROCHECK: a program to check the stereochemical quality of protein structures. J. Appl. Crystallogr 1993, 26:283-291.
-
(1993)
J. Appl. Crystallogr
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
MacArthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
50
-
-
0024356301
-
Rapid measurement of binding constants and heats of binding using a new titration calorimeter
-
Wiseman T., Williston S., Brandts J.F., Lin L.N. Rapid measurement of binding constants and heats of binding using a new titration calorimeter. Anal. Biochem. 1989, 179:131-137.
-
(1989)
Anal. Biochem.
, vol.179
, pp. 131-137
-
-
Wiseman, T.1
Williston, S.2
Brandts, J.F.3
Lin, L.N.4
|